Comments (2)
suggestion fro @EbiArnie , download the MySQL dump of dna table as it contains all the sequences and ingest that
from ensembllite.
This has been addressed by recent changes in cogent3. Make sure you have install cogent3 from the GitHub repo!
from ensembllite.
Related Issues (20)
- SMBE workshop tasks
- installed does not show homology data installation
- alignments should use a directory data store
- alignments command should accept file of genomic coordinates
- MAF files contain duplicated alignment blocks HOT 1
- establish whether duckdb is a viable replacement to sqlite
- ENH: ability to get summary statistics for Ensembl hosted genomes
- download.cfg paths should be relative HOT 1
- ENH: make download experience more robust
- create a docker container for installing EnsemblLite HOT 2
- add option to just get homology info to compara section HOT 1
- DOC: create docs for users
- Initial release on pypi
- investigate process for GitHub action based PyPI releases HOT 3
- install fails on some systems HOT 1
- Restarting install triggers SQL error HOT 1
- download issue HOT 2
- Exporting homolog groups issue HOT 2
- when num CPU is 1, don't use multiprocess
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