Commits · 3bdb824822bd477cf51997a357fec61e511ee40b · meldb / concepts-processing · GitLab

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Apr 04, 2025
- (bug) parse.py unknown check_regex param · 75ffab97
  Jakub Dylag authored 2 months ago
  
  75ffab97
- (bug) parse.py "read3" column named "Read3" · 3e3baa3f
  Jakub Dylag authored 2 months ago
  
  3e3baa3f
Mar 11, 2025
- (docs) updated documeantion and private variables/functions. Closes #55 · 7a1fe5ce
  mjbonifa authored 3 months ago
  
  7a1fe5ce
Mar 10, 2025
- (fix) fixed all typing and ready for documentation · 9254ae24
  mjbonifa authored 3 months ago
  
  9254ae24
Mar 09, 2025
- added pdocs document generation using the command hatch run docs. Creates html... · 3f1ca235
  mjbonifa authored 3 months ago
  3f1ca235
Feb 26, 2025
- fix: added map definition to the config.yaml so that we know which maps are... · e549bf4b
  mjbonifa authored 3 months ago
  e549bf4b
Feb 23, 2025
- added gitignore to phen init. closes #4 · 60973bce
  mjbonifa authored 4 months ago
  
  60973bce
- test: run mypc to check types and add annotations. run black and reformatted... · 53a9f037
  mjbonifa authored 4 months ago
  53a9f037
- test: run mypc to check types and add annotations. run black and reformatted... · 829bb6c2
  mjbonifa authored 4 months ago
  829bb6c2
Feb 21, 2025
- implemented first part of export to create the omop database refactoring setup... · 4cbcdfe5
  mjbonifa authored 4 months ago
  4cbcdfe5
- refactord build directory. Moved trud and omop to a vocab directory. Moved... · e6fa6be4
  mjbonifa authored 4 months ago
  e6fa6be4
Feb 20, 2025
- moved code types to a CodeTypeParser class they depend on the existance of the... · 8e356322
  mjbonifa authored 4 months ago
  8e356322
- added initial pyproject.toml and testing creating package without conda.yaml,... · f51e056a
  mjbonifa authored 4 months ago
  f51e056a
- added logging errors back in phen code, and not nested in the lambda function of parse · 09d928c9
  mjbonifa authored 4 months ago
  
  09d928c9
- added exceptions in phen · 25fa78ab
  mjbonifa authored 4 months ago
  
  25fa78ab
- standardised code_type import in phen · 305237d5
  mjbonifa authored 4 months ago
  
  305237d5
Feb 19, 2025
- moved metadata to preprocess function · 8c8ce07c
  mjbonifa authored 4 months ago
  
  8c8ce07c
- Refactored base into logging; moved raise_ to raise_exception in parse as more... · 131f74ac
  mjbonifa authored 4 months ago
  131f74ac
Feb 18, 2025
- refactored files into the module acmc and sorted all the imports · 5e1fdfc4
  mjbonifa authored 4 months ago
  
  5e1fdfc4
- changed all print statements for logging, and configured the default level... · 7de89272
  mjbonifa authored 4 months ago
  7de89272
- shorted all the _code references removing _code as not needed and maps API and configuration easier · c87d1411
  mjbonifa authored 4 months ago
  
  c87d1411
Feb 16, 2025
- refactored trud constants from MAPS to TRUD · c156c2d0
  mjbonifa authored 4 months ago
  
  c156c2d0
Feb 15, 2025
- the _code suffix makes a difference to a lot of thigns, need to work that out · cb24de86
  mjbonifa authored 4 months ago
  
  cb24de86
- fixed default output and error files · 945ff7ca
  mjbonifa authored 4 months ago
  
  945ff7ca
- added acmc command line wrapper for entire toolkit moving parameter passing... · 9c72a9b3
  mjbonifa authored 4 months ago
  9c72a9b3
Jan 10, 2025
- rename error log columns, moved omop code definitions to parse.py · 850bd595
  Jakub Dylag authored 5 months ago
  
  850bd595
Oct 31, 2024
- Summary Sheet to CSV and filepath in JSON file · 4929dd79
  Jakub Dylag authored 7 months ago
  
  4929dd79
Apr 18, 2024
- init · 74a5e2b0
  Jakub Dylag authored 1 year ago
  
  74a5e2b0