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Releases: labgem/PANORAMA

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PANORAMA 1.0.4

PANORAMA 1.0.4 Latest
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@jpjarnoux jpjarnoux released this 23 Jul 13:28
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1.0.4
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New feature

  • Add "How to cite" guide (PR: #55)
  • Add pull request template for contributions (PR: #51)

Minor Change

  • Large documentation restructuring: developer guide, API reference, and user guide fixes (PR: #57)
  • Remove support for --conserved_spots in write_flat.py (PR: #56)
  • Remove the automatic version bump GitHub Actions workflow (PR: #52)

Bug fixes

  • Fix annotation monitoring accumulating elapsed time across pangenomes instead of per pangenome (PR: #48)
  • Fix CI error (PR: #49)
  • Fix relative path management to find pangenome.h5 file (PR: #54)
  • Add resolve_path utility for more robust pangenome path resolution
  • Fix wrong argument name in compare_spots/compare_systems commands
  • Update minimum pyhmmer version to 0.12.0 for compatibility with its bytes/str API change (PR: #58)

Contributor

@jpjarnoux
@JeanMainguy
@dvallenet

Full Changelog: 1.0.0...1.0.4

Contributors

dvallenet, JeanMainguy, and jpjarnoux
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PANORAMA 1.0.0

PANORAMA 1.0.0

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@jpjarnoux jpjarnoux released this 10 Dec 09:36
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1.0.0
e43652f
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Gold Release

This is the first public release that is officialy supported.

This release correspond to the version use to generate the results presented in PANORAMA article.

Full Changelog: 0.5.0...1.0.0

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PANORAMA 0.6.0

PANORAMA 0.6.0

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@jpjarnoux jpjarnoux released this 06 Oct 12:32
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0.6.0
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Candidate release

New feature

  • Add GitHub issues template (PR: #37)
  • New workflow based on Ruff for formating and linting (PR: #39)
  • Upload the documentation on ReadTheDoc (PR:#40)
  • Upload PANORAMA on bioconda
    • add the installation guide in the doc (PR: #41)
    • Add GitHub Actions workflow for testing bioconda recipes weekly (PR: #44)
  • Add GitHub Actions workflow for automatic version bump (PR: #42) and update the documentation (PR: #43)
  • Add a github workflow to check doc on push (PR: #45)

Minor Change

RAS

Bug fixes

  • Update dependencies version to work with python 3.10 and more (PR: #46)

Contributor

Full Changelog: 0.5.0...0.6.0

Contributors

JeanMainguy and jpjarnoux
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PANORAMA 0.5.0

PANORAMA 0.5.0

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@jpjarnoux jpjarnoux released this 03 Oct 14:28
Immutable release. Only release title and notes can be modified.
0.5.0
c42c7f8
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Learn about vigilant mode.

First Public Beta Release

We're excited to introduce the first open beta version of PANORAMA

⚠️ Beta Notice

This is an open beta release. While functional, it may contain bugs and incomplete features.

Key Features

  • Biological systems analyses: PANORAMA allows detecting systems in pangenomes by using models
  • Pangenome comparison: PANORAMA allows comparing pangenomes based on pangenome structure previously detected.

Getting Started

To start using this version:

  1. Download the files below
  2. Check out the documentation
  3. Follow the quick start guide

Contributor

Contributors

JeanMainguy, jpjarnoux, and 3 other contributors
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