Release 6.8.0 #685
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Release 6.8.0 #685
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* Add support for etl parser configuration * Untested remap service-account to ID * Small fix * Add asserts + fix config * Add type annotations and improve parser_name variable * Move immediately instantiated clients to fix tests * Fix random linting things * Add new + refactor tests to reduce duplication * Address review feedback * Update metamist_infra version to 1.1.0 --------- Co-authored-by: Michael Franklin <[email protected]>
* Fix click overwriting param to None when not specified * Fix whitespace after : for the linter
* Fix role description * Fix import spacing --------- Co-authored-by: Michael Franklin <[email protected]>
* Updating parsers with library type etc * Add new sample map column defaults, update sg meta on RNA ingest * Update parser column default, update rna sg meta, update parsing prints * Change reference to 'sequence' to 'assay' * Change reference to 'library_type' to 'sequencing_library' * Change another reference to 'library_type' to 'sequencing_library' * Add required fields for exomes, more tidying, use tabulate * Add tabulate to requirements * Fix parse_manifest return for tests, update script referencing group_assays fn * Remove required exome fields, re-add default analysis status 'completed' * Update parser testing with RNA examples * Remove added external_family_id from ParsedParticipant class * Refactor parser to use SequencingDefualts class * Collapse sequencing defaults into new class * Update setup.py and resolve merge conflicts * isort linting * Fix typehint for read and ref files function return
* Update SG meta endpoint to use PATCH, not GET * Bump version: 6.7.0 → 6.8.0
illusional
approved these changes
Feb 19, 2024
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