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--- calcmem.sh.orig 2024-12-10 19:13:48 UTC
+++ calcmem.sh
@@ -78,26 +78,6 @@ function setEnvironment(){
if [[ "$SHIFTER_RUNTIME" = "1" ]]; then
#Ignore NERSC_HOST
shifter=1
- elif [ -z "$EC2_HOME" ]; then
- #Let's assume this is the AWS taxonomy server...
- PATH=/test1/binaries/bgzip:$PATH
- PATH=/test1/binaries/lbzip2/bin:$PATH
- PATH=/test1/binaries/sambamba:$PATH
- #PATH=/test1/binaries/java/jdk-11.0.2/bin:$PATH
- PATH=/test1/binaries/pigz2/pigz-2.4:$PATH
- elif [ -z "$NERSC_HOST" ]; then
- #Not NERSC; do nothing
- :
- elif [ -z "$NERSC_HOST" ]; then
- #Not NERSC; do nothing
- :
- else
- PATH=/global/cfs/cdirs/bbtools/bgzip:$PATH
- PATH=/global/cfs/cdirs/bbtools/lbzip2/bin:$PATH
- PATH=/global/cfs/cdirs/bbtools/samtools116/samtools-1.16.1:$PATH
- #PATH=/global/projectb/sandbox/gaag/bbtools/sambamba:$PATH
- PATH=/global/cfs/cdirs/bbtools/java/jdk-17/bin:$PATH
- PATH=/global/cfs/cdirs/bbtools/pigz2/pigz-2.4:$PATH
fi
}
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