diff --git a/tools/sr_mapping/bfast_wrapper.xml b/tools/sr_mapping/bfast_wrapper.xml index 65fa785c740..e05ab88bdba 100644 --- a/tools/sr_mapping/bfast_wrapper.xml +++ b/tools/sr_mapping/bfast_wrapper.xml @@ -1,7 +1,7 @@ bfast_wrapper.py - --numThreads="4" ##HACK: hardcode numThreads for now, should come from a location file + --numThreads="\${GALAXY_SLOTS:-4}" --fastq="$input1" #if $input1.extension.startswith( "fastqcs" ): ##if extention starts with fastqcs, then we have a color space file