Fix Qleverfile for UniProt

ad-freiburg · Feb 23, 2024 · 1ec51db · 1ec51db
1 parent bfe72aa
commit 1ec51db
Showing 1 changed file with 2 additions and 2 deletions.
diff --git a/Qleverfiles/Qleverfile.uniprot b/Qleverfiles/Qleverfile.uniprot
@@ -17,8 +17,8 @@ NAME              = uniprot
 DATE              = 2024-01-24
 DOWNLOAD_URL      = https://ftp.uniprot.org/pub/databases/uniprot/current_release/rdf
 GET_RDFXML_CMD    = mkdir -p rdf.${DATE} && curl -s ${DOWNLOAD_URL}/RELEASE.meta4 | sed "s/<metalink.*/<metalink>/" | xmllint --xpath "/metalink/files/file/url[@location=\"ch\"]/text()" - | while read URL; do wget --no-verbose -P rdf.${DATE} $$URL 2>&1 | tee -a uniprot.download-log; done
-RDFXML2NT_CMD     = mkdir -p nt.${DATE} && for RDFXML in rdf.${DATE}/*.{owl,owl.xz,rdf,rdf.xz}; do echo "xzcat -f $$RDFXML | rdfxml --output=nt 2> /dev/null | xz -c > nt.${DATE}/$$(basename ${RDFXML} | sed 's/\(rdf\|rdf.xz\|owl\|owl.xz\)$$/nt.xz/') && echo 'DONE converting ${RDFXML}'"; done | parallel
-GET_DATA_CMD      = ${GET_RDFXML_CMD} && ${RDFXML2NT_CMD}
+RDFXML2NT_CMD     = mkdir -p nt.${DATE} && for RDFXML in rdf.${DATE}/*.{owl,owl.xz,rdf,rdf.xz}; do echo "xzcat -f $$RDFXML | rdfxml --output=nt 2> /dev/null | xz -c > nt.${DATE}/$$(basename $$RDFXML | sed 's/\(rdf\|rdf.xz\|owl\|owl.xz\)$$/nt.xz/') && echo 'DONE converting $$RDFXML'"; done | parallel
+GET_DATA_CMD      = rdfxml --help && date > ${NAME}.get-data.begin-date && ${GET_RDFXML_CMD} && ${RDFXML2NT_CMD} && date > ${NAME}.get-data.end-date
 INDEX_DESCRIPTION = Complete UniProt data from ${DOWNLOAD_URL}, version ${DATE}
 
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