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Generate Heatmaps Failing
Tags
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type: bug
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status: open
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priority: medium
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assigned: fredm, zachs, zsloan
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keywords: genenetwork3, gn3, GN3, heatmaps
Reproduce
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Go to https://genenetwork.org/
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Under "Select and Search" menu, enter "synap*" for the "Get Any" field
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Click "Search"
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In search results page, select first 10 traits
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Click "Add"
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Under "Create a new collection" enter the name "newcoll" and click "Create collection"
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In the collections page that shows up, click "Select All" once
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Ensure all the traits are selected
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Click "Generate Heatmap" and wait
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Note how system fails silently with no heatmap presented
Notes
On https://gn2-fred.genenetwork.org the heatmaps fails with a note ("ERROR: undefined"). In the logs, I see "Module 'scipy' has no attribute 'array'" which seems to be due to a change in numpy.
This issue should not be present with python-plotly@5.20.0 but since guix-bioinformatics pins the guix version to `b0b988c41c9e0e591274495a1b2d6f27fcdae15a`, we are not able to pull in newer versions of packages from guix.