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Legacy tickets migrated from the OBF Redmine issue tracker: http://redmine.open-bio.org
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Bio::Index::Fastq indexing not in sync with FASTQ spec #93

Open cjfields opened 8 years ago

cjfields commented 8 years ago

Author Name: Chris Fields (@cjfields) Original Redmine Issue: 3165, https://redmine.open-bio.org/issues/3165 Original Date: 2010-12-31 Original Assignee: Chris Fields

FASTQ no longer requires the description line for the quality string, per the recent open-bio FASTQ specification paper. However, FASTQ indexing via Bio::Index::Fastq still requires it. The indexer needs to be brought in line with the spec and Bio::SeqIO::fastq.

Per mail-list:

http://bioperl.org/pipermail/bioperl-l/2010-December/034369.html

cjfields commented 8 years ago

Original Redmine Comment Author Name: Chris Fields Original Date: 2011-01-31T14:13:36Z

I have a quick bug fix in place for the error noted in the mail post; however, this should be addressed with a better parser at some point. Leaving open.