Feature/studysubmit#36

Merged

ochkalova merged 38 commits intodevfrom

feature/studysubmit

Mar 25, 2026

Commits on Mar 12, 2026

Added submit_study script from private repo
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Modified study-submit script to work in mgnify-pipelines-toolkit container. Removed linkml validation which is more useful for interactive submission.
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Wrote submit_study module based on submit_study python script.
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Renamed files and parameters to align to existing registerstudy module, distinguish from it sing submit_study is for raw-reads rather than assemblies, and remove references to mimicc.
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Tidied up code
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Rename files
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Update tests for study_submit
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Replaced REGSTERSTUDY module with new one based on submit_study.py script. Also renamed submit_rawreads_study to submit_study
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Remove pytest from bin
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Commits on Mar 13, 2026

Commits on Mar 25, 2026