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scperturb issue #289

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amva13 opened this issue Jun 25, 2024 · 2 comments
Closed

scperturb issue #289

amva13 opened this issue Jun 25, 2024 · 2 comments
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@amva13
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amva13 commented Jun 25, 2024

For the perturb-seq dataset, there might be some problem:

from tdc.multi_pred.perturboutcome import PerturbOutcome

data = PerturbOutcome(name = 'scperturb_drug_SrivatsanTrapnell2020_sciplex2')

split = data.get_split() # this line has a problem

print_sys("processing cell line", cell_line)

TypeError: print_sys() takes 1 positional argument but 2 were given

@amva13 amva13 added the bug Something isn't working label Jun 25, 2024
@abearab
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abearab commented Jun 25, 2024

also #256

@amva13
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amva13 commented Jul 3, 2024

will be fixed by #290 issue from commit during geneperturb. note: reduce mem foot print of scperturb test so it can actually run in cicd and catch this type of issue.

@amva13 amva13 closed this as completed Jul 3, 2024
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