fluxomics-viz uses invalid galaxy data format JSON

phnmnl / container-galaxy-k8s-runtime

PhenoMeNal runtime for Galaxy running inside a container orchestrator

Apache License 2.0

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fluxomics-viz uses invalid galaxy data format JSON #320

Open ilveroluca opened 6 years ago

ilveroluca commented 6 years ago

In this tool: tools/phenomenal/fluxomics/fluxomics-viz.xml

It generates this error:

galaxy.model WARNING 2018-08-02 17:36:47,581 [p:166,w:1,m:0] [uWSGIWorker1Core3] Datatype class not found for extension 'JSON'

cfoguet commented 6 years ago

Could you provide detailed steps to reproduce the Warning? I tested the tool localy and got no warning.

ilveroluca commented 6 years ago

The warning shows up in the galaxy log when it's starting. That's when it loads the tool xml and sees the problem.

cfoguet commented 6 years ago

It is possible that the issue is that format is defined as "JSON" whereas in registry is defined as Json? Still I am unable to reproduce it in my local Galaxy instance.

I will tag @pcm32 who is the developer of the tool and far more proficient than me in Galaxy