| Age | Commit message (Collapse) | Author | |
|---|---|---|---|
| 2024-08-16 | Delete un-used functions during generif transform. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-08-14 | Correctly check for blank string in GeneRIF.initial. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-08-14 | Remove Investigators from GeneRIF join. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-08-14 | Apply formatting. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-08-14 | Add email to WIKI transform. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-08-14 | Replace [] with () in let* form. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-08-14 | Remove 'gene: ontology from GeneId prefix. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-08-14 | Make symbol field a multiset in probeset transform. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-08-14 | Add missing RDF prefix during ProbeSet transform. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-07-30 | Update GeneRIF metadata with "reason" for modification. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-07-30 | Add "gnt:initial" to GeneRIF metadata comments. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-07-30 | Update GeneRIF metadata to contain "dct:identifier" for each comment. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-07-30 | Use correct term for RIF id and annotate it with an int. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-07-30 | Update GeneRIF metadata to contain the version-id. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-07-29 | Add a script for generating the TTL files. | Munyoki Kilyungi | |
| * generate-ttl-files.scm: New script. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-07-19 | Add comment. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-07-15 | Add missing RIF symbols. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-07-10 | Replace "FIXME" with relevant info in the docs. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-07-10 | Unfill paragraphs. | Munyoki Kilyungi | |
| Don't break paragraphs. It makes future edits easier to diff. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-07-10 | Document running actual transformation scripts | Frederick Muriuki Muriithi | |
| Document an example command to invoke to enable the actual transformation of the data to be done. This will need to be cleaned up, and the commands will also need to check for the appropriate arguments before attempting to run in the first place. Reviewed-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-07-10 | Rename script: Give file a more relevant name. | Frederick Muriuki Muriithi | |
| Reviewed-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-07-10 | Replace "dump" -> "transform" where relevant. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-07-10 | Remove the "generif-data-file" from the documentation. | Munyoki Kilyungi | |
| Right now, we get the generif metadata from the GeneRIF_BASIC table. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-07-10 | Provide sample JSON file and update instruction in docs | Frederick Muriuki Muriithi | |
| The documentation for generating a transformation of a JSON file into a Terse RDF Triple Language (Turtle) form was incomplete. This commit provides a sample JSON file that can be used to demonstrate the working of the code. Reviewed-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-05-20 | Add pointers to git metadata in RDF for the dataset metadata. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-05-15 | manifest.scm: Use upstream ccwl. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-05-15 | Use a set to represent a phenotype's owner. | Munyoki Kilyungi | |
| The owners in the database is not a consistent comma separated list. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-05-15 | Replace rdfs:label with gnt:traitId for Phenotypes. | Munyoki Kilyungi | |
| 2024-02-15 | Refactor how changes are committed and pushed. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-02-15 | Remove call to string-append when defining dir-name local var. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-02-15 | Filter out files that only have "None". | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-02-14 | Capitalize the first string of every path. | Munyoki Kilyungi | |
| This is done to match the RDF identifier. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-02-13 | Convert extra dataset metadata to text-files. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-02-13 | Remove more fields from dataset's RDF output. | Munyoki Kilyungi | |
| These are: "Experiment_Type", "Contributors" & "Citation" which are already in RTF form. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-02-13 | Fix missplaced parens. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-02-09 | Re-add triplets that describe dataset terms. | Munyoki Kilyungi | |
| These triplets will be re-used when constructing the json-ld endpoints for GN3. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-02-09 | Update push and reset git commands. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-02-09 | Use correct path to the datasets directory. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-02-08 | Delete rdf triplets from dataset transform. | Munyoki Kilyungi | |
| These triplets are now stored as text files and versioned in git. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-02-08 | Add method for commiting changes to the gn-docs git repo. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-02-08 | Delete unused variable in the getopts arglist. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-02-08 | Fix typo. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-02-08 | Fix how the dataset directory is constructed. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-02-08 | Remove "string->identifier" for the dataset directory name. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-02-08 | Use correct format string literal when printing out sql results. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-02-08 | Update local git-repo directory. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-02-08 | Add a basic guile script to transform stored rtf data to files. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-01-08 | Add InfoFiles.Experiment_Type metadata. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2024-01-05 | Correct formatting for the gnt:location predicate for ProbeSets. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
| 2023-12-22 | Fix typo with pantherLink ResourceLink. | Munyoki Kilyungi | |
| Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com> | |||
 |
index : gn-transform-databases | |
| Data transformers for GeneNetwork (particularly to RDF) |
| aboutsummaryrefslogtreecommitdiff |