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I have some sites in my data that have no quality, because no reads mapped there. For example:
scaffold_1 1330 . T . . . Dels=0.01;MQ=6.79;MQ0=0 GT ./. ./. ./. ./. ./. ./. ./. ./. ./. ./. ./. ./. ./. scaffold_1 1331 . C . . . Dels=0.01;MQ=6.70;MQ0=0 GT ./. ./. ./. ./. ./. ./. ./. ./. ./. ./. ./. ./. ./. scaffold_1 1332 . G . . . Dels=0.00;MQ=6.70;MQ0=0 GT ./. ./. ./. ./. ./. ./. ./. ./. ./. ./. ./. ./. ./. scaffold_1 1333 . A . . . Dels=0.00;MQ=6.58;MQ0=0 GT ./. ./. ./. ./. ./. ./. ./. ./. ./. ./. ./. ./. ./.
The parser breaks on line 444. I've modified my version to give a 0 quality to these records, as a quick fix:
qual = 0 if row[5] == '.' else (float(row[5]) if '.' in row[5] else int(row[5]))
The text was updated successfully, but these errors were encountered:
I think that's fixed in trunk. Which version is this? I should cut a new release.
Sorry, something went wrong.
My HISTORY.md file says release 0.1, so it may very well be fixed in the new version.
update version to 0.3.0, doc improvements, fixes issue #16
3811a81
update version to 0.3.0, doc improvements, fixes issue jamescasbon#16
067a9a7
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I have some sites in my data that have no quality, because no reads mapped there. For example:
scaffold_1 1330 . T . . . Dels=0.01;MQ=6.79;MQ0=0 GT ./. ./. ./. ./. ./. ./. ./. ./. ./. ./. ./. ./. ./.
scaffold_1 1331 . C . . . Dels=0.01;MQ=6.70;MQ0=0 GT ./. ./. ./. ./. ./. ./. ./. ./. ./. ./. ./. ./. ./.
scaffold_1 1332 . G . . . Dels=0.00;MQ=6.70;MQ0=0 GT ./. ./. ./. ./. ./. ./. ./. ./. ./. ./. ./. ./. ./.
scaffold_1 1333 . A . . . Dels=0.00;MQ=6.58;MQ0=0 GT ./. ./. ./. ./. ./. ./. ./. ./. ./. ./. ./. ./. ./.
The parser breaks on line 444. I've modified my version to give a 0 quality to these records, as a quick fix:
The text was updated successfully, but these errors were encountered: