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Changelog

This format is based on Keep a Changelog and this project adheres to Semantic Versioning.

Unreleased

Release date: TBD

1.1.1

Release date: 28 July 2023

Changed

  • Dependencies' versions.

Removed

  • Explicit Python 3.7 support.

1.1.0

Release date: 11 April 2022

Added

  • Support for parsing STAR-Fusion 1.10 output (thanks @Redmar-van-der-berg).

1.0.0

Release date: 12 October 2021

Added

  • Parsing empty VEP outputs (thanks @Redmar-van-der-berg).
  • Support for Python 3.9.

Removed

  • Support for Python 3.6.

1.0.0-alpha1

Release date: 2 July 2021

Added

  • --input-linesep CLI argument for picard, star, and vep for specifying the line separator used when parsing the input file. This is also exposed in the parser functions as input_linesep. For vep in particular, this is a backwards-incompatible change, as the previous behavior is to always parse using the POSIX new line separator.

0.5.2

Release date: 30 June 2020

Fixed

  • FusionCatcher v1.20 output without any result rows is now parsed properly (see #11).
  • Sections in VEP files containing no data is now parsed properly (see #13).

0.5.1

Release date: 27 February 2020

Changed

  • Relaxed Click and YAML requirements. Now crimon requires only minimum versions of these dependencies instead of exact ones.

0.5.0

Release date: 4 February 2020

Added

  • Support for parsing output of STAR-Fusion v1.6.0 under the same star-fusion parser. Thank you @Redmar-van-den-Berg!

Removed

  • Support for Python 2.7, 3.3, 3.4, and 3.5

0.4.0

Release date: 25 July 2018

Added

  • Support for parsing zipped FastQC result.

Changed

  • Improved detection of zipped FastQC input.
  • Set configurable file-size limits for flagstat, Picard, and FastQC.

0.3.0

Release date: 19 May 2016

Added

  • Support for parsing FusionCatcher final fusion genes file.

0.2.0

Release date: 13 April 2016

Added

  • Support for parsing STAR-Fusion hits table output.
  • Support for parsing STAR alignment log output.
  • Support for parsing VEP plain text output.

0.1.1

Release date: 2 February 2016

Changed

  • Test and build dependencies.

0.1.0

Release date: 27 July 2015

Added

  • First release.
  • Support for parsing FastQC, samtools flagstat, and Picard.