diff --git a/snappy_wrappers/wrappers/freebayes/wrapper.py b/snappy_wrappers/wrappers/freebayes/wrapper.py index b150dbf5c..26aef5aa2 100644 --- a/snappy_wrappers/wrappers/freebayes/wrapper.py +++ b/snappy_wrappers/wrappers/freebayes/wrapper.py @@ -61,6 +61,9 @@ # Export library export LD_LIBRARY_PATH=$(dirname $(which bgzip))/../lib +# Hack: get back bin directory of base/root environment +export PATH=$PATH:$(dirname $(dirname $(which conda)))/bin + export TMPDIR=$(mktemp -d) trap "rm -rf $TMPDIR" EXIT