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sambamba markdup log change #1617

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Redmar-van-den-Berg opened this issue Feb 1, 2022 · 0 comments · Fixed by #1618
Closed

sambamba markdup log change #1617

Redmar-van-den-Berg opened this issue Feb 1, 2022 · 0 comments · Fixed by #1618

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@Redmar-van-den-Berg
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Description of bug

MultiQC currently checks the first 5 lines of log files to recognise sambamba markdup log files. However, with the more recent versions of sambamba, there are some additional newlines, so the log files are not recognised.

File that triggers the error

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MultiQC Error log

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Fix recognition of recent sambamba markdup version Redmar-van-den-Berg/MultiQC
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@Redmar-van-den-Berg