fix command not found

bgruening · Oct 4, 2019 · 3338a28 · 3338a28
1 parent 1ded532
commit 3338a28
Showing 1 changed file with 3 additions and 3 deletions.
diff --git a/galaxy/startup.sh b/galaxy/startup.sh
@@ -425,21 +425,21 @@ if [[ ! -z $GALAXY_DEFAULT_ADMIN_USER ]]
         if [ -x /export/post-start-actions.sh ]
             then
            # uses ephemeris, present in docker-galaxy-stable, to wait for the local instance
-           galaxy-wait -g http://127.0.0.1 -v --timeout 120 > $GALAXY_LOGS_DIR/post-start-actions.log &&
+           /tool_deps/_conda/bin/galaxy-wait -g http://127.0.0.1 -v --timeout 120 > $GALAXY_LOGS_DIR/post-start-actions.log &&
            /export/post-start-actions.sh >> $GALAXY_LOGS_DIR/post-start-actions.log &
     fi
 fi
 
 # Reinstall tools if the user want to
 if [[ ! -z $GALAXY_AUTO_UPDATE_TOOLS ]]
     then
-        galaxy-wait -g http://127.0.0.1 -v --timeout 120 > /home/galaxy/logs/post-start-actions.log &&
+        /tool_deps/_conda/bin/galaxy-wait -g http://127.0.0.1 -v --timeout 120 > /home/galaxy/logs/post-start-actions.log &&
         OLDIFS=$IFS
         IFS=','
         for TOOL_YML in `echo "$GALAXY_AUTO_UPDATE_TOOLS"`
         do
             echo "Installing tools from $TOOL_YML"
-            shed-tools install -g "http://127.0.0.1" -a "$GALAXY_DEFAULT_ADMIN_KEY" -t "$TOOL_YML"
+            /tool_deps/_conda/bin/shed-tools install -g "http://127.0.0.1" -a "$GALAXY_DEFAULT_ADMIN_KEY" -t "$TOOL_YML"
             /tool_deps/_conda/bin/conda clean --tarballs --yes
         done
         IFS=$OLDIFS