/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep10-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep10-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep110-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep110-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep111-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep111-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep112-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep112-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep113-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep113-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep114-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep114-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep115-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep115-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep116-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep116-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep117-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep117-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep118-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep118-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep119-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep119-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep11-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep11-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep120-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep120-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep121-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep121-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep122-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep122-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep123-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep123-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep124-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep124-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep125-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep125-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep126-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep126-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep127-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep127-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep128-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep128-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep129-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep129-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep12-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep12-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep130-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep130-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep13-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep13-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep14-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep14-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep15-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep15-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep16-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep16-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep17-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep17-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep18-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep18-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep19-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep1/adult_rep19-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep20-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep20-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep210-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep210-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep211-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep211-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep212-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep212-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep213-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep213-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep214-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep214-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep215-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep215-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep216-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep216-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep217-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep217-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep218-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep218-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep219-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep219-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep21-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep21-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep220-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep220-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep221-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep221-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep222-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep222-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep223-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep223-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep224-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep224-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep225-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep225-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep226-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep226-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep227-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep227-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep228-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep228-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep229-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep229-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep22-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep22-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep230-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep230-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep231-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep231-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep232-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep232-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep233-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep233-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep234-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep234-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep235-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep235-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep236-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep236-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep237-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep237-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep238-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep238-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep239-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep239-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep23-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep23-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep240-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep240-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep241-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep241-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep242-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep242-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep243-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep243-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep244-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep244-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep245-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep245-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep246-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep246-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep247-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep247-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep248-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep248-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep249-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep249-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep24-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep24-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep250-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep250-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep251-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep251-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep252-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep252-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep253-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep253-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep254-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep254-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep255-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep255-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep256-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep256-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep257-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep257-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep258-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep258-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep259-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep259-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep25-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep25-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep260-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep260-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep261-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep261-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep262-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep262-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep263-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep263-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep264-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep264-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep265-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep265-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep266-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep266-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep267-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep267-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep268-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep268-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep269-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep269-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep26-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep26-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep270-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep270-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep271-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep271-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep272-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep272-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep27-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep27-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep28-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep28-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep29-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/adult_rep2/adult_rep29-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep10-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep10-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep110-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep110-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep111-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep111-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep112-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep112-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep113-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep113-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep114-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep114-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep115-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep115-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep116-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep116-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep117-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep117-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep118-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep118-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep119-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep119-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep11-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep11-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep120-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep120-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep121-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep121-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep122-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep122-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep123-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep123-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep124-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep124-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep125-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep125-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep126-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep126-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep127-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep127-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep128-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep128-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep129-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep129-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep12-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep12-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep130-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep130-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep131-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep131-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep132-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep132-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep133-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep133-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep134-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep134-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep135-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep135-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep136-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep136-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep137-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep137-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep138-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep138-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep139-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep139-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep13-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep13-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep140-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep140-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep141-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep141-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep142-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep142-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep14-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep14-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep15-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep15-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep16-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep16-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep17-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep17-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep18-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep18-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep19-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep1/L1_rep19-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep20-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep20-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep210-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep210-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep211-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep211-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep212-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep212-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep213-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep213-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep214-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep214-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep215-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep215-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep216-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep216-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep217-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep217-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep218-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep218-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep219-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep219-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep21-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep21-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep220-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep220-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep221-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep221-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep222-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep222-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep223-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep223-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep224-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep224-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep225-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep225-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep226-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep226-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep227-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep227-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep228-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep228-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep229-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep229-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep22-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep22-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep230-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep230-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep231-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep231-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep232-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep232-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep233-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep233-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep234-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep234-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep235-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep235-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep236-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep236-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep237-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep237-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep238-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep238-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep239-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep239-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep23-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep23-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep240-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep240-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep241-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep241-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep242-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep242-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep243-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep243-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep244-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep244-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep245-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep245-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep246-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep246-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep247-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep247-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep248-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep248-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep249-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep249-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep24-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep24-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep250-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep250-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep251-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep251-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep252-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep252-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep253-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep253-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep254-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep254-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep255-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep255-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep256-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep256-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep257-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep257-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep258-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep258-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep259-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep259-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep25-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep25-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep260-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep260-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep261-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep261-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep262-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep262-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep263-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep263-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep264-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep264-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep265-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep265-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep266-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep266-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep267-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep267-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep268-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep268-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep269-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep269-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep26-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep26-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep270-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep270-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep271-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep271-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep272-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep272-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep273-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep273-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep274-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep274-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep275-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep275-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep276-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep276-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep277-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep277-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep278-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep278-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep279-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep279-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep27-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep27-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep280-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep280-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep281-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep281-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep282-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep282-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep283-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep283-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep284-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep284-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep285-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep285-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep286-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep286-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep287-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep287-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep288-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep288-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep289-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep289-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep28-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep28-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep290-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep290-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep29-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L1_rep2/L1_rep29-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep10-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep10-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep110-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep110-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep111-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep111-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep112-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep112-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep113-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep113-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep114-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep114-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep115-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep115-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep116-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep116-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep117-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep117-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep11-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep11-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep12-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep12-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep13-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep13-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep14-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep14-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep15-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep15-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep16-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep16-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep17-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep17-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep18-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep18-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep19-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep1/L2_rep19-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep20-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep20-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep2100-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep2100-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep2101-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep2101-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep2102-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep2102-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep2103-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep2103-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep2104-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep2104-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep2105-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep2105-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep2106-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep2106-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep2107-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep2107-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep2108-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep2108-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep210-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep210-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep211-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep211-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep212-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep212-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep213-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep213-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep214-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep214-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep215-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep215-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep216-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep216-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep217-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep217-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep218-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep218-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep219-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep219-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep21-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep21-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep220-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep220-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep221-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep221-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep222-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep222-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep223-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep223-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep224-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep224-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep225-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep225-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep226-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep226-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep227-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep227-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep228-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep228-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep229-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep229-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep22-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep22-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep230-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep230-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep231-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep231-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep232-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep232-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep233-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep233-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep234-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep234-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep235-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep235-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep236-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep236-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep237-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep237-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep238-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep238-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep239-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep239-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep23-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep23-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep240-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep240-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep241-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep241-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep242-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep242-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep243-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep243-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep244-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep244-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep245-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep245-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep246-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep246-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep247-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep247-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep248-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep248-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep249-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep249-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep24-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep24-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep250-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep250-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep251-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep251-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep252-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep252-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep253-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep253-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep254-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep254-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep255-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep255-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep256-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep256-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep257-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep257-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep258-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep258-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep259-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep259-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep25-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep25-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep260-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep260-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep261-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep261-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep262-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep262-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep263-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep263-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep264-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep264-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep265-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep265-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep266-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep266-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep267-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep267-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep268-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep268-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep269-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep269-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep26-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep26-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep270-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep270-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep271-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep271-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep272-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep272-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep273-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep273-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep274-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep274-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep275-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep275-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep276-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep276-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep277-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep277-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep278-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep278-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep279-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep279-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep27-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep27-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep280-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep280-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep281-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep281-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep282-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep282-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep283-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep283-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep284-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep284-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep285-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep285-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep286-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep286-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep287-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep287-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep288-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep288-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep289-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep289-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep28-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep28-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep290-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep290-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep291-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep291-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep292-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep292-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep293-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep293-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep294-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep294-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep295-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep295-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep296-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep296-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep297-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep297-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep298-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep298-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep299-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep299-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep29-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L2_rep2/L2_rep29-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep10-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep10-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep110-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep110-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep111-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep111-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep112-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep112-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep113-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep113-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep114-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep114-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep115-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep115-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep116-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep116-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep117-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep117-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep118-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep118-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep119-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep119-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep11-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep11-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep120-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep120-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep121-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep121-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep122-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep122-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep123-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep123-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep124-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep124-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep125-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep125-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep126-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep126-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep127-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep127-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep128-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep128-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep129-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep129-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep12-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep12-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep130-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep130-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep131-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep131-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep132-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep132-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep133-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep133-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep134-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep134-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep135-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep135-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep136-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep136-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep137-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep137-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep138-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep138-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep139-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep139-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep13-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep13-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep140-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep140-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep14-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep14-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep15-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep15-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep16-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep16-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep17-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep17-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep18-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep18-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep19-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep1/L3_rep19-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep20-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep20-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep210-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep210-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep211-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep211-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep212-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep212-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep213-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep213-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep214-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep214-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep215-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep215-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep216-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep216-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep217-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep217-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep218-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep218-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep219-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep219-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep21-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep21-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep220-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep220-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep221-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep221-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep222-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep222-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep223-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep223-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep224-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep224-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep225-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep225-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep226-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep226-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep227-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep227-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep228-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep228-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep229-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep229-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep22-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep22-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep230-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep230-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep231-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep231-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep232-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep232-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep233-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep233-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep234-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep234-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep235-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep235-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep236-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep236-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep237-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep237-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep238-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep238-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep239-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep239-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep23-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep23-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep240-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep240-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep241-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep241-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep242-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep242-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep243-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep243-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep244-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep244-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep245-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep245-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep246-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep246-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep247-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep247-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep248-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep248-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep249-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep249-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep24-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep24-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep250-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep250-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep251-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep251-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep252-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep252-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep253-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep253-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep254-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep254-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep255-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep255-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep256-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep256-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep257-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep257-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep258-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep258-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep259-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep259-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep25-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep25-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep260-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep260-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep261-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep261-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep262-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep262-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep263-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep263-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep264-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep264-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep265-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep265-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep266-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep266-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep267-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep267-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep268-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep268-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep269-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep269-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep26-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep26-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep270-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep270-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep271-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep271-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep272-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep272-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep273-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep273-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep274-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep274-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep275-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep275-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep276-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep276-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep277-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep277-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep278-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep278-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep279-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep279-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep27-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep27-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep280-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep280-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep281-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep281-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep282-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep282-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep283-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep283-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep284-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep284-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep285-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep285-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep286-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep286-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep287-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep287-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep288-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep288-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep289-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep289-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep28-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep28-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep290-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep290-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep291-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep291-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep292-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep292-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep293-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep293-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep294-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep294-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep295-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep295-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep296-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep296-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep297-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep297-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep298-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep298-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep29-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L3_rep2/L3_rep29-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep10-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep10-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep110-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep110-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep111-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep111-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep112-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep112-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep113-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep113-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep114-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep114-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep115-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep115-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep116-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep116-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep117-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep117-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep118-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep118-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep119-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep119-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep11-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep11-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep120-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep120-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep121-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep121-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep122-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep122-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep123-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep123-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep124-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep124-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep125-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep125-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep126-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep126-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep127-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep127-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep128-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep128-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep129-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep129-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep12-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep12-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep130-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep130-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep131-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep131-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep132-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep132-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep133-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep133-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep134-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep134-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep135-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep135-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep136-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep136-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep137-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep137-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep138-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep138-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep139-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep139-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep13-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep13-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep140-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep140-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep141-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep141-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep142-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep142-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep143-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep143-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep144-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep144-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep145-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep145-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep146-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep146-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep147-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep147-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep148-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep148-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep149-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep149-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep14-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep14-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep150-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep150-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep151-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep151-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep15-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep15-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep16-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep16-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep17-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep17-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep18-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep18-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep19-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep1/L4_rep19-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep10-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep10-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep110-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep110-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep111-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep111-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep112-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep112-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep113-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep113-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep114-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep114-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep115-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep115-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep116-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep116-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep117-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep117-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep118-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep118-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep119-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep119-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep11-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep11-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep120-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep120-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep121-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep121-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep122-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep122-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep123-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep123-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep124-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep124-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep125-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep125-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep126-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep126-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep127-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep127-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep128-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep128-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep129-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep129-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep12-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep12-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep130-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep130-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep131-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep131-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep132-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep132-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep133-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep133-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep134-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep134-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep135-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep135-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep136-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep136-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep137-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep137-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep138-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep138-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep139-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep139-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep13-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep13-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep140-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep140-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep141-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep141-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep142-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep142-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep143-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep143-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep144-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep144-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep145-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep145-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep146-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep146-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep147-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep147-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep148-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep148-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep149-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep149-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep14-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep14-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep150-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep150-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep151-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep151-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep152-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep152-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep153-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep153-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep154-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep154-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep155-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep155-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep156-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep156-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep157-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep157-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep158-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep158-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep159-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep159-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep15-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep15-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep160-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep160-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep161-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep161-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep162-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep162-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep163-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep163-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep164-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep164-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep165-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep165-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep166-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep166-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep167-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep167-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep168-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep168-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep169-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep169-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep16-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep16-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep170-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep170-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep17-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep17-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep18-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep18-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep19-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep1/male_rep19-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep10-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep10-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1100-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1100-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1101-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1101-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1102-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1102-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1103-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1103-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1104-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1104-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1105-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1105-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1106-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1106-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1107-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1107-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1108-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1108-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1109-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1109-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep110-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep110-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1110-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1110-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1111-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1111-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1112-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1112-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1113-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1113-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1114-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1114-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1115-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1115-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1116-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1116-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1117-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1117-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1118-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1118-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1119-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1119-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep111-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep111-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1120-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1120-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1121-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1121-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1122-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1122-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1123-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1123-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1124-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1124-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1125-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep1125-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep112-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep112-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep113-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep113-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep114-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep114-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep115-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep115-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep116-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep116-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep117-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep117-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep118-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep118-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep119-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep119-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep11-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep11-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep120-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep120-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep121-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep121-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep122-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep122-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep123-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep123-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep124-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep124-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep125-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep125-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep126-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep126-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep127-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep127-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep128-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep128-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep129-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep129-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep12-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep12-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep130-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep130-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep131-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep131-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep132-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep132-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep133-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep133-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep134-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep134-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep135-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep135-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep136-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep136-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep137-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep137-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep138-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep138-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep139-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep139-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep13-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep13-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep140-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep140-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep141-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep141-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep142-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep142-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep143-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep143-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep144-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep144-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep145-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep145-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep146-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep146-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep147-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep147-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep148-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep148-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep149-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep149-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep14-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep14-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep150-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep150-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep151-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep151-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep152-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep152-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep153-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep153-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep154-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep154-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep155-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep155-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep156-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep156-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep157-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep157-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep158-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep158-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep159-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep159-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep15-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep15-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep160-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep160-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep161-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep161-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep162-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep162-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep163-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep163-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep164-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep164-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep165-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep165-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep166-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep166-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep167-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep167-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep168-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep168-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep169-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep169-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep16-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep16-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep170-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep170-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep171-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep171-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep172-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep172-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep173-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep173-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep174-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep174-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep175-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep175-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep176-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep176-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep177-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep177-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep178-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep178-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep179-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep179-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep17-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep17-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep180-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep180-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep181-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep181-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep182-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep182-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep183-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep183-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep184-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep184-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep185-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep185-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep186-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep186-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep187-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep187-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep188-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep188-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep189-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep189-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep18-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep18-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep190-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep190-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep191-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep191-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep192-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep192-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep193-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep193-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep194-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep194-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep195-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep195-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep196-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep196-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep197-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep197-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep198-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep198-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep199-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep199-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep19-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep1/young_adult_rep19-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep2/young_adult_rep20-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep2/young_adult_rep20-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep2/young_adult_rep210-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep2/young_adult_rep210-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep2/young_adult_rep21-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep2/young_adult_rep21-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep2/young_adult_rep22-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep2/young_adult_rep22-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep2/young_adult_rep23-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep2/young_adult_rep23-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep2/young_adult_rep24-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep2/young_adult_rep24-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep2/young_adult_rep25-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep2/young_adult_rep25-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep2/young_adult_rep26-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep2/young_adult_rep26-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep2/young_adult_rep27-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep2/young_adult_rep27-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep2/young_adult_rep28-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep2/young_adult_rep28-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep2/young_adult_rep29-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/young_adult_rep2/young_adult_rep29-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---0-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---0-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---1-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---1-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---10-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---10-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---11-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---11-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---12-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---12-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---13-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---13-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---14-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---14-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---15-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---15-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---16-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---16-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---17-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---17-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---18-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---18-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---19-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---19-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---2-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---2-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---20-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---20-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---21-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---21-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---22-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---22-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---23-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---23-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---24-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---24-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---25-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---25-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---26-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---26-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---27-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---27-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---28-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---28-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---29-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---29-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---3-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---3-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---30-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---30-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---31-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---31-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---32-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---32-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---33-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---33-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---4-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---4-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---5-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---5-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---6-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---6-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---7-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---7-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---8-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---8-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---9-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/L4_rep2/L4_rep2---9-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---0-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---0-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---1-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---1-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---10-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---10-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---11-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---11-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---12-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---12-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---13-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---13-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---14-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---14-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---15-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---15-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---16-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---16-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---17-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---17-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---18-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---18-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---19-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---19-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---2-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---2-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---20-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---20-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---21-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---21-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---22-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---22-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---23-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---23-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---24-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---24-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---25-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---25-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---26-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---26-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---27-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---27-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---28-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---28-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---29-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---29-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---3-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---3-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---30-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---30-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---31-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---31-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---32-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---32-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---33-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---33-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---34-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---34-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---35-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---35-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---36-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---36-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---37-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---37-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---38-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---38-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---39-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---39-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---4-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---4-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---40-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---40-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---41-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---41-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---42-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---42-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---43-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---43-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---44-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---44-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---45-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---45-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---46-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---46-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---47-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---47-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---48-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---48-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---49-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---49-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---5-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---5-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---50-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---50-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---51-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---51-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---52-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---52-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---6-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---6-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---7-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---7-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---8-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---8-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---9-multiFAST5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/05-C.elegans-PRJEB31791/male_rep2/male_rep2---9-multiFAST5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none