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unpaired file should be empty ... is it? #117

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kopardev opened this issue Oct 16, 2023 · 0 comments · Fixed by #112
Closed

unpaired file should be empty ... is it? #117

kopardev opened this issue Oct 16, 2023 · 0 comments · Fixed by #112
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@kelly-sovacool
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bug Something isn't working
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2023w42_1020

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CHAMPAGNE/modules/local/align.nf

Line 55 in c3f4855

--UNPAIRED_FASTQ ${bam.baseName}.unpaired.fastq

if -f12 behaves the way we think it does ... then input should only have paired end reads with both pairs in sam ... so unpaired files should be empty .. is it in your testing??
@kelly-sovacool kelly-sovacool added the bug Something isn't working label Oct 17, 2023
@kelly-sovacool kelly-sovacool added this to the 2023w42_1020 milestone Oct 17, 2023
@kelly-sovacool kelly-sovacool mentioned this issue Oct 19, 2023
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kelly-sovacool added a commit to CCBR/nf-modules that referenced this issue Oct 19, 2023
@kelly-sovacool
feat: create bam_to_fastq process
ae38433 
towards CCBR/CHAMPAGNE#117
This was referenced Oct 19, 2023
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kelly-sovacool added a commit to CCBR/nf-modules that referenced this issue Oct 20, 2023
@kelly-sovacool
test: unpaired output is empty after filtering
a6c93d0 
towards CCBR/CHAMPAGNE#117
@kelly-sovacool kelly-sovacool mentioned this issue Oct 20, 2023
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Prepare release v0.2.0 CCBR/CHAMPAGNE
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@kopardev @kelly-sovacool