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Develop merge for 2.2.3 release #381

Merged
merged 14 commits into from
Dec 23, 2024
Merged

Develop merge for 2.2.3 release #381

merged 14 commits into from
Dec 23, 2024

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victor5lm
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PR checklist

  • This comment contains a description of changes (with reason).
  • Make sure your code lints (black and flake8).
  • If a new tamplate was added make sure:
    • Template's schema is added in templates/services.json.
    • Template's pipeline's documentation in assets/reports/md/template.md is added.
    • Results Documentation in assets/reports/results/template.md is updated.
  • CHANGELOG.md is updated.
  • README.md is updated (including new tool citations and authors/contributors).
  • If you know a new user was added to the SFTP, make sure you added it to templates/sftp_user.json

github-actions bot and others added 14 commits October 29, 2024 11:06
@github-actions @saramonzon
@Shettland @victor5lm
Merge changes from main into hotfix (#195) (#359)
92bb474 
Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com>
Co-authored-by: Sara Monzón <[email protected]>
Co-authored-by: Pablo Mata <[email protected]>
Co-authored-by: Víctor López <[email protected]>
@victor5lm
Added alberto.campoy to sftp_user.json
fa39679
@victor5lm
Fixed the md5sum function to check only the integrity of the files re…
1c9fe0f 
…lated to the service
@victor5lm
Added the locus_tag option to the PROKKA process in the bacass config…
23553eb 
… file
@victor5lm
Updated CHANGELOG.md
906935d
@victor5lm
Ran black on new_service.py
7492af5
@svarona
Fixed code to propperly handle a service withput samples
ff4a187
@svarona
updated changelog
8124537
@svarona
fixed linting
556796b
@victor5lm
Changed read_length variable creation to add read length correctly to…
9d6c79c 
… mapping_illumina.tab
@victor5lm
Changed "Buenas" by "Estimado/a" in email.j2
a45c5d5
@victor5lm
Updated create_irma_stats.sh to include %mapped_reads
0f2b963
@victor5lm
Changed /data/bi/ by /data/ucct/bi/ in all necessary files
150f0ed
@victor5lm
Updated CHANGELOG.md, setup.py and __main__.py for the new release
fd589bb
@victor5lm victor5lm merged commit 6d9f0a2 into main Dec 23, 2024
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@svarona svarona svarona approved these changes

@Shettland Shettland Shettland approved these changes

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3 participants
@victor5lm @svarona @Shettland