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Generate ortholog PDFs when data are unavailable #10
Commits on Apr 2, 2021
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Error msg if species pairs missing from ortho DBs
- check if each pair in the trios is present in both databases; if it's missing in one, the script will exit. - note however that if the ortholog peak DB is not present but the Ks list database is complete, the distrbutions will still be plotted, all without their modes. This was a choice made some time ago that I didn't want to remove.
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Checkpoint now logs "errors" and not "warnings"
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Commits on Apr 6, 2021
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Update branch with new PAML installation
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Minor (remove unnecessary newline)
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If missing species pairs, plot incomplete PDF
- Now if one or more species pair is missing, the PDF will be generated and the available data will be plotted. - Checking for missing pairs is now done during the main for loop and not before (outside) it. - The missing pairs are listed at the end, after the for loop. - The missing pairs are listed as missing 1) from both databases, 2) from only peak DB and 3) from only Ks list DB.
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Commits on Apr 7, 2021
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Ortholog PDF has only trios with complete data
- Every PDF page contains a trio with complete data (Ks list and Ks peak estimate). - If there are no complete trios for a PDF, the file is not generated. - More clearly logging when a species pair is missing in DBs and the plotting of a trio is skipped.
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Commits on Apr 8, 2021
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Bugfix (check if ortholog peak DB is available)
cesen committedApr 8, 2021 Configuration menu - View commit details
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