gffread fasta generated file uses space and semicolon

bigbio / py-pgatk

Python tools for proteogenomics analysis toolkit

Apache License 2.0

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gffread fasta generated file uses space and semicolon #59

Closed husensofteng closed 2 years ago

husensofteng commented 2 years ago

Prior to version v0.12.6 gffread was using space to separate between features in the FASTA header. However, from version v0.12.6, space is used to separate CDS whereas semicolon is used to separate the other features. Currently, the transcript_description_sep is used to specify the separator but this has to be fixed here to allow for the space too produced by the newer version of gffread.

husensofteng commented 2 years ago

fixed with commit df931dbab3cf1045858589de7474e474a8d0321b