Dev #872
Merged
Dev #872
Conversation
This file contains hidden or bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
* Add mito local constraint * Fix tests * lint
* split import and validate * lint and share function * ruff * change dep * tweak update * lint * wrong method * correct method * mocks * change sample type annotation on test * hack on migration * sort return list * move the migration * still hacking * better! * getting there * Cleaner * ruff * Finish it off * migration * rename var * add migrations to annotations table * fix test import * actually fix the test * add migrations * not used here * use globals * missed one * a hilarious typo * Update migrate_variant_annotations_table.py * correct sign * add lookup migration * Add lookup table migration * adjust migration * ruff * Add to tasks * ensure a migration cannot run before a previous migration! * ruff * fix bug * lint * add referencegenomedatasetype * Annoying but fixed
* Add SV annotations * ruff * push * ruff * Update update_variant_annotations_table_with_new_samples_test.py
* Export VCF task * Fix test * lint
…immutable. (#856) * add remap_pedigree hash * add func * all the imports * ruff * Fix it * support missing remap * ruff * ruff * ruff * tweak the type * tweak the type * Fix test * ruff * add remap pedigree hash * Explicit int32 * lint * Update io.py * ruff * lint * hash * Flappy test * wrong pedigree * bad colon * finish tests * add a test * add pedigree * Fix test
This reverts commit 416eb5e.
* add sampletype to family table file path * all sample types * missed 1 * project tables * explicit in family table delete * use enum * optional parameter but second DeleteProjectFamilyTablesTask test fails * oops * should work * cleaner * v3.1 and handle no project tables * missed one * paths test
bpblanken
approved these changes
Aug 14, 2024
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
Add this suggestion to a batch that can be applied as a single commit.
This suggestion is invalid because no changes were made to the code.
Suggestions cannot be applied while the pull request is closed.
Suggestions cannot be applied while viewing a subset of changes.
Only one suggestion per line can be applied in a batch.
Add this suggestion to a batch that can be applied as a single commit.
Applying suggestions on deleted lines is not supported.
You must change the existing code in this line in order to create a valid suggestion.
Outdated suggestions cannot be applied.
This suggestion has been applied or marked resolved.
Suggestions cannot be applied from pending reviews.
Suggestions cannot be applied on multi-line comments.
Suggestions cannot be applied while the pull request is queued to merge.
Suggestion cannot be applied right now. Please check back later.
No description provided.