| Age | Commit message (Expand) | Author |
|---|
| 2023-06-12 | Rename sql-alias of GN notes during dataset dump•••Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-06-12 | Add rdf defs for datasetOfSpecies•••Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-06-12 | Add publicationTitle to dataset dump•••Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-06-12 | Make geoSeries a link during dataset dump•••Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-06-12 | Minor identation fix•••Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-06-12 | Add organization to dataset dump•••Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-06-12 | Use NCBI taxonomy browser instead of uniprot•••NCBI presents data in a user friendly way from the taxid. To get the
same data from uniprot, you need a unique identify which requires an
extra query to retrieve.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-06-12 | Cast longtext fields to fix broket utf-8 characters•••Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-06-12 | Remove dead comments•••Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-06-12 | Remove "^[Nn]one$" from some fields from the InfoFiles table•••Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-06-12 | Default to InfoFiles with the Dataset being a fallback for citations•••Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-06-12 | Make ((g/ph)enotype/probeset)Dataset subset of Dataset•••Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-05-30 | Dump OMIM as a normal string without any annotation•••Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-05-30 | Fix broken utf-8 strings in abstract field•••Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-05-30 | Add probeset as an extra prefix•••Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-05-30 | Delete unused prefixes•••Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-05-30 | Replace species with inbredSet metadata when dumping info-files•••Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-05-30 | Only dump public data•••Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-05-30 | Sanitize a probeset's description•••Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-05-30 | Update the probeset's identifier(object)•••Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-05-30 | Make a probeset's tissue multiset•••Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-05-30 | Make a probeset's alias a multiset•••Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-05-30 | Move probeset metadata used for a given experiment to it's own dump•••Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-05-26 | Use a phenotype's abbreviation as it's name•••Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-05-26 | Make tissue a multi-set during the probeset dump•••Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-05-26 | Remove some metadata from the probeset dump•••Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-05-26 | Create a new probesetfreeze dump•••This way, the probeset dump will become smaller.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-05-26 | Return an empty string if a dataset doesn't have a name•••Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-05-26 | Remove unnecessary fields from probeset dump•••Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-05-26 | Sanitize a generif entry from GN•••Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-05-26 | Add genotype dump•••* examples/dump-genotype.scm: New dump for genotypes and their
associated datasets(that were not dumped from the info-files table).
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-05-26 | Fix broken utf-8 chars when dumping an investigator's names•••* examples/dump-dataset-metadata.scm (dump-investigators) <foaf:name,
foaf:givenName>: Binary convert fields first to latin1 then utf8.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-05-26 | Remove an investigator's email/phone from dump for privacy reasons•••* examples/dump-dataset-metadata.scm (dump-investigators) <foaf:phone,
foad:mbox>: Delete.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-05-26 | Update a dataset's subject identifier to be a gn url•••Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-05-26 | Annotate createtime field correctly with xsd:date•••* examples/dump-phenotype.scm (dump-publishfreeze): Use xsd:date to
annotate PublishFreeze's CreateTime field.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
| 2023-05-26 | Replace dump.scm with separete dumps for several tables•••Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
| Munyoki Kilyungi |
