From aabe2fcc6b9e48269b0051bf115093d974d10065 Mon Sep 17 00:00:00 2001
From: Munyoki Kilyungi
Date: Mon, 5 Jun 2023 22:35:49 +0300
Subject: 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>
---
 examples/dump-generif.scm | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'examples/dump-generif.scm')

diff --git a/examples/dump-generif.scm b/examples/dump-generif.scm
index 083490f..b546f42 100755
--- a/examples/dump-generif.scm
+++ b/examples/dump-generif.scm
@@ -36,7 +36,7 @@
               (string-split
                (field ("GROUP_CONCAT(DISTINCT Species.SpeciesName)" species))
                #\,))
-    (multiset gn:taxId (map (cut ontology 'taxon: <>)
+    (multiset gn:taxId (map (cut ontology 'ncbiTaxon: <>)
                             (string-split (field ("GROUP_CONCAT(DISTINCT TaxID)" taxId))
                                           #\,)))))
 
@@ -139,7 +139,7 @@
        (prefix "dct:" "<http://purl.org/dc/terms/>")
        (prefix "pubmed:" "<http://rdf.ncbi.nlm.nih.gov/pubmed/>")
        (prefix "up:" "<http://purl.uniprot.org/core/>")
-       (prefix "taxon:" "<http://purl.uniprot.org/taxonomy/>")
+       (prefix "ncbiTaxon:" "<https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&id=>")
        (prefix "generif:" "<http://www.ncbi.nlm.nih.gov/gene?cmd=Retrieve&dopt=Graphics&list_uids=>")
        (prefix "xsd:" "<http://www.w3.org/2001/XMLSchema#>")
        (prefix "owl:" "<http://www.w3.org/2002/07/owl#>")
-- 
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