/oak/stanford/groups/akundaje/marinovg/programs/minimap2-2.17_x64-linux/minimap2  -ax map-ont /oak/stanford/groups/akundaje/marinovg/genomes/TAIR10/bowtie-indexes/Arabidopsis_thaliana.TAIR10.19.fixed.transcriptome.fa fio1_1_fast5_pass.fastq > fio1_1_fast5_pass.sam 2>&1 | tee fio1_1_fast5_pass.minimap.logfile.txt
/oak/stanford/groups/akundaje/marinovg/programs/minimap2-2.17_x64-linux/minimap2  -ax map-ont /oak/stanford/groups/akundaje/marinovg/genomes/TAIR10/bowtie-indexes/Arabidopsis_thaliana.TAIR10.19.fixed.transcriptome.fa fio1_2_fast5_pass.fastq > fio1_2_fast5_pass.sam 2>&1 | tee fio1_2_fast5_pass.minimap.logfile.txt
/oak/stanford/groups/akundaje/marinovg/programs/minimap2-2.17_x64-linux/minimap2  -ax map-ont /oak/stanford/groups/akundaje/marinovg/genomes/TAIR10/bowtie-indexes/Arabidopsis_thaliana.TAIR10.19.fixed.transcriptome.fa wt_fast5_pass.fastq > wt_fast5_pass.sam 2>&1 | tee wt_fast5_pass.minimap.logfile.txt