/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_0 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_0-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_100 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_100-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_101 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_101-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_102 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_102-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_103 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_103-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_104 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_104-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_105 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_105-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_106 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_106-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_107 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_107-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_108 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_108-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_109 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_109-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_10 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_10-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_110 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_110-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_111 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_111-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_112 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_112-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_113 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_113-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_114 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_114-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_115 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_115-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_116 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_116-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_117 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_117-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_118 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_118-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_119 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_119-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_11 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_11-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_120 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_120-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_121 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_121-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_122 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_122-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_123 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_123-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_124 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_124-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_125 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_125-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_126 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_126-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_127 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_127-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_128 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_128-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_129 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_129-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_12 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_12-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_130 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_130-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_131 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_131-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_132 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_132-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_133 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_133-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_134 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_134-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_135 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_135-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_136 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_136-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_137 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_137-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_138 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_138-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_139 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_139-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_13 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_13-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_140 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_140-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_141 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_141-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_142 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_142-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_143 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_143-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_144 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_144-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_145 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_145-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_146 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_146-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_147 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_147-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_148 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_148-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_149 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_149-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_14 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_14-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_150 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_150-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_151 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_151-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_152 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_152-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_153 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_153-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_154 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_154-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_155 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_155-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_156 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_156-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_157 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_157-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_158 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_158-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_159 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_159-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_15 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_15-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_160 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_160-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_161 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_161-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_162 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_162-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_163 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_163-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_164 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_164-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_165 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_165-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_166 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_166-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_167 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_167-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_168 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_168-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_169 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_169-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_16 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_16-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_170 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_170-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_171 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_171-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_172 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_172-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_173 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_173-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_174 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_174-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_175 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_175-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_176 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_176-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_177 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_177-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_178 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_178-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_179 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_179-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_17 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_17-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_180 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_180-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_181 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_181-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_182 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_182-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_183 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_183-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_184 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_184-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_185 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_185-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_186 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_186-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_187 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_187-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_188 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_188-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_189 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_189-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_18 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_18-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_190 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_190-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_191 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_191-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_192 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_192-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_193 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_193-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_194 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_194-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_195 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_195-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_196 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_196-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_197 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_197-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_198 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_198-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_199 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_199-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_19 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_19-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_1 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_1-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_200 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_200-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_201 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_201-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_202 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_202-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_203 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_203-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_204 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_204-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_205 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_205-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_206 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_206-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_207 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_207-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_208 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_208-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_209 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_209-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_20 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_20-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_210 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_210-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_211 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_211-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_212 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_212-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_213 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_213-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_214 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_214-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_215 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_215-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_216 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_216-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_217 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_217-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_218 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_218-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_219 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_219-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_21 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_21-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_220 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_220-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_221 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_221-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_222 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_222-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_223 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_223-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_224 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_224-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_225 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_225-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_226 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_226-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_227 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_227-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_228 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_228-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_229 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_229-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_22 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_22-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_230 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_230-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_231 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_231-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_232 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_232-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_233 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_233-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_234 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_234-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_235 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_235-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_236 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_236-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_237 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_237-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_238 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_238-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_239 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_239-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_23 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_23-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_240 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_240-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_241 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_241-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_242 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_242-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_243 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_243-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_244 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_244-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_245 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_245-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_246 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_246-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_247 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_247-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_248 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_248-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_249 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_249-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_24 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_24-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_250 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_250-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_251 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_251-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_252 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_252-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_253 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_253-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_254 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_254-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_255 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_255-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_256 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_256-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_257 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_257-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_258 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_258-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_259 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_259-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_25 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_25-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_260 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_260-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_261 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_261-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_262 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_262-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_263 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_263-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_264 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_264-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_265 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_265-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_266 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_266-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_267 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_267-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_268 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_268-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_269 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_269-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_26 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_26-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_270 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_270-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_271 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_271-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_272 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_272-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_273 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_273-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_274 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_274-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_275 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_275-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_276 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_276-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_277 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_277-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_278 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_278-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_279 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_279-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_27 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_27-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_280 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_280-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_281 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_281-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_282 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_282-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_283 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_283-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_284 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_284-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_285 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_285-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_286 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_286-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_287 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_287-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_288 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_288-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_289 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_289-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_28 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_28-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_290 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_290-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_291 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_291-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_292 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_292-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_293 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_293-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_294 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_294-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_295 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_295-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_296 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_296-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_297 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_297-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_298 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_298-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_299 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_299-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_29 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_29-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_2 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_2-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_300 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_300-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_301 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_301-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_302 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_302-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_303 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_303-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_304 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_304-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_305 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_305-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_306 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_306-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_307 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_307-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_308 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_308-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_309 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_309-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_30 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_30-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_310 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_310-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_311 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_311-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_312 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_312-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_31 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_31-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_32 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_32-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_33 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_33-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_34 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_34-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_35 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_35-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_36 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_36-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_37 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_37-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_38 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_38-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_39 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_39-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_3 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_3-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_40 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_40-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_41 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_41-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_42 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_42-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_43 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_43-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_44 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_44-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_45 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_45-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_46 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_46-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_47 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_47-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_48 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_48-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_49 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_49-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_4 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_4-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_50 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_50-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_51 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_51-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_52 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_52-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_53 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_53-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_54 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_54-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_55 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_55-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_56 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_56-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_57 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_57-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_58 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_58-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_59 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_59-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_60 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_60-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_61 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_61-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_62 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_62-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_63 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_63-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_64 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_64-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_65 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_65-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_66 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_66-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_67 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_67-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_68 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_68-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_69 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_69-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_6 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_6-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_70 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_70-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_71 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_71-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_72 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_72-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_73 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_73-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_74 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_74-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_75 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_75-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_76 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_76-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_77 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_77-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_78 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_78-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_79 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_79-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_7 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_7-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_80 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_80-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_81 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_81-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_82 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_82-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_83 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_83-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_84 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_84-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_85 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_85-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_86 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_86-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_87 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_87-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_88 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_88-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_89 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_89-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_8 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_8-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_90 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_90-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_91 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_91-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_92 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_92-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_93 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_93-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_94 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_94-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_95 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_95-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_96 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_96-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_97 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_97-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_98 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_98-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_99 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_99-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_9 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/Ptr-WT-SDX-20200827/Ptr-WT-SDX-20200827/WT-SDX-1/20200827_1222_MN31984_FAO12668_628d5030/fast5_pass/FAO12668_pass_e3eeb967_9-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/0 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/0-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/1 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/1-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/10 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/10-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/11 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/11-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/12 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/12-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/13 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/13-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/14 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/14-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/15 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/15-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/16 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/16-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/17 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/17-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/18 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/18-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/19 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/19-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/2 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/2-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/20 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/20-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/21 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/21-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/22 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/22-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/23 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/23-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/24 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/24-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/25 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/25-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/26 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/26-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/27 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/27-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/28 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/28-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/29 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/29-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/3 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/3-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/30 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/30-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/31 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/31-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/32 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/32-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/33 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/33-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/34 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/34-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/35 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/35-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/36 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/36-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/37 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/37-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/38 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/38-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/39 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/39-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/4 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/4-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/40 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/40-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/41 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/41-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/42 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/42-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/43 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/43-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/44 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/44-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/45 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/45-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/46 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/46-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/47 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/47-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/48 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/48-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/49 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/49-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/50 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/50-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/51 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/51-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/52 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/52-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/53 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/53-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/54 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/54-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/55 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/55-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/56 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/56-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/57 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/57-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/58 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/58-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/59 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/59-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/6 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/6-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/60 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/60-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/61 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/61-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/62 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/62-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/63 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/63-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/64 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/64-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/65 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/65-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/66 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/66-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/67 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/67-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/68 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/68-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/69 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/69-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/7 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/7-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/70 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/70-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/71 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/71-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/72 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/72-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/73 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/73-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/74 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/74-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/75 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/75-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/76 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/76-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/77 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/77-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/78 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/78-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/79 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/79-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/8 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/8-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/80 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/80-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/81 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/81-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/82 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/82-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/83 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/83-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/84 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/84-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/85 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/85-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/86 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/86-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/87 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/87-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/88 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/88-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/89 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/89-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/9 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/9-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/90 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/20180715-NPL0183-I1/20180715-NPL0183-I1/GA10000/reads/90-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/0 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/0-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/1 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/1-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/10 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/10-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/11 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/11-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/12 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/12-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/13 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/13-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/14 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/14-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/15 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/15-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/16 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/16-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/17 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/17-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/18 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/18-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/19 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/19-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/2 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/2-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/20 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/20-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/21 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/21-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/22 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/22-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/23 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/23-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/24 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/24-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/25 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/25-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/26 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/26-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/27 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/27-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/28 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/28-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/29 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/29-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/3 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/3-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/30 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/30-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/31 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/31-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/32 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/32-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/33 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/33-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/34 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/34-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/35 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/35-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/36 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/36-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/37 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/37-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/38 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/38-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/39 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/39-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/4 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/4-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/40 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/40-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/41 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/41-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/42 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/42-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/43 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/43-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/44 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/44-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/45 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/45-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/46 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/46-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/47 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/47-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/48 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/48-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/49 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/49-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/5 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/5-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/50 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/50-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/51 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/51-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/52 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/52-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/53 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/53-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/54 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/54-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/55 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/55-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/56 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/56-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/57 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/57-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/58 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/58-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/59 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/59-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/6 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/6-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/60 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/60-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/61 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/61-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/62 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/62-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/63 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/63-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/64 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/64-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/65 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/65-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/66 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/66-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/67 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/67-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/68 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/68-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/69 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/69-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/7 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/7-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/70 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/70-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/71 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/71-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/72 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/72-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/73 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/73-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/74 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/74-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/75 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/75-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/76 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/76-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/77 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/77-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/78 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/78-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/79 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/79-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/8 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/8-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/80 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/80-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/81 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/81-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/82 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/82-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/83 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/83-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/84 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/84-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/85 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/85-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/86 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/86-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/87 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/87-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/88 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/88-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/89 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/89-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/9 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/9-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none 
/oak/stanford/groups/akundaje/marinovg/programs/ont-guppy-cpu_6.0.1_linux64/bin/guppy_basecaller -i /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/90 -s  /oak/stanford/groups/akundaje/marinovg/various/2022-10-07-direct-RNA-pA/20-Populus_trichocarpa/poplar_guppy_recall/poplar_guppy_recall/workspace/90-out --cpu_threads_per_caller 5 --config rna_r9.4.1_70bps_hac.cfg --recursive --fast5_out --trim_strategy none