v2.0.0

2.0.0 (2024-05-03)

⚠ BREAKING CHANGES

• paired reads require --output once for each file

Bug Fixes

• paired reads require --output once for each file (1427a0b)

v1.0.0

1.0.0 (2024-04-29)

⚠ BREAKING CHANGES

• move fastq functionality to reads subcommand

Features

• add cite command to get citation (db17612)
• add subcommand aln to subsample alignments (b92979a)
• move fastq functionality to reads subcommand (f48d47b)

Bug Fixes

• deal with chromosomes with no alignments (14aa15e)

v0.8.0

0.8.0 (2024-01-03)

Features

• add logging message with coverage of input before downsampling (79445fc)
• support ztsd (cfa50f8)
• use default compression level for compression output type (cfa50f8)

Bug Fixes

• update logging so colour not sent to file (bc62c3f)

0.7.1

Added

• Install script and support for more binary triple targets

Changed

• Updated needletail dependecy due to dependency deprecation

0.7.0

Added

• Fraction (--frac) and number (--num) options. This allows users to replicate the
  functionality of seqtk sample [#34]

0.6.1

Added

• Warning if the actual coverage of the file(s) is less than the requested coverage
  [#36]
• JOSS manuscript

Changed

• Use rasusa as the entry command for docker container [#35]

0.6.0

Addedd

• --bases option to allow for manually setting the target number of bases to keep
  [#30]
• --genome-size can now take a FASTA/Q index file and the sum of all reference
  sequences will be used as the genome size [#31]

0.5.0

Added

• Support for LZMA, Bzip, and Gzip output compression (thanks to niffler). This is either inferred from the file extension or manually via the -O option.
• Option to specify the compression level for the output via -l

Changed

• Use a Vec<bool> instead of HashSet to store the indices of reads to keep. This gives a nice little speedup (see #28), A big thank you to @natir

Fixed

• Restore compression of output files [#27]

0.4.2

Fixed

• I had stupidly forgetten to merge the fix for #22 onto master

0.4.1

Fixes

• Releasing cross-compiled binaries didn't work for version 0.4.0
• Docker image is now correctly built