upload all workflows from workflow-is-cwl/workflows to Galaxy

start_galaxy_and_upload_material.sh

 set -m
 . /app/galaxy/.venv/bin/activate
-cwltool --pack /app/workflow-is-cwl/workflows/cmsearch-multimodel-wf.cwl > /app/workflow-is-cwl/workflows/cmsearch-multimodel-wf.packed.cwl
-cat /app/workflow-is-cwl/workflows/cmsearch-multimodel-wf.packed.cwl
+for filename in /app/workflow-is-cwl/workflows/*.cwl; do
+    cwltool --pack $filename > "$filename.packed"
+    done
 sh /app/start.sh &
 GALAXY_PID=$! 
 echo "Galaxy PID is $GALAXY_PID"

upload_material.py

 from bioblend.galaxy import GalaxyInstance
 import json
+import sys, glob
 
 BASE_URL='http://localhost:8080'
 KEY='111111111111111111111'
 gi = GalaxyInstance(url=BASE_URL, key=KEY)
-cwl_wf = json.load(open('/app/workflow-is-cwl/workflows/cmsearch-multimodel-wf.packed.cwl','r'))
-gi.workflows.import_workflow_dict(cwl_wf)
+for filename in glob.glob('/app/workflow-is-cwl/workflows/*.cwl.packed'):
+    try:
+        cwl_wf = json.load(open(filename,'r'))
+        gi.workflows.import_workflow_dict(cwl_wf)
+    except:
+        print "failed uploading %s" % filename