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De/Compressor detection will not work properly with differently compressed fastqs #2

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dankwart-de opened this issue Jun 28, 2018 · 2 comments
Open

De/Compressor detection will not work properly with differently compressed fastqs #2

dankwart-de opened this issue Jun 28, 2018 · 2 comments
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enhancement New feature or request

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@dankwart-de
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E.g. if two lane files are compressed differently:

lane1.fastq (uncompressed)
lane1.fastq.gz (gzip)
lane2.fastq.gz (gzip)
lane2.fastq.bz2 (bzip2)

one could argue, that this should not be the case, but Roddy should be able to detect it and pass it properly to its alignment jobs.
@dankwart-de dankwart-de added the enhancement New feature or request label Jun 28, 2018
@vinjana vinjana assigned vinjana and unassigned vinjana Sep 6, 2018
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vinjana commented Jan 16, 2019

De/compressor detection would have been to be moved into the job-code (currently bash). Compare #3.

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vinjana commented Jan 16, 2019

Also rather a nice to have. Keep at low priority.

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@vinjana @dankwart-de