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work_log_run_mild_wgs
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work_log_run_mild_wgs
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perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/mildwgs --log /scratch1/fs1/dinglab/scao/sw/mildwgs.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.lung.tsv --users songcao --groupname SomaticWXS --wgs 1 --step 1
perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/mildwgs --log /scratch1/fs1/dinglab/scao/sw/mildwgs.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.lung.tsv --users songcao --groupname SomaticWXS --wgs 1 --step 2
perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/mildwgs --log /scratch1/fs1/dinglab/scao/sw/mildwgs.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.lung.tsv --users songcao --groupname SomaticWXS --wgs 1 --step 3
perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/mildwgs --log /scratch1/fs1/dinglab/scao/sw/mildwgs.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.lung.tsv --users songcao --groupname SomaticWXS --wgs 1 --step 4
perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/mildwgs --log /scratch1/fs1/dinglab/scao/sw/mildwgs.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.lung.tsv --users songcao --groupname SomaticWXS --wgs 1 --step 5
perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/mildwgs --log /scratch1/fs1/dinglab/scao/sw/mildwgs.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.lung.tsv --users songcao --groupname SomaticWXS --wgs 1 --step 6
perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/mildwgs --log /scratch1/fs1/dinglab/scao/sw/mildwgs.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.lung.tsv --users songcao --groupname SomaticWXS --wgs 1 --step 7
perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/mildwgs --log /scratch1/fs1/dinglab/scao/sw/mildwgs.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.lung.tsv --users songcao --groupname SomaticWXS --wgs 1 --step 8
perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/mildwgs --log /scratch1/fs1/dinglab/scao/sw/mildwgs.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.lung.tsv --users songcao --groupname SomaticWXS --wgs 1 --step 9
perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/mildwgs --log /scratch1/fs1/dinglab/scao/sw/mildwgs.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.lung.tsv --users songcao --groupname SomaticWXS --wgs 1 --step 10
perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/mildwgs --log /scratch1/fs1/dinglab/scao/sw/mildwgs.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.lung.tsv --users songcao --groupname SomaticWXS --wgs 1 --step 11
perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/mildwgstest --log /scratch1/fs1/dinglab/scao/sw/mildwgstest.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.lung.tsv --users songcao --groupname SomaticWXS --wgs 1 --step 11 --sre 1
perl somaticwrapper.pl --rdir /scratch1/fs1/dinglab/scao/sw/mildwgs --log /scratch1/fs1/dinglab/scao/sw/mildwgs.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.lung.tsv --users songcao --groupname SomaticWXS --wgs 1 --step 11 --sre 1