From 6d7859680241fe3eff10742397d5e626694c0f4c Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Herv=C3=A9=20=20MENAGER?= <herve.menager@pasteur.fr>
Date: Thu, 27 Jul 2017 18:09:19 +0200
Subject: [PATCH] galaxy services client, WIP
Former-commit-id: e84369db97e3de18097d56201b39ce2c4ee8ea5e
---
ippisite/ippidb/gx.py | 15 +++++++++++++++
1 file changed, 15 insertions(+)
create mode 100644 ippisite/ippidb/gx.py
diff --git a/ippisite/ippidb/gx.py b/ippisite/ippidb/gx.py
new file mode 100644
index 00000000..999004b4
--- /dev/null
+++ b/ippisite/ippidb/gx.py
@@ -0,0 +1,15 @@
+from bioblend.galaxy import GalaxyInstance
+from bioblend.galaxy.tools.inputs import inputs
+
+workflow_id = 'dad6103ff71ca4fe'
+galaxy_url = 'https://galaxy-dev.web.pasteur.fr'
+api_key = '21c2ce387688b1a785040762f7c9c331'
+
+def run_workflow_and_get_results(input_file):
+ gi = GalaxyInstance(galaxy_url, key=api_key)
+ gi.verify = False
+ history_id = gi.histories.create_history("ippidb_history")['id']
+ dataset_id = gi.tools.upload_file(input_file, history_id)['outputs'][0]['id']
+ inputs = {'0':{'id':dataset_id, 'src': 'hda' }}
+ workflow_run = gi.workflows.invoke_workflow(workflow_id, inputs=inputs, history_id=history_id)
+ print(workflow_run)
--
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