Deprecared version in conda break `pyensembl` installation in bioconda
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- Dominant language
- Python
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Description
Hi,
Thank you for the useful tool. Conda distributes only an old version 1.1.5 of datacache which is used by pyensembl through the bioconda installation. However, the version 1.1.5 is deprecated and it therefore breaks pyensembl during installation of reference genomes with the following error:
AttributeError: module 'numpy' has no attribute 'typeDict'
Everything can be fixed by upgrading datacache using pip; however if we could please add a new version of datacache on conda, this problem will not be there and many tools using pyensembl will not require pip upgrades after the conda installation.
Thank you!
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Research direction
Start by checking how datacache version 1.1.5 is distributed through the linked bioconda pyensembl package and identify the conda recipe or release entry involved. Done means a current datacache version is available on conda and pyensembl can install reference genomes without the numpy.typeDict error.
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Assessment
- Tech stack
- python
- Domain
- release
- Issue type
- Bug
- Difficulty
- 3/5
- Estimated time
- 1-2 days
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 35/100