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work_log_run_ctspkirc
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work_log_run_ctspkirc
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perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/ctspkirc --log /scratch1/fs1/dinglab/scao/sw/ctspkirc.log --ref /storage1/fs1/songcao/Active/Database/hg38_database/GRCh38.d1.vd1/GRCh38.d1.vd1.fa --q dinglab --smg /storage1/fs1/songcao/Active/Database/smg_database/smg.bailey.cell.kirc.tsv --users songcao --groupname SomaticWXS --step 1
perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/ctspkirc --log /scratch1/fs1/dinglab/scao/sw/ctspkirc.log --ref /storage1/fs1/songcao/Active/Database/hg38_database/GRCh38.d1.vd1/GRCh38.d1.vd1.fa --q general --smg /storage1/fs1/songcao/Active/Database/smg_database/smg.bailey.cell.kirc.tsv --users songcao --groupname SomaticWXS --step 2
perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/ctspkirc --log /scratch1/fs1/dinglab/scao/sw/ctspkirc.log --ref /storage1/fs1/songcao/Active/Database/hg38_database/GRCh38.d1.vd1/GRCh38.d1.vd1.fa --q general --smg /storage1/fs1/songcao/Active/Database/smg_database/smg.bailey.cell.kirc.tsv --users songcao --groupname SomaticWXS --step 3
perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/ctspkirc --log /scratch1/fs1/dinglab/scao/sw/ctspkirc.log --ref /storage1/fs1/songcao/Active/Database/hg38_database/GRCh38.d1.vd1/GRCh38.d1.vd1.fa --q general --smg /storage1/fs1/songcao/Active/Database/smg_database/smg.bailey.cell.kirc.tsv --users songcao --groupname SomaticWXS --step 4
perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/ctspkirc --log /scratch1/fs1/dinglab/scao/sw/ctspkirc.log --ref /storage1/fs1/songcao/Active/Database/hg38_database/GRCh38.d1.vd1/GRCh38.d1.vd1.fa --q general --smg /storage1/fs1/songcao/Active/Database/smg_database/smg.bailey.cell.kirc.tsv --users songcao --groupname SomaticWXS --step 5
perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/ctspkirc --log /scratch1/fs1/dinglab/scao/sw/ctspkirc.log --ref /storage1/fs1/songcao/Active/Database/hg38_database/GRCh38.d1.vd1/GRCh38.d1.vd1.fa --q general --smg /storage1/fs1/songcao/Active/Database/smg_database/smg.bailey.cell.kirc.tsv --users songcao --groupname SomaticWXS --step 6 --sre 1
perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/ctspkirc --log /scratch1/fs1/dinglab/scao/sw/ctspkirc.log --ref /storage1/fs1/songcao/Active/Database/hg38_database/GRCh38.d1.vd1/GRCh38.d1.vd1.fa --q general --smg /storage1/fs1/songcao/Active/Database/smg_database/smg.bailey.cell.kirc.tsv --users songcao --groupname SomaticWXS --step 7
perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/ctspkirc --log /scratch1/fs1/dinglab/scao/sw/ctspkirc.log --ref /storage1/fs1/songcao/Active/Database/hg38_database/GRCh38.d1.vd1/GRCh38.d1.vd1.fa --q general --smg /storage1/fs1/songcao/Active/Database/smg_database/smg.bailey.cell.kirc.tsv --users songcao --groupname SomaticWXS --step 8
perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/ctspkirc --log /scratch1/fs1/dinglab/scao/sw/ctspkirc.log --ref /storage1/fs1/songcao/Active/Database/hg38_database/GRCh38.d1.vd1/GRCh38.d1.vd1.fa --q general --smg /storage1/fs1/songcao/Active/Database/smg_database/smg.bailey.cell.kirc.tsv --users songcao --groupname SomaticWXS --step 9
perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/ctspkirc --log /scratch1/fs1/dinglab/scao/sw/ctspkirc.log --ref /storage1/fs1/songcao/Active/Database/hg38_database/GRCh38.d1.vd1/GRCh38.d1.vd1.fa --q general --smg /storage1/fs1/songcao/Active/Database/smg_database/smg.bailey.cell.kirc.tsv --users songcao --groupname SomaticWXS --sre 1 --step 10
perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/ctspkirc --log /scratch1/fs1/dinglab/scao/sw/ctspkirc.log --ref /storage1/fs1/songcao/Active/Database/hg38_database/GRCh38.d1.vd1/GRCh38.d1.vd1.fa --q general --smg /storage1/fs1/songcao/Active/Database/smg_database/smg.bailey.cell.kirc.tsv --users songcao --groupname SomaticWXS --sre 1 --step 11
perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/ctspkirc --log /scratch1/fs1/dinglab/scao/sw/ctspkirc.log --ref /storage1/fs1/songcao/Active/Database/hg38_database/GRCh38.d1.vd1/GRCh38.d1.vd1.fa --q general --smg /storage1/fs1/songcao/Active/Database/smg_database/smg.bailey.cell.kirc.tsv --users songcao --groupname SomaticWXS --sre 1 --step 12
perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/ctspkirc --log /scratch1/fs1/dinglab/scao/sw/ctspkirc.log --ref /storage1/fs1/songcao/Active/Database/hg38_database/GRCh38.d1.vd1/GRCh38.d1.vd1.fa --q general --smg /storage1/fs1/songcao/Active/Database/smg_database/smg.bailey.cell.kirc.tsv --users songcao --groupname SomaticWXS --sre 1 --step 13
perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/ctspkirc.unfinished --log /scratch1/fs1/dinglab/scao/sw/ctspkirc.unfinished.log --ref /storage1/fs1/songcao/Active/Database/hg38_database/GRCh38.d1.vd1/GRCh38.d1.vd1.fa --q general --smg /storage1/fs1/songcao/Active/Database/smg_database/smg.bailey.cell.kirc.tsv --users songcao --groupname SomaticWXS --sre 1 --step 3
perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/ctspkirc.unfinished2 --log /scratch1/fs1/dinglab/scao/sw/ctspkirc.unfinished2.log --ref /storage1/fs1/songcao/Active/Database/hg38_database/GRCh38.d1.vd1/GRCh38.d1.vd1.fa --q general --smg /storage1/fs1/songcao/Active/Database/smg_database/smg.bailey.cell.kirc.tsv --users songcao --groupname SomaticWXS --sre 1 --step 3
perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/ctspkirc.unfinished2 --log /scratch1/fs1/dinglab/scao/sw/ctspkirc.unfinished2.log --ref /storage1/fs1/songcao/Active/Database/hg38_database/GRCh38.d1.vd1/GRCh38.d1.vd1.fa --q general --smg /storage1/fs1/songcao/Active/Database/smg_database/smg.bailey.cell.kirc.tsv --users songcao --groupname SomaticWXS --sre 1 --step 8
perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/ctspkirc.unfinished2 --log /scratch1/fs1/dinglab/scao/sw/ctspkirc.unfinished2.log --ref /storage1/fs1/songcao/Active/Database/hg38_database/GRCh38.d1.vd1/GRCh38.d1.vd1.fa --q general --smg /storage1/fs1/songcao/Active/Database/smg_database/smg.bailey.cell.kirc.tsv --users songcao --groupname SomaticWXS --sre 1 --step 9
perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/ctspkirc.unfinished2 --log /scratch1/fs1/dinglab/scao/sw/ctspkirc.unfinished2.log --ref /storage1/fs1/songcao/Active/Database/hg38_database/GRCh38.d1.vd1/GRCh38.d1.vd1.fa --q general --smg /storage1/fs1/songcao/Active/Database/smg_database/smg.bailey.cell.kirc.tsv --users songcao --groupname SomaticWXS --sre 1 --step 10
perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/ctspkirc.unfinished2 --log /scratch1/fs1/dinglab/scao/sw/ctspkirc.unfinished2.log --ref /storage1/fs1/songcao/Active/Database/hg38_database/GRCh38.d1.vd1/GRCh38.d1.vd1.fa --q general --smg /storage1/fs1/songcao/Active/Database/smg_database/smg.bailey.cell.kirc.tsv --users songcao --groupname SomaticWXS --sre 1 --step 11
perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/ctspkirc.unfinished2 --log /scratch1/fs1/dinglab/scao/sw/ctspkirc.unfinished2.log --ref /storage1/fs1/songcao/Active/Database/hg38_database/GRCh38.d1.vd1/GRCh38.d1.vd1.fa --q general --smg /storage1/fs1/songcao/Active/Database/smg_database/smg.bailey.cell.kirc.tsv --users songcao --groupname SomaticWXS --sre 1 --step 12
perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/ctspkirc.unfinished2 --log /scratch1/fs1/dinglab/scao/sw/ctspkirc.unfinished2.log --ref /storage1/fs1/songcao/Active/Database/hg38_database/GRCh38.d1.vd1/GRCh38.d1.vd1.fa --q general --smg /storage1/fs1/songcao/Active/Database/smg_database/smg.bailey.cell.kirc.tsv --users songcao --groupname SomaticWXS --sre 1 --step 13
perl somaticwrapper.pl --rdir /storage1/fs1/dinglab/Active/Projects/scao/ctspkirc/sw/b1/unfinished --log /storage1/fs1/dinglab/Active/Projects/scao/ctspkirc/sw/b1/unfinished.log --ref /storage1/fs1/songcao/Active/Database/hg38_database/GRCh38.d1.vd1/GRCh38.d1.vd1.fa --q general --smg /storage1/fs1/songcao/Active/Database/smg_database/smg.bailey.cell.kirc.tsv --users songcao --groupname SomaticWXS --sre 1 --step 8
perl somaticwrapper.pl --rdir /storage1/fs1/dinglab/Active/Projects/scao/ctspkirc/sw/b1/unfinished --log /storage1/fs1/dinglab/Active/Projects/scao/ctspkirc/sw/b1/unfinished.log --ref /storage1/fs1/songcao/Active/Database/hg38_database/GRCh38.d1.vd1/GRCh38.d1.vd1.fa --q general --smg /storage1/fs1/songcao/Active/Database/smg_database/smg.bailey.cell.kirc.tsv --users songcao --groupname SomaticWXS --sre 1 --step 5
perl somaticwrapper.pl --rdir /storage1/fs1/dinglab/Active/Projects/scao/ctspkirc/sw/b1/unfinished --log /storage1/fs1/dinglab/Active/Projects/scao/ctspkirc/sw/b1/unfinished.log --ref /storage1/fs1/songcao/Active/Database/hg38_database/GRCh38.d1.vd1/GRCh38.d1.vd1.fa --q general --smg /storage1/fs1/songcao/Active/Database/smg_database/smg.bailey.cell.kirc.tsv --users songcao --groupname SomaticWXS --sre 1 --step 7
perl somaticwrapper.pl --rdir /storage1/fs1/dinglab/Active/Projects/scao/ctspkirc/sw/b1/unfinished --log /storage1/fs1/dinglab/Active/Projects/scao/ctspkirc/sw/b1/unfinished.log --ref /storage1/fs1/songcao/Active/Database/hg38_database/GRCh38.d1.vd1/GRCh38.d1.vd1.fa --q general --smg /storage1/fs1/songcao/Active/Database/smg_database/smg.bailey.cell.kirc.tsv --users songcao --groupname SomaticWXS --sre 1 --step 9
perl somaticwrapper.pl --rdir /storage1/fs1/dinglab/Active/Projects/scao/ctspkirc/sw/b1/unfinished --log /storage1/fs1/dinglab/Active/Projects/scao/ctspkirc/sw/b1/unfinished.log --ref /storage1/fs1/songcao/Active/Database/hg38_database/GRCh38.d1.vd1/GRCh38.d1.vd1.fa --q general --smg /storage1/fs1/songcao/Active/Database/smg_database/smg.bailey.cell.kirc.tsv --users songcao --groupname SomaticWXS --sre 1 --step 10
perl somaticwrapper.pl --rdir /storage1/fs1/dinglab/Active/Projects/scao/ctspkirc/sw/b1/unfinished --log /storage1/fs1/dinglab/Active/Projects/scao/ctspkirc/sw/b1/unfinished.log --ref /storage1/fs1/songcao/Active/Database/hg38_database/GRCh38.d1.vd1/GRCh38.d1.vd1.fa --q general --smg /storage1/fs1/songcao/Active/Database/smg_database/smg.bailey.cell.kirc.tsv --users songcao --groupname SomaticWXS --sre 1 --step 11
perl somaticwrapper.pl --rdir /storage1/fs1/dinglab/Active/Projects/scao/ctspkirc/sw/b1/unfinished --log /storage1/fs1/dinglab/Active/Projects/scao/ctspkirc/sw/b1/unfinished.log --ref /storage1/fs1/songcao/Active/Database/hg38_database/GRCh38.d1.vd1/GRCh38.d1.vd1.fa --q general --smg /storage1/fs1/songcao/Active/Database/smg_database/smg.bailey.cell.kirc.tsv --users songcao --groupname SomaticWXS --sre 1 --step 12
perl somaticwrapper.pl --rdir /storage1/fs1/dinglab/Active/Projects/scao/ctspkirc/sw/b1/ctspkirc --log /storage1/fs1/dinglab/Active/Projects/scao/ctspkirc/sw/b1/ctspkirc.log --ref /storage1/fs1/songcao/Active/Database/hg38_database/GRCh38.d1.vd1/GRCh38.d1.vd1.fa --q general --smg /storage1/fs1/songcao/Active/Database/smg_database/smg.bailey.cell.kirc.tsv --users songcao --groupname SomaticWXS --sre 1 --step 13