-
Notifications
You must be signed in to change notification settings - Fork 7
/
Copy pathwork_log_run_alchemist_b9
26 lines (13 loc) · 5.19 KB
/
work_log_run_alchemist_b9
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
#perl somaticwrapper.pl --rdir /storage1/fs1/songcao/Active/Project/GDAN/Alchemist/somatic/b9 --log /storage1/fs1/songcao/Active/Project/GDAN/Alchemist/somatic/b9.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/cancer_gene_list_cell_uniq.tsv --users songcao --groupname SomaticWXS --step 1
perl somaticwrapper.pl --rdir /storage1/fs1/dinglab/Active/Projects/scao/alchemist/somatic/b9 --log /storage1/fs1/dinglab/Active/Projects/scao/alchemist/somatic/b9.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/cancer_gene_list_cell_uniq.tsv --users songcao --groupname SomaticWXS --step 2 --sre 1
#perl somaticwrapper.pl --rdir /storage1/fs1/songcao/Active/Project/GDAN/Alchemist/somatic/b9 --log /storage1/fs1/songcao/Active/Project/GDAN/Alchemist/somatic/b9.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/cancer_gene_list_cell_uniq.tsv --users songcao --groupname SomaticWXS --step 3
perl somaticwrapper.pl --rdir /storage1/fs1/dinglab/Active/Projects/scao/alchemist/somatic/b9 --log /storage1/fs1/dinglab/Active/Projects/scao/alchemist/somatic/b9.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/cancer_gene_list_cell_uniq.tsv --users songcao --groupname SomaticWXS --step 4 --sre 1
#perl somaticwrapper.pl --rdir /storage1/fs1/songcao/Active/Project/GDAN/Alchemist/somatic/b9 --log /storage1/fs1/songcao/Active/Project/GDAN/Alchemist/somatic/b9.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/cancer_gene_list_cell_uniq.tsv --users songcao --groupname SomaticWXS --step 5
#perl somaticwrapper.pl --rdir /storage1/fs1/songcao/Active/Project/GDAN/Alchemist/somatic/b9 --log /storage1/fs1/songcao/Active/Project/GDAN/Alchemist/somatic/b9.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/cancer_gene_list_cell_uniq.tsv --users songcao --groupname SomaticWXS --step 6
#perl somaticwrapper.pl --rdir /storage1/fs1/songcao/Active/Project/GDAN/Alchemist/somatic/b9 --log /storage1/fs1/songcao/Active/Project/GDAN/Alchemist/somatic/b9.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/cancer_gene_list_cell_uniq.tsv --users songcao --groupname SomaticWXS --step 7
#perl somaticwrapper.pl --rdir /storage1/fs1/songcao/Active/Project/GDAN/Alchemist/somatic/b9 --log /storage1/fs1/songcao/Active/Project/GDAN/Alchemist/somatic/b9.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/cancer_gene_list_cell_uniq.tsv --users songcao --groupname SomaticWXS --step 8
#perl somaticwrapper.pl --rdir /storage1/fs1/songcao/Active/Project/GDAN/Alchemist/somatic/b9 --log /storage1/fs1/songcao/Active/Project/GDAN/Alchemist/somatic/b9.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/cancer_gene_list_cell_uniq.tsv --users songcao --groupname SomaticWXS --step 9
#perl somaticwrapper.pl --rdir /storage1/fs1/songcao/Active/Project/GDAN/Alchemist/somatic/b9 --log /storage1/fs1/songcao/Active/Project/GDAN/Alchemist/somatic/b9.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/cancer_gene_list_cell_uniq.tsv --users songcao --groupname SomaticWXS --step 10
#perl somaticwrapper.pl --rdir /storage1/fs1/songcao/Active/Project/GDAN/Alchemist/somatic/b9 --log /storage1/fs1/songcao/Active/Project/GDAN/Alchemist/somatic/b9.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/cancer_gene_list_cell_uniq.tsv --users songcao --groupname SomaticWXS --step 11
#perl somaticwrapper.pl --rdir /storage1/fs1/songcao/Active/Project/GDAN/Alchemist/somatic/b9 --log /storage1/fs1/songcao/Active/Project/GDAN/Alchemist/somatic/b9.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/cancer_gene_list_cell_uniq.tsv --users songcao --groupname SomaticWXS --step 12
#perl somaticwrapper.pl --rdir /storage1/fs1/songcao/Active/Project/GDAN/Alchemist/somatic/b9 --log /storage1/fs1/songcao/Active/Project/GDAN/Alchemist/somatic/b9.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/cancer_gene_list_cell_uniq.tsv --users songcao --groupname SomaticWXS --step 13