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ConFindr v0.8.2

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@pcrxn pcrxn released this 07 Feb 20:44
v0.8.2
6c62064
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Changelog

0.8.2 - 2025-02-07

This is a minor release. The most important changes include updates to URL schemes, improvements in handling temporary directories, and enhancements in read name processing.

Added

  • Added checks to ensure temporary directories exist before attempting to remove them in confindr_src/confindr.py (#65).
  • Initialized dictionaries for summarizing base types with specific keys in confindr_src/methods.py to prevent key errors (#65).
  • Added Pytest unit tests and test FASTQ files for ensuring proper parsing of paired-end Illumina FASTQ headers (#70).

Changed

  • Improved logic for using temporary directories during database creation in confindr_src/methods.py (#65). Fixes #57.
  • Updated the installation guide to reflect changes in the PubMLST API key generation process in docs/install.md (#62, #71).
  • Corrected the URL for the example dataset in docs/usage.md to point to the latest version.

Fixed

  • Updated URLs from HTTP to HTTPS in the __init__ method of confindr_src/database_setup.py to ensure secure connections and allow for successful downloads of databases (#69). Fixes #67.
  • Improved addition of read direction suffixes to read names in confindr_src/methods.py to handle cases where the suffix already exists (#70). Fixes #63 and resolves #54.
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