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Recent Releases of Pynteny

Pynteny - v1.1.2

What's Changed

  • No output from example API by @Robaina in https://github.com/Robaina/Pynteny/pull/92

Full Changelog: https://github.com/Robaina/Pynteny/compare/v1.1.0...v1.1.2

Scientific Software - Peer-reviewed - Python
Published by Robaina over 2 years ago

Pynteny - v1.1.0

What's Changed

  • test bioconda build on macos and ubuntu by @Robaina in https://github.com/Robaina/Pynteny/pull/86
  • include processes parameter in pynteny build by @Robaina in https://github.com/Robaina/Pynteny/pull/87
  • 80 report of pynteny build running out of memory in a very large database by @Robaina in https://github.com/Robaina/Pynteny/pull/88
  • changed processes command by @Robaina in https://github.com/Robaina/Pynteny/pull/90

Full Changelog: https://github.com/Robaina/Pynteny/compare/v1.0.0...v1.1.0

Scientific Software - Peer-reviewed - Python
Published by Robaina almost 3 years ago

Pynteny - v1.0.0

This is a release post-review after submitting the package at PyOpenSci. Additionally, the streamlit app has been removed (subcommand pynteny app) as it will be released later on in a different, pip-installable package (as an addon too pynteny). This changed has two motivations: 1) facilitate solving dependencies by conda and 2) streamline pynteny's code base.

What's Changed

  • python >= 3.8 by @Robaina in https://github.com/Robaina/Pynteny/pull/36
  • PyOpenSci REVIEW - Refactor code to meet PEP8 by @Robaina in https://github.com/Robaina/Pynteny/pull/40
  • PyOpenSci REVIEW - extract nested functions in LabelledFASTA by @Robaina in https://github.com/Robaina/Pynteny/pull/47
  • PyOpenSci REVIEW - minor updates by @Robaina in https://github.com/Robaina/Pynteny/pull/43
  • PyOpenSci REVIEW - extract static classes and transfer to own modules by @Robaina in https://github.com/Robaina/Pynteny/pull/45
  • PyOpenSci REVIEW - add setup to docs, add building docs to contributing by @Robaina in https://github.com/Robaina/Pynteny/pull/50
  • change structure to adopt /src layout by @Robaina in https://github.com/Robaina/Pynteny/pull/54
  • PyOpenSci REVIEW - config and download default directories by @Robaina in https://github.com/Robaina/Pynteny/pull/51
  • PyOpenSci REVIEW - remove default location for PGAP download by @Robaina in https://github.com/Robaina/Pynteny/pull/57
  • added config to install dir by @Robaina in https://github.com/Robaina/Pynteny/pull/58
  • PyOpenSci REVIEW - 59 some more minor changes by @Robaina in https://github.com/Robaina/Pynteny/pull/60
  • Chore/add qoc config by @Batalex in https://github.com/Robaina/Pynteny/pull/62
  • Ensure file inputs are of type Path by @Robaina in https://github.com/Robaina/Pynteny/pull/63
  • 29 deal with genome id when building peptide database by @Robaina in https://github.com/Robaina/Pynteny/pull/64
  • add file name to files in fasta dir by @Robaina in https://github.com/Robaina/Pynteny/pull/68
  • 69 download pfam database and split models into separate files by @Robaina in https://github.com/Robaina/Pynteny/pull/70
  • update docs by @Robaina in https://github.com/Robaina/Pynteny/pull/72
  • Adjacent repeated genes by @Robaina in https://github.com/Robaina/Pynteny/pull/73
  • 74 optional prepend file name when multiple input files by @Robaina in https://github.com/Robaina/Pynteny/pull/75
  • 77 Remove Streamlit App by @Robaina in https://github.com/Robaina/Pynteny/pull/81
  • Requests + tqdm instead of python-wget by @Robaina in https://github.com/Robaina/Pynteny/pull/84

New Contributors

  • @Batalex made their first contribution in https://github.com/Robaina/Pynteny/pull/62

Full Changelog: https://github.com/Robaina/Pynteny/compare/v0.0.5...v1.0.0

Scientific Software - Peer-reviewed - Python
Published by Robaina almost 3 years ago

Pynteny - v0.0.5

Scientific Software - Peer-reviewed - Python
Published by Robaina about 3 years ago