update from upstream #9
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aroon-color
commented
Aug 5, 2025
- Fix missing genes in illumina.profile
- Add debug_novel to support detection of novel mutations
- Update indelpost to v0.2.3
- Add CPIC data
- Integrate CPIC functionality reporting
- Integrate CPIC functionality reporting
- Integrate CPIC functionality reporting
- Fix tests
- Add MT-RNR1; Add CPIC for G6PD and UGT1A1
- Add gene version info to output files
- Update README.rst
- Update README.rst
- Update README.rst
- PharmVar v6.2.14
- Update tests
- Update CI
- Update CI
- Update CI
- Update CI
- Update CI
- Update CI
- Fix aldy 4.8 ABCG2 CACNA1S RYR1 KeyError: 'up' 0xTCG/aldy#94
- Fix aldy 4.8 ABCG2 CACNA1S RYR1 KeyError: 'up' 0xTCG/aldy#94 and CI
- Fix aldy 4.8 ABCG2 CACNA1S RYR1 KeyError: 'up' 0xTCG/aldy#94 and CI
- Fix CI
- Update README.rst
- Fix Aldy fails when using --gene all 0xTCG/aldy#96; Fix the parameter documentation 0xTCG/aldy#97; Remove pharmacoscan definitions
- v4.8.2
- RTD update
- RTD update
- Update README.rst
- Bump release
- Color: Add customizations for our pipeline
- review comments
- Add allele variant id instead of minor allele name to config key
- *Drop G6PD A from config
- BIOINF: Work around known indelpost issue
- Include setuptools as a dependency for python>=3.12
- move all pkg_resources uses to importlib
- update
- Only import pytest if running tests
Signed-off-by: Aroon Chande <aroon.chande@color.com>
Signed-off-by: Aroon Chande <aroon.chande@color.com>
Signed-off-by: Aroon Chande <aroon.chande@color.com>
Signed-off-by: Aroon Chande <aroon.chande@color.com>
Signed-off-by: Aroon Chande <aroon.chande@color.com>
`pkg_resources` is deleted in 3.12 - which means setuptools will need to be present at runtime for the same functionality. https://docs.python.org/3/whatsnew/3.12.html python/cpython#95299 Upstream PR - 0xTCG#92
Signed-off-by: Aroon Chande <aroon.chande@color.com>
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