'+' entry of fastq files were not allowed to have content, despite being valid fastq format, and ShapeMapper2 not caring about this content. Very annoying for SRA file downloads.
--amplicon and --correct-seq used simultaneously produced an error because MutationCounter, MutationParser, and SequenceCorrector components were not given names or associated RNA targets. See issue #31.
Tony or Lucas, can you double check these? We have been using them in Shapemapper 2.1.5 with no issues yet, but untested with 2.2.0.
2 bug fixes:
--ampliconand--correct-seqused simultaneously produced an error because MutationCounter, MutationParser, and SequenceCorrector components were not given names or associated RNA targets. See issue #31.Tony or Lucas, can you double check these? We have been using them in Shapemapper 2.1.5 with no issues yet, but untested with 2.2.0.