d0aad7f66c2fee0fa9366c3b3caf4d761750c055
braney
  Tue Aug 17 10:27:07 2021 -0700
first version of Gencode genes (knownGene version) for mm39

diff --git src/hg/utils/otto/knownGene/buildCgap.sh src/hg/utils/otto/knownGene/buildCgap.sh
new file mode 100755
index 0000000..6ad271c
--- /dev/null
+++ src/hg/utils/otto/knownGene/buildCgap.sh
@@ -0,0 +1,17 @@
+#!/bin/sh -ex
+
+mkdir -p $dir/cgap
+cd $dir/cgap
+
+wget --timestamping -O Mm_GeneData.dat "ftp://ftp1.nci.nih.gov/pub/CGAP/Mm_GeneData.dat"
+hgCGAP Mm_GeneData.dat
+
+cat cgapSEQUENCE.tab cgapSYMBOL.tab cgapALIAS.tab|sort -u > cgapAlias.tab
+hgLoadSqlTab -notOnServer $tempDb cgapAlias $kent/src/hg/lib/cgapAlias.sql ./cgapAlias.tab
+
+hgLoadSqlTab -notOnServer $tempDb cgapBiocPathway $kent/src/hg/lib/cgapBiocPathway.sql ./cgapBIOCARTA.tab
+
+cat cgapBIOCARTAdesc.tab|sort -u > cgapBIOCARTAdescSorted.tab
+hgLoadSqlTab -notOnServer $tempDb cgapBiocDesc $kent/src/hg/lib/cgapBiocDesc.sql cgapBIOCARTAdescSorted.tab
+
+echo "BuildCgap successfully finished"