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Releases: mbhall88/rasusa

v2.1.0

19 Aug 07:00
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2.1.0 (2024-08-19)

Features

  • [aln] add program (@PG) entry to header (0123e54)
  • log seed used when --seed not passed (6e1f37d)

v2.0.0

03 May 23:57
12fc618
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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

29 Apr 00:37
51429c7
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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

03 Jan 02:44
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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

06 Apr 03:00
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Added

  • Install script and support for more binary triple targets

Changed

  • Updated needletail dependecy due to dependency deprecation

0.7.0

05 Jul 04:46
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Added

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

0.6.1

23 Jan 23:08
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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

29 Aug 04:19
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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

20 Aug 01:37
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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

13 Aug 02:24
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Fixed

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