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2023-07-31Use the correct name for Monkey (Macaca nemestrina)Munyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-31Use remap-identifiersMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-31Merge branch 'master' into self-document-while-dumpingBonfaceKilz
2023-07-31Pass a default dump-directory when dumping table metadataMunyoki Kilyungi
* dump/schema-dump.scm (dump-data-table): Add extra optional arg "default-dump-directory". Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-31Add missing importsMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-31Add gnc: prefixMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-31Replace "gn-term" with "gnt" prefixMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-31Use "string->binomial-name" to id speciesMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-31Add new method "string->binomial-name"Munyoki Kilyungi
* dump/triples.scm: Export string->binomial-name. (string->binomial-name): New procedure. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-31Add missing importMunyoki Kilyungi
* dump/strings.scm: Import (ice-9 textual-ports) Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-31Replace set! mutations with an alistMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-31Use correct URL for rdf prefixMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-31Replace "?s ?p ?o" with "*"Munyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-31Update some minor formattingMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-31Convert subject into a string if it's a symbolMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Add gnc: prefixMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Replace "gn-term" with "gnt" prefixMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Use "string->binomial-name" to id speciesMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Add new method "string->binomial-name"Munyoki Kilyungi
* dump/triples.scm: Export string->binomial-name. (string->binomial-name): New procedure. Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Update wikidata species schemaMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Add missing importMunyoki Kilyungi
* dump/strings.scm: Import (ice-9 textual-ports) Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Replace set! mutations with an alistMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Use correct URL for rdf prefixMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Replace "?s ?p ?o" with "*"Munyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Update some minor formattingMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Convert subject into a string if it's a symbolMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Update wikidata metadataMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Add dct: prefix to genotype dumpMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Update phenotype dumpMunyoki Kilyungi
2023-07-30Make define-dump take extra args as keyMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Dump prefixes correctly when auto-generating docsMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Dump probesetfreeze metadata using new metadataMunyoki Kilyungi
2023-07-30Dump probeset-metadata using the new syntaxMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Dump genotypes with the new syntaxMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Use "gn:" and "gn-term:" when dumping phenotypesMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Replace "publication:" with "pubmed:"Munyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Use "gn:" and "gn-terms" prefixesMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Make 'inputs' and 'outputs' fields listsMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Remove unnecessary prefixesMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Use a min of 4 should the schema triples be manyMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Only document a triple if it existsMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Rename 'gn-id' prefix to 'gn'Munyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Replace :gn with :gn-id and :gn-termMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Dump phenotypes with documentation.Munyoki Kilyungi
2023-07-30Make the default ontology "gn-id:"Munyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Dump probeset metadata with documentationMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Update tissue dump to use gn-term/gn-idMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Replace gn with gn-term and gn-id where suitableMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Use size of the results set to come up with sparql exampleMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
2023-07-30Replace gn:species with gn-speciesMunyoki Kilyungi
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>