Ecosyste.ms: Issues

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GitHub / monarch-initiative/mondo-ingest issues and pull requests

#782 - Data build files following mondo release

Pull Request - State: open - Opened by twhetzel 9 days ago - 1 comment
Labels: build

#779 - DO NOT MERGE: Bug fix: Synonym Sync: Sorting of case variation columns - build

Pull Request - State: closed - Opened by joeflack4 10 days ago
Labels: build

#778 - DO NOT MERGE: Bug fix: Synonym Sync: Sorting of case variation columns - mini build

Pull Request - State: open - Opened by joeflack4 11 days ago - 1 comment
Labels: build

#777 - Bug fix: Synonym Sync: Sorting of case variation columns

Pull Request - State: closed - Opened by joeflack4 11 days ago - 2 comments
Labels: bug

#775 - Bug fix: `KeyError` on `mondo_label`

Pull Request - State: closed - Opened by joeflack4 11 days ago
Labels: bug

#772 - Bug fix: `ModuleNotFoundError`

Pull Request - State: closed - Opened by joeflack4 12 days ago
Labels: bug

#771 - DO NOT MERGE: `qc-duplicate-exact-synonym-no-abbrev` related updates - build

Pull Request - State: closed - Opened by joeflack4 12 days ago - 1 comment
Labels: build

#770 - DO NOT MERGE: `qc-duplicate-exact-synonym-no-abbrev` related updates - mini build

Pull Request - State: closed - Opened by joeflack4 13 days ago - 1 comment
Labels: build

#769 - Update develop with main to get things back in sync

Pull Request - State: closed - Opened by twhetzel 13 days ago

#768 - DO NOTMERGE: Data build for fix ordo mappings query

Pull Request - State: closed - Opened by matentzn 13 days ago - 3 comments

#767 - Synonym Sync: `qc-duplicate-exact-synonym-no-abbrev` related updates && Remove unused files

Pull Request - State: open - Opened by joeflack4 14 days ago - 1 comment
Labels: enhancement, stability

#766 - DO NOT MERGE: Data load ORDO fix query

Pull Request - State: closed - Opened by matentzn 17 days ago - 1 comment
Labels: build

#765 - DO NOT MERGE - Build for `fix-ordo-mappings`

Pull Request - State: closed - Opened by twhetzel 20 days ago - 1 comment
Labels: build

#764 - Fix ORDO mappings query

Pull Request - State: closed - Opened by matentzn 20 days ago - 7 comments

#763 - Resume the "release process" again we had

Issue - State: open - Opened by matentzn 24 days ago

#762 - Synonym Sync - better handling of conflicts between OMIM formerly and DOID abbreviations

Issue - State: open - Opened by twhetzel 29 days ago - 2 comments
Labels: enhancement

#761 - Ingest new genecards/malacards version (EMV)

Issue - State: open - Opened by matentzn about 1 month ago

#760 - DO NOT MERGE: Remove unused synonym sync files - build

Pull Request - State: closed - Opened by joeflack4 about 1 month ago - 1 comment
Labels: build

#759 - Remove unused synonym sync files

Pull Request - State: closed - Opened by joeflack4 about 1 month ago - 1 comment
Labels: code quality

#758 - DO NOT MERGE: Bug fix: Synonym Sync exclusions - build

Pull Request - State: closed - Opened by joeflack4 about 1 month ago
Labels: build

#757 - DO NOT MERGE - Build for Updated bugfix icd11 generated synonyms

Pull Request - State: closed - Opened by twhetzel about 1 month ago
Labels: build

#756 - Updated bugfix icd11 generated synonyms

Pull Request - State: closed - Opened by twhetzel about 1 month ago

#755 - DO NOT MERGE: Address `qc-duplicate-exact-synonym-no-abbrev` failures in `mondo` - build

Pull Request - State: closed - Opened by joeflack4 about 1 month ago
Labels: build

#753 - Update doid_exclusions.tsv

Pull Request - State: open - Opened by nicolevasilevsky about 1 month ago

#751 - Address `qc-duplicate-exact-synonym-no-abbrev` failures in `mondo`

Pull Request - State: closed - Opened by joeflack4 about 1 month ago - 1 comment
Labels: bug

#750 - DO NOT MERGE: Bug fix: ICD11 MONDO:GENERATED synonyms - build

Pull Request - State: closed - Opened by joeflack4 about 1 month ago - 1 comment
Labels: build

#749 - Bug fix: ICD11 `MONDO:GENERATED` synonyms

Pull Request - State: closed - Opened by joeflack4 about 1 month ago
Labels: bug

#748 - DO NOT MERGE: Bug fix: Synonym sync exclusions - mini build

Pull Request - State: closed - Opened by joeflack4 about 1 month ago - 1 comment
Labels: bug

#747 - Bug fix: Synonym sync exclusions

Pull Request - State: closed - Opened by joeflack4 about 1 month ago - 2 comments
Labels: bug

#746 - Bug fix: `synonym_lower` -> `synonym_join`

Pull Request - State: closed - Opened by joeflack4 about 1 month ago - 1 comment
Labels: bug

#745 - Synonym Sync: `MONDO:GENERATED` edge cases

Issue - State: open - Opened by joeflack4 about 1 month ago - 10 comments
Labels: bug, needs discussion

#744 - Data build files from `main` after mondo release

Pull Request - State: closed - Opened by twhetzel about 1 month ago - 1 comment
Labels: build

#743 - NCIT subclass neoplasm analysis

Pull Request - State: closed - Opened by joeflack4 about 2 months ago - 2 comments

#742 - Bug: Synonym Sync: `synonym_case_diff_*` variations amongst multiple templates

Issue - State: open - Opened by joeflack4 about 2 months ago
Labels: bug

#741 - DO NOT MERGE: Synonym Sync - Redundant whitespace - build

Pull Request - State: closed - Opened by joeflack4 about 2 months ago
Labels: build

#740 - Data build - Week 4 step

Pull Request - State: closed - Opened by twhetzel about 2 months ago
Labels: build

#739 - Synonym Sync - Redundant whitespace - mini build

Pull Request - State: closed - Opened by joeflack4 about 2 months ago
Labels: bug

#738 - Bug: Synonym sync: Redundant whitespace

Pull Request - State: closed - Opened by joeflack4 about 2 months ago - 4 comments
Labels: bug

#737 - DO NOT MERGE: Subclass Sync: Comments & Minor Refactor - build

Pull Request - State: open - Opened by joeflack4 2 months ago
Labels: build

#736 - Subclass sync: Comments & minor refactor

Pull Request - State: closed - Opened by joeflack4 2 months ago - 2 comments
Labels: code quality

#734 - Bug?: Subclass sync: Why many deletions? (DO & NCIT)

Issue - State: open - Opened by joeflack4 2 months ago - 7 comments
Labels: bug

#733 - Bug: Synonym sync: Redundant whitespace

Issue - State: closed - Opened by joeflack4 2 months ago
Labels: bug

#732 - `src/mappings/omim.sssom.tsv`: mappings to MIMs that don't exist

Issue - State: open - Opened by twhetzel 2 months ago - 1 comment
Labels: bug, data quality

#731 - DO NOT MERGE: ODK upgrade && `odkrunner` - build

Pull Request - State: open - Opened by joeflack4 2 months ago
Labels: build

#730 - DO NOT MERGE: Bug fixes: Synonym Sync - combined cases - build

Pull Request - State: closed - Opened by joeflack4 2 months ago - 1 comment
Labels: build

#729 - DO NOT MERGE - Test build from `develop`

Pull Request - State: closed - Opened by twhetzel 2 months ago - 1 comment
Labels: build

#728 - ODK upgrade && `odkrunner`

Pull Request - State: open - Opened by joeflack4 2 months ago
Labels: enhancement

#727 - Bug fixes: `synonym_sync_combined_cases.robot.tsv` & build hangs

Pull Request - State: closed - Opened by joeflack4 2 months ago - 1 comment
Labels: bug

#726 - Synonym sync: Don't compare lowercase of abbreviations?

Issue - State: closed - Opened by joeflack4 2 months ago - 6 comments
Labels: bug, needs discussion, data quality

#725 - Synonym sync: Refactor capitalization columns

Issue - State: open - Opened by joeflack4 2 months ago - 1 comment
Labels: data quality

#724 - Bug fix: Synonym Sync: Remove recapitalization of acronyms

Pull Request - State: closed - Opened by joeflack4 2 months ago - 2 comments
Labels: bug

#723 - DO NOT MERGE: Bug: Synonym Sync: Duplicate rows - build

Pull Request - State: closed - Opened by joeflack4 2 months ago
Labels: build

#722 - Add malacards to emc pipeline

Pull Request - State: open - Opened by matentzn 2 months ago
Labels: enhancement

#721 - DO NOT MERGE: Bug: Synonym Sync: Duplicate rows - mini build

Pull Request - State: closed - Opened by joeflack4 2 months ago - 1 comment
Labels: build

#720 - Bug: Synonym Sync: Duplicate rows

Pull Request - State: closed - Opened by joeflack4 2 months ago
Labels: bug

#719 - Utilize `odkrunner`

Issue - State: open - Opened by joeflack4 3 months ago - 6 comments
Labels: productivity, stability

#718 - Data build files for Week 1 of Mondo Release Cycle

Pull Request - State: closed - Opened by twhetzel 3 months ago
Labels: build

#717 - Do not merge?: Subclass Sync - Direct in source, indirect in Mondo - Mini build

Pull Request - State: closed - Opened by joeflack4 3 months ago - 1 comment
Labels: build

#716 - Subclass Sync: Redundant axioms

Issue - State: open - Opened by joeflack4 3 months ago
Labels: data quality

#715 - Grouping: `omimFormerly`, `omimIncluded`, & `includedEntryInOMIM`

Issue - State: open - Opened by joeflack4 3 months ago - 2 comments
Labels: grouping issue

#714 - Subclass Sync - Direct in source, indirect in Mondo

Pull Request - State: closed - Opened by joeflack4 3 months ago - 2 comments
Labels: enhancement

#713 - Data build from `develop`

Pull Request - State: closed - Opened by twhetzel 3 months ago
Labels: build

#712 - Check how confirmed synonyms as abbreviations are added

Issue - State: open - Opened by twhetzel 3 months ago - 1 comment

#711 - Delete duplicate variable declaration

Pull Request - State: closed - Opened by joeflack4 3 months ago - 4 comments
Labels: code quality

#710 - Develop

Pull Request - State: closed - Opened by matentzn 3 months ago

#709 - DO NOT MERGE - Test Build files from `develop` (23Nov2024)

Pull Request - State: closed - Opened by twhetzel 3 months ago
Labels: build

#708 - Bug in Subclass Sync: Missing evidence in "confirmed" table

Issue - State: closed - Opened by twhetzel 3 months ago - 8 comments
Labels: bug, priority

#706 - Synonym sync: Test `mondo.sssom.tsv` filtering

Pull Request - State: open - Opened by joeflack4 3 months ago - 2 comments
Labels: qc / test

#703 - Final merges of EMC and OMIM feature branches

Issue - State: closed - Opened by twhetzel 3 months ago - 1 comment

#698 - Rename OMIM axiom annotation properties

Pull Request - State: open - Opened by joeflack4 3 months ago
Labels: bug

#694 - DO NOT MERGE: Data build for #693

Pull Request - State: closed - Opened by matentzn 3 months ago

#692 - Synonym Sync - unsilence a goal

Pull Request - State: closed - Opened by joeflack4 3 months ago - 2 comments
Labels: stability

#691 - Bug: Empty `synonym_sync_combined_cases.robot.tsv`

Issue - State: closed - Opened by joeflack4 3 months ago - 1 comment
Labels: bug

#690 - Fix tests: Synonym Sync

Issue - State: closed - Opened by joeflack4 3 months ago
Labels: bug, qc / test

#684 - Bug: Synonym Sync: Duplicate rows

Issue - State: closed - Opened by joeflack4 3 months ago
Labels: bug

#681 - Remove GARD

Pull Request - State: closed - Opened by joeflack4 4 months ago - 8 comments
Labels: code quality

#678 - Should `mirror_signature-ncit.tsv` use component-download instead?

Issue - State: open - Opened by joeflack4 5 months ago
Labels: bug, ncit, needs discussion

#662 - Pronto reqs

Pull Request - State: closed - Opened by joeflack4 5 months ago - 1 comment
Labels: stability

#654 - DO NOT MERGE - Docs goals updates - build

Pull Request - State: closed - Opened by joeflack4 5 months ago - 1 comment
Labels: build

#650 - Add exclusion rules to mondo-excluded-values.yml

Pull Request - State: open - Opened by matentzn 6 months ago
Labels: enhancement, needs discussion

#630 - Benign attempt to resolve strange `LF` --> `CRLF` issue on Joe's machine

Pull Request - State: closed - Opened by joeflack4 7 months ago - 5 comments
Labels: ease:high

#628 - Upgrade externally managed content

Pull Request - State: closed - Opened by matentzn 7 months ago - 12 comments
Labels: bug, enhancement

#625 - Synchronising OMIM Included terms correctly

Issue - State: open - Opened by matentzn 7 months ago - 3 comments

#607 - Set the source of subclass sync to a merged version of edit and owl

Pull Request - State: closed - Opened by matentzn 8 months ago
Labels: enhancement

#534 - Bugfix: slurp docs `parents` column

Pull Request - State: closed - Opened by joeflack4 9 months ago - 5 comments
Labels: bug, documentation, ease:high

#532 - Delete goals: `slurp-no-updates`

Pull Request - State: closed - Opened by joeflack4 9 months ago - 2 comments
Labels: ease:high, code quality

#525 - Bug: `sync_subclass`: ancestors discrepancy

Issue - State: open - Opened by joeflack4 9 months ago - 10 comments
Labels: bug

#522 - Synchronization: Synonyms - final curation check

Issue - State: open - Opened by joeflack4 9 months ago - 4 comments

#437 - `update-repo-wrapper`

Pull Request - State: closed - Opened by joeflack4 about 1 year ago - 4 comments
Labels: bug, enhancement

#435 - Document SOP for updating the repo `sh run.sh make update_repo`

Issue - State: closed - Opened by matentzn about 1 year ago - 9 comments
Labels: documentation

#273 - MedGen reports on CUI conflicts with Mondo data

Issue - State: open - Opened by nicolevasilevsky almost 3 years ago - 20 comments

#209 - Typos in capitalization

Issue - State: open - Opened by paolaroncaglia almost 5 years ago - 13 comments
Labels: bug