cleaning up

naumenko-sa · Sep 30, 2019 · 75eaba7 · 75eaba7
1 parent 98e8a1a
commit 75eaba7
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Showing 5 changed files with 1 addition and 151 deletions.
diff --git a/cre.bcbio.custom_genome.sh b/cre.bcbio.custom_genome.sh
diff --git a/cre.bcbio.upgrade.sh b/cre.bcbio.upgrade.sh
diff --git a/cre.bcbio.upgrade.star.sh b/cre.bcbio.upgrade.star.sh
diff --git a/cre.bcbio.upgrade.star.sh.o47757114 b/cre.bcbio.upgrade.star.sh.o47757114
diff --git a/cre.vcf2cre.sh b/cre.vcf2cre.sh
@@ -25,7 +25,7 @@
 ##INFO=<ID=DP,Number=1,Type=Integer,Description="Approximate read depth; some reads may have been filtered">
 # gunzip -c 331606_S1.flt.nochr.vcf.gz | grep -v "^#"  | grep PASS | sed s/":DPI:"/":DP:"awk -F ':' '{print $0"\tDP="$9}' | awk -F "\t" '{print $1"\t"$2"\t"$3"\t"$4"\t"$5"\t"$6"\t"$7"\t"$11";"$8"\t"$9"\t"$10}' >> 331606.vcf
 
-. /hpf/largeprojects/ccmbio/naumenko/tools/bcbio_1.1.5/.test_profile
+. /hpf/largeprojects/ccmbio/naumenko/tools/bcbio_1.1.5/.profile115
 
 bname=`basename $original_vcf .vcf.gz`