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ClinVar Records Expert Panels / Allele UI tidy #862

Merged
merged 45 commits into from
Aug 15, 2023
Merged

ClinVar Records Expert Panels / Allele UI tidy #862

merged 45 commits into from
Aug 15, 2023

Commits on Jul 28, 2023

  1. Show ClinVar details on allele apge at all times 

    - start integrating API for the data
    @TheMadBug
    TheMadBug committed Jul 28, 2023
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  2. Migrate clinvar display code to clinvar_tag

    @TheMadBug
    TheMadBug committed Jul 28, 2023
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  3. Tidy up presentation of clinvar_tag

    @TheMadBug
    TheMadBug committed Jul 28, 2023
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  4. Display XML (unformatted) of ClinVar data

    @TheMadBug
    TheMadBug committed Jul 28, 2023
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Commits on Jul 30, 2023

  1. Start parsing the XML of the CLinVar URLs to get the specific classif… 

    …ication details
    @TheMadBug
    TheMadBug committed Jul 30, 2023
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Commits on Jul 31, 2023

  1. Change most of the ClinVar data to be ajax loaded in detail from Clinvar

    @TheMadBug
    TheMadBug committed Jul 31, 2023
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  2. Fix my config file re new fasta

    @TheMadBug
    TheMadBug committed Jul 31, 2023
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  3. Merge branch 'refs/heads/master' into feature/clinvar_xml_import

    @TheMadBug
    TheMadBug committed Jul 31, 2023
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Commits on Aug 1, 2023

  1. ClinVar display: Load all relevant RCVs, better display

    @TheMadBug
    TheMadBug committed Aug 1, 2023
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  2. Use proper Entrez for fetching ClinVar data

    @TheMadBug
    TheMadBug committed Aug 1, 2023
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  3. ClinVarIn: Fix orphanet conditions, sort order

    @TheMadBug
    TheMadBug committed Aug 1, 2023
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  4. ClinVarExpertPanel: Only show records when user toggles

    @TheMadBug
    TheMadBug committed Aug 1, 2023
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Commits on Aug 3, 2023

  1. Have the clinvar_tag work in expert panel mode or normal mode

    @TheMadBug
    TheMadBug committed Aug 3, 2023
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  2. Fixed issue where only expert panels were being retrieved regardless … 

    …of mode
    @TheMadBug
    TheMadBug committed Aug 3, 2023
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Commits on Aug 4, 2023

  1. Merge branch 'refs/heads/master' into feature/clinvar_xml_import

    @TheMadBug
    TheMadBug committed Aug 4, 2023
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  2. ClinVarRecords: Cache individual records

    @TheMadBug
    TheMadBug committed Aug 4, 2023
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Commits on Aug 7, 2023

  1. Provide expert panel compare export (admin only for now)

    @TheMadBug
    TheMadBug committed Aug 7, 2023
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  2. Merge branch 'refs/heads/master' into feature/clinvar_xml_import

    @TheMadBug
    TheMadBug committed Aug 7, 2023
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  3. Slight improvements to ClinVar Admin Screen

    @TheMadBug
    TheMadBug committed Aug 7, 2023
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  4. Merge branch 'refs/heads/master' into feature/clinvar_xml_import

    @TheMadBug
    TheMadBug committed Aug 7, 2023
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Commits on Aug 8, 2023

  1. Update re-match testing code

    @TheMadBug
    TheMadBug committed Aug 8, 2023
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  2. Make imported allele info comprae print as it goes

    @TheMadBug
    TheMadBug committed Aug 8, 2023
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  3. Clinvar XML Parser - handle dates with timezones in them

    @TheMadBug
    TheMadBug committed Aug 8, 2023
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  4. Remove unused imports

    @TheMadBug
    TheMadBug committed Aug 8, 2023
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  5. Better admin screens for ClinVar data

    @TheMadBug
    TheMadBug committed Aug 8, 2023
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  6. Put a retry in retrieving ClinVar records

    @TheMadBug
    TheMadBug committed Aug 8, 2023
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Commits on Aug 10, 2023

  1. Tidy up display on allele page

    @TheMadBug
    TheMadBug committed Aug 10, 2023
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  2. View allele UI fixes (removing old code)

    @TheMadBug
    TheMadBug committed Aug 10, 2023
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  3. Merge branch 'refs/heads/master' into feature/allele_tidy_2 

    # Conflicts:
#	classification/management/commands/imported_allele_info_check.py
    @TheMadBug
    TheMadBug committed Aug 10, 2023
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  4. Tidy up ClinVar Expert Panels a little

    @TheMadBug
    TheMadBug committed Aug 10, 2023
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  5. Fix the style of some links

    @TheMadBug
    TheMadBug committed Aug 10, 2023
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Commits on Aug 11, 2023

  1. Allele page: Don't show g.HGVS, renamed Resolved From to Imported As

    @TheMadBug
    TheMadBug committed Aug 11, 2023
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  2. Allele page - fix font size of table to be more readable

    @TheMadBug
    TheMadBug committed Aug 11, 2023
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  3. ClinVar Expert Panels - tidy up/comment code 

    Fix HP terms in disease list
    @TheMadBug
    TheMadBug committed Aug 11, 2023
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Commits on Aug 13, 2023

  1. Merge branch 'refs/heads/master' into feature/allele_tidy_2

    @TheMadBug
    TheMadBug committed Aug 13, 2023
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  2. ClinVar Records: comment code, delete dead code

    @TheMadBug
    TheMadBug committed Aug 13, 2023
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Commits on Aug 14, 2023

  1. Merge branch 'refs/heads/master' into feature/allele_tidy_2

    @TheMadBug
    TheMadBug committed Aug 14, 2023
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  2. Remove links to allele/ClinVar in ClinVar admin as just too database … 

    …intensive.
    @TheMadBug
    TheMadBug committed Aug 14, 2023
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Commits on Aug 15, 2023

  1. Merge branch 'refs/heads/master' into feature/allele_tidy_2

    @TheMadBug
    TheMadBug committed Aug 15, 2023
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  2. ClinVarRecords - simplify code by removing min_stars on caching 

    Still provide it for displaying.
    @TheMadBug
    TheMadBug committed Aug 15, 2023
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  3. Allele page - tidy up, g.HGVS, allele infos

    @TheMadBug
    TheMadBug committed Aug 15, 2023
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  4. Remove dead code

    @TheMadBug
    TheMadBug committed Aug 15, 2023
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  5. Fix sort order of Imported Allele Infos

    @TheMadBug
    TheMadBug committed Aug 15, 2023
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  6. Link externally for ontology terms we don't store

    @TheMadBug
    TheMadBug committed Aug 15, 2023
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  7. Display ClinVar record curated date rather than updated date

    @TheMadBug
    TheMadBug committed Aug 15, 2023
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