Add this suggestion to a batch that can be applied as a single commit.
This suggestion is invalid because no changes were made to the code.
Suggestions cannot be applied while the pull request is closed.
Suggestions cannot be applied while viewing a subset of changes.
Only one suggestion per line can be applied in a batch.
Add this suggestion to a batch that can be applied as a single commit.
Applying suggestions on deleted lines is not supported.
You must change the existing code in this line in order to create a valid suggestion.
Outdated suggestions cannot be applied.
This suggestion has been applied or marked resolved.
Suggestions cannot be applied from pending reviews.
Suggestions cannot be applied on multi-line comments.
Suggestions cannot be applied while the pull request is queued to merge.
Suggestion cannot be applied right now. Please check back later.
Description
Update to the RefSeqGPFFParserr as part of the efforts of the xref sprint.
See ENSCORESW-2898.
Genbank parser from ensembl-io is now used to parse the source files instead of a custom parser.
This will require Ensembl/ensembl-io#69 to be merged.
There are a few differences introduced from the original parser. For instance, only refseq ids with the prefixes defined in $refseq_sources are considered. Previously for peptide files all other possible types were considered and treated as RefSeq_peptide.
Testing
No unit tests.
Tested with subset of rat, however related xrefs were absent.
Ongoing testing with full dataset.