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chanzuckerberg
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idseq-workflows
Portable WDL workflows for IDseq production pipelines
https://idseq.net/
MIT License
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Add support for single-end fastqs
#48
Closed
tfrcarvalho
closed
3 years ago
tfrcarvalho
commented
3 years ago
Description
Support single-end fastqs (in addition to paired-end):
CH-18084
Fixes bug where the FilterReads step would error earlier with no reads left without reporting the correct error
Fixes bug where non gzip input fastqs would originated 0 total reads
Improves precision of quantifiers for
Array[File]
outputs
Tests
Tested locally with:
Paired-end Gzip Fastq with no reads left after in FilterReads task
Single-end Gzip Fastq with consensus genome created
Paired-end Gzip Fastq with consensus genome created (same output as single-end)
Paired-end uncompressed Fastq with consensus genome created
Description
Array[File]
outputsTests