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Releases: oschwengers/referenceseeker

v1.8.0

14 Jan 13:50
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This is the 8th minor release (v1.8.0) introducing adjustable sliding windows.

New features:

  • Implement adjustable sliding windows for the DNA fragment creation: #24

Improvements:

  • fix RefSeq db build scripts: d662dc5

v1.7.3

27 Apr 09:33
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This is a patch release:

  • fixing several minor issues (#19) regarding the creation of custom DBs
  • adding more CI tests

v1.7.1

07 Apr 15:36
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This is a feature release providing:

  • massively reduced database sizes due to compressed reference genomes
  • allow for zipped input genomes
  • new pre-compiled databases from GTDB and PLSDB

As well as:

  • new tests
  • move to Python 3.8 as default

As we currently have no infrastructure to test & debug the tool on MacOS, we skipped the integration tests on MacOS. Any suggestions/support is highly welcome.

v1.6.4

29 Jan 13:19
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This is a patch release fixing several DB creation issues.

  • fixed an index issue upon unnamed DB records (#13)
  • fixed 3rd party binary paths upon DB imports
  • update CI/CD scripts

v1.6.3

17 Apr 08:47
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This is just a minor patch to remove some debugging artifacts.

v1.6.2

15 Apr 09:04
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This is a minor release fixing broken 3rd party dependencies in the share directory. This issue is masked within a BioConda environment.

v1.6.1

14 Apr 15:21
787599e
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This is the first minor release after the JOSS publication.

We updated the pre-compiled RefSeq databases and fixed some minor typos and bugs.

v1.6

04 Feb 12:25
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This release archives the to-be-published version 1.6 necessary for the JOSS publication.

In this release we:

  • added a CONTRIBUTING.md
  • added issue templates for bugs and features
  • fixed some typos

v1.5

31 Jan 12:47
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This release provides an exciting new feature:
ReferenceSeeker now supports the initialization of local, private & custom DBs and the fine grained import of local genomes - either into a fresh new DB or an existing public one.
Therefore, check the new referenceseeker_db command - more info in the readme DB section

Additionally, we:

  • added a tiny mock DB as a test case -> assure your local installation works as expected!
  • improved the documentation (readme)
  • applied some code refactoring
  • added PyTest-based unit tests
  • implemented a GitHub Actions-based CI -> further code quality assurance

v1.4

19 Dec 14:09
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This release introduces the bidirectional computation of ANI / conserved DNA values.

Just add the --bidirectional option.