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Updated changelog
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svarona committed Jun 26, 2024
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Expand Up @@ -48,20 +48,23 @@ Code contributions to the new version:
- Fixed singularity-images path when updating pangolin database in lablog_viralrecon. Added line break after prompted input. [#282](https://github.com/BU-ISCIII/buisciii-tools/pull/282)
- Updated characterization and snippy templates to fit bacass pipeline. Corrected path in 05-iqtree in snippy template. [#283](https://github.com/BU-ISCIII/buisciii-tools/pull/283)
- Included multiqc_report.html in RESULTS folder in every service, where necessary [#265] (https://github.com/BU-ISCIII/buisciii-tools/pull/265)
- Added MAG tempalte and removed MAG from other templates [#288](https://github.com/BU-ISCIII/buisciii-tools/pull/288)

### Modules

#### Added enhancements

- PR [#274](https://github.com/BU-ISCIII/buisciii-tools/pull/274): added `--dev` option, configuration dev and test folder structure.
- PR [#276](https://github.com/BU-ISCIII/buisciii-tools/pull/276): wkhtmlpdf does not need absolute path to executable. Added better error handling when executable does not exists.
- PR [#288](https://github.com/BU-ISCIII/buisciii-tools/pull/288) Allowed to handle more than one service at a time, related to issue [#217](https://github.com/BU-ISCIII/buisciii-tools/issues/217)

#### Fixes

- Fixed archive module. Updated correct header for scout tsv [#258](https://github.com/BU-ISCIII/buisciii-tools/pull/258).
- Fixed clean module. Corrected purge_files function. Renaming stage moved from clean to rename_nocopy option. Updated services.json file with correct paths for some services. [#280](https://github.com/BU-ISCIII/buisciii-tools/pull/280)
- Fixed autoclean-sftp function. [#281](https://github.com/BU-ISCIII/buisciii-tools/pull/281)
- Fixed bioinfo_doc.py. Modified it so that this module creates a .pdf file including new-line characters, without merging lines into one single line [#259](https://github.com/BU-ISCIII/buisciii-tools/pull/259).
- PR [#288](https://github.com/BU-ISCIII/buisciii-tools/pull/288) Fixed updating service's state to in_progress multiple times, related with issue [#285](https://github.com/BU-ISCIII/buisciii-tools/issues/285)

#### Changed

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