diff --git a/dge_workflow/dge_utils.sh b/dge_workflow/dge_utils.sh index 5db922bc45c188a247c5f6f6e5b0e5526a08ecf6..216be8f4e180e988e50a61fe1685b76bff21abbf 100755 --- a/dge_workflow/dge_utils.sh +++ b/dge_workflow/dge_utils.sh @@ -27,9 +27,20 @@ export PATH=/home/brandl/bin/subread-1.4.6-p3-Linux-x86_64/bin:$PATH #export PATH=/home/brandl/bin/STAR/STAR-STAR_2.4.1d/source:$PATH export PATH=/home/brandl/bin/STAR-2.5.0b/source:$PATH -export PATH=$PATH:/projects/bioinfo/scripts/joblist_v0.5-SNAPSHOT -#export PATH=/projects/bioinfo/scripts/joblist_v0.5-SNAPSHOT:$PATH -#eval "$(jl shortcuts)" + +## add cluster job manager +export PATH=/projects/bioinfo/scripts/joblist_v0.5:$PATH + +## backward compatibility wrappers for old shell cluster utils +joblist(){ + jl add $* +} +export -f joblist + +wait4jobs(){ + jl wait $* +} +export -f wait4jobs ## also add spinr export PATH=$PATH:/projects/bioinfo/scripts/spinr