From 6ec9dcc365b899f7f4aaab739103f4559c2c1620 Mon Sep 17 00:00:00 2001
From: Muriithi Frederick Muriuki
Date: Mon, 5 Feb 2018 16:19:13 +0300
Subject: Check each part of the PYTHONPATH

* PYTHONPATH may be composed of multiple locations in the filesystem,
  thus the need to test that each location exists and is a directory.
---
 bin/genenetwork2 | 6 +++++-
 1 file changed, 5 insertions(+), 1 deletion(-)

diff --git a/bin/genenetwork2 b/bin/genenetwork2
index 34fbc72e..145ce395 100755
--- a/bin/genenetwork2
+++ b/bin/genenetwork2
@@ -126,7 +126,11 @@ else
     export PYLMM_COMMAND="$GN2_PROFILE/bin/pylmm_redis"
     export GEMMA_COMMAND="$GN2_PROFILE/bin/gemma"
     export GEMMA_WRAPPER_COMMAND="$GN2_PROFILE/bin/gemma-wrapper"
-    if [ ! -d $PYTHONPATH ] ; then echo "PYTHONPATH not valid "$PYTHONPATH ; exit 1 ; fi
+    while IFS=":" read -ra PPATH; do
+	for PPart in "${PPATH[@]}"; do
+	    if [ ! -d $PPart ] ; then echo "PYTHONPATH not valid "$PYTHONPATH ; exit 1 ; fi
+	done
+    done <<< "$PYTHONPATH"
     if [ ! -d $R_LIBS_SITE ] ; then echo "R_LIBS_SITE not valid "$R_LIBS_SITE ; exit 1 ; fi
     if [ ! -d $GEM_PATH ] ; then echo "GEM_PATH not valid "$GEM_PATH ; exit 1 ; fi
 fi
-- 
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