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Check read names on import #46

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martinghunt opened this issue Jul 24, 2018 · 0 comments
Open

Check read names on import #46

martinghunt opened this issue Jul 24, 2018 · 0 comments

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@martinghunt
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Import checks that the fwd/rev FASTQ files are valid FASTQ, and have the same number of reads. The read names can mismatch between the fwd/rev files, but still import. Then the remove contam pipeline fails when BWA MEM throws an error ([mem_sam_pe] paired reads have different names...).

Could add in check during import that N^th read name matches.

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