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Pipelines fail on filenames containing a + symbol #29

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s-andrews opened this issue Dec 8, 2021 · 4 comments
Open

Pipelines fail on filenames containing a + symbol #29

s-andrews opened this issue Dec 8, 2021 · 4 comments

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@s-andrews
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Not sure why, but all of the pipelines I ran completely ignored the files with a + in their name. This isn't a special character in unix so it's probably a nextflow thing.

@s-andrews
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Looks like this might be the same thing nextflow-io/nextflow#219

@s-andrews
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Specifically it seems to be trim_galore which can't cope with this. FastQC and FastQ_Screen both seem to run OK.

@s-andrews
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Possibly it's to do with pairing?

@FelixKrueger
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that's quite possible...

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