From e2fe74196f0cb22c44fb12fb4c7611052aa4e4d1 Mon Sep 17 00:00:00 2001
From: Loraine Gueguen <loraine.gueguen@sb-roscoff.fr>
Date: Thu, 3 Jun 2021 09:36:14 +0200
Subject: [PATCH] Update to wf_v7: sync in wf
---
gga_init.py | 1 +
gga_run_workflow_phaeo_jbrowse.py | 2 ++
2 files changed, 3 insertions(+)
diff --git a/gga_init.py b/gga_init.py
index f8c705e..cc2cbdd 100755
--- a/gga_init.py
+++ b/gga_init.py
@@ -341,6 +341,7 @@ def deploy_stacks(input_list, main_dir, deploy_traefik):
logging.info("Updating traefik stack")
run_docker_stack_deploy("traefik", traefik_dir)
+ #TODO: add test to check that the network/name resolution is fine in each galaxy container
if __name__ == "__main__":
parser = argparse.ArgumentParser(description="Deploy GGA containers")
diff --git a/gga_run_workflow_phaeo_jbrowse.py b/gga_run_workflow_phaeo_jbrowse.py
index 8d22c22..69f5f46 100644
--- a/gga_run_workflow_phaeo_jbrowse.py
+++ b/gga_run_workflow_phaeo_jbrowse.py
@@ -388,6 +388,8 @@ if __name__ == "__main__":
main_dir=main_dir,
config=config)
+ # TODO: store wf param of all strains from the same species and run wf, don't wait for all org
+
for genus_species, strains in all_org_wf_param_dict.items():
strains_list = list(strains.keys())
strains_count = len(strains_list)
--
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