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sblanck / smagexp

SMAGEXP (Statistical Meta Analalysis for Gene EXPression) for galaxy
MIT License
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GEOQuery fails on cloud instance #3

Open zoeangel opened 4 years ago

zoeangel commented 4 years ago

Hello,

I find that the GEOQuery job doesn't work on my GVL-deployed instance of Galaxy. I have tried using the example datasets GSE3524 and GSE13601 from the paper, but I get the error:

"Required metadata values are missing. Some of these values may not be editable by the user. Selecting "Auto-detect" will attempt to fix these values."

When I click Autodetect it executes but never completes, I have left it for over 4 hours.

Is there something that I'm doing wrong? I installed smagexp v.8 from the toolshed. To install I selected: /galaxy/server/config/mutable/editable_shed_tool_config.xml and unclicked the dependencies: Install resolvable dependencies, Install repository dependencies, and Install tool dependencies (otherwise the installation failed).

Many thanks for any help, Zoe

nuwang commented 4 years ago

@sblanck Just wondering whether you'd like to have this repo added to the list of repos which are monitored by Planemo, and have the corresponding docker containers built automatically? Please see here for context: https://github.com/BioContainers/multi-package-containers/pull/1273