Something changed last year in a way that caused the entire defline to be loaded as an alias. seqrepo releases since last June or so are affected. This affects NCBI and Ensembl.
~See comments in cli.py::load()~
This issue is a master list for work to comprehensively fix parsing. It will need to span several package and data releases.
0.5.5
[x] Move defline parsing to separate fx and add tests (#78)
[x] Create mechanism to modify/fix existing databases in place (#79)
[x] Require Ensembl aliases to have a version and remove unversioned from db (#80)
[x] Reject whitespace in aliases and fix existing db (#83)
[x] Drop support for gi and genbank and remove from db (#81)
Something changed last year in a way that caused the entire defline to be loaded as an alias. seqrepo releases since last June or so are affected. This affects NCBI and Ensembl. ~See comments in
cli.py::load()~This issue is a master list for work to comprehensively fix parsing. It will need to span several package and data releases.
0.5.5
Ensemblaliases to have a version and remove unversioned from db (#80)giandgenbankand remove from db (#81)