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What was changed
Makes the nf-core result output parser ready for sarekv3 file strucure:

  • Changed file suffix of software_versions.csv to software_versions.yml
  • Changed file suffix of execution_report.txt to execution_report.html
  • Removed pipeline_report.txt

Additional Information
Currently waiting for the updated datastructure in the data-model-lib 2.20.0 release before this can be merged(#324)

See DM-480 for zendesk ticket and additional information

@Steffengreiner Steffengreiner changed the title Update NF-Core Parser to use Sarekv3 structure Update NF-Core Parser to use new NF-Core output Aug 26, 2022
@Steffengreiner Steffengreiner marked this pull request as ready for review August 26, 2022 10:58
@Steffengreiner Steffengreiner requested a review from a team as a code owner August 26, 2022 10:58
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@sven1103 sven1103 left a comment

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lgtm!

@Steffengreiner Steffengreiner merged commit ca54106 into development Aug 26, 2022
@Steffengreiner Steffengreiner deleted the patch/dm-496-update-nfcore-to-sarekv3 branch August 26, 2022 11:01
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3 participants