61dccdb3f1405aeee1c397b5247e673cab010911 max Thu Dec 14 05:02:54 2023 -0800 adding version.txt files to clinvar. Also starting work on the --alpha switch, but not tested yet diff --git src/hg/utils/otto/clinvar/doUpdate.sh src/hg/utils/otto/clinvar/doUpdate.sh index 442b649..a56d13d 100755 --- src/hg/utils/otto/clinvar/doUpdate.sh +++ src/hg/utils/otto/clinvar/doUpdate.sh @@ -1,11 +1,14 @@ #!/bin/bash set -o errexit -o pipefail export PATH=$PATH:/cluster/bin/x86_64/ # for bedSort and bedToBigBed cd /hive/data/outside/otto/clinvar/ -if [ "$1" == "-nocheck" ]; then +if [ "$1" == "--alpha" ]; then + ./clinVarToBed --auto --alpha + ./clinvarSubLolly 0 --alpha +elif [ "$1" == "-nocheck" ]; then ./clinVarToBed --auto ./clinvarSubLolly 0 else ./clinVarToBed --auto --maxDiff 0.1 ./clinvarSubLolly 0.1 fi