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Autorun_multiqc_stats_collect complains prematurely #14

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TCLamnidis opened this issue Oct 9, 2024 · 0 comments
Open

Autorun_multiqc_stats_collect complains prematurely #14

TCLamnidis opened this issue Oct 9, 2024 · 0 comments
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bug Something isn't working

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@TCLamnidis
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The new check added in 1.2.0 for checking for result consistency happens before the check for existing multiqc_data files. As such, when any individuals do not have output yet, the script will throw out warnings about file corruption or results being outdated.
This is clearly not intended, and needs fixing in a patch 😬

Here's an example of the errors:

## collect_results.py: 1.2.0
Found 1 individuals in input file.
Required file /mnt/archgen/Autorun_eager/eager_outputs//SG/ZMT/ZMT093/multiqc/multiqc_data/multiqc_data.json not found! Results for this sample might be corrupted.
WARNING: There is a large difference in the creation time between the MultiQC data file '/mnt/archgen/Autorun_eager/eager_outputs//SG/ZMT/ZMT093/multiqc/multiqc_data/multiqc_data.json' and the corresponding HTML '/mnt/archgen/Autorun_eager/eager_outputs//SG/ZMT/ZMT093/multiqc/multiqc_report.html'. Skipping.
WARNING: No data was found for 1 individuals!
@TCLamnidis TCLamnidis added the bug Something isn't working label Oct 9, 2024
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