Reintroduced hack to make snappy-vcf_sort available from wrapper env.

bihealth · Apr 27, 2022 · 04bd38f · 04bd38f
1 parent c34c1ce
commit 04bd38f
Showing 1 changed file with 3 additions and 0 deletions.
diff --git 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