Pyfaidx Versions Save

• FastaVariant raises an exception when the requested sequence is not present in both the FASTA and VCF file (#180) (Thanks @lldelisle!)

• Fixed reverse and complement cli parameters to also work with sequence transformation (#178)

• Add better documentation in help text #177

• Make index creation atomic #174 (thanks @marco-mariotti)

This is a small bug fix for #172, and allows proper counting of all IUPAC bases when using faidx --transform nucleotide.

This release fixes a bug encountered when retrieving sequence from FASTA files with "Windows" line endings ("/r/n") #141. Thanks @andrewhill157. There is no need to re-index files.

• Refactored FAI writing to account for system locale setting (#166) @folded

• more efficient iterator method for Fasta objects in #163 (thanks @C-nit)

• Implemented Fasta.__len__ (#157)
• Sequence instances can now be compared against strings (#158 thanks @Maarten-vd-Sande)

• Fasta instances now have dictionary methods: Fasta.keys returns sequence names, Fasta.values returns FastaRecord instances, and Fasta.items returns a tuple of (key, value) pairs. #156 (thanks @Maarten-vd-Sande)