58972c744024ac33cca07b80375635aff97315f3 jcasper Sun Jul 19 21:17:20 2026 -0700 Noting for knownGene builds that we're not building gnfU95Distance now, as hgNearData isn't listing it as an option. refs #37395, #37393 diff --git src/hg/makeDb/doc/ucscGenes/hg19.gencodeV50lift37.sh src/hg/makeDb/doc/ucscGenes/hg19.gencodeV50lift37.sh index 4a1f4c8df7c..473f171a7bb 100644 --- src/hg/makeDb/doc/ucscGenes/hg19.gencodeV50lift37.sh +++ src/hg/makeDb/doc/ucscGenes/hg19.gencodeV50lift37.sh @@ -1,23 +1,25 @@ export db=hg19 export GENCODE_VERSION=V50lift37 export PREV_GENCODE_VERSION=V49lift37 screen -S knownGene${GENCODE_VERSION} mkdir /hive/data/genomes/$db/bed/gencode$GENCODE_VERSION/build cd /hive/data/genomes/$db/bed/gencode$GENCODE_VERSION/build PATH=$HOME/kent/src/hg/utils/otto/knownGene":$PATH" cp /hive/data/genomes/${db}/bed/gencode${PREV_GENCODE_VERSION}/build/buildEnv.sh buildEnv.sh # edit buildEnv.sh +# NB - commented out the line that causes gnfU95Distance to be built, since the corresponding +# line in hgNearData has been commented out for a while. . buildEnv.sh cp ${oldGeneDir}/${PREV_GENCODE_VERSION}.files.txt . cp ${oldGeneDir}/${PREV_GENCODE_VERSION}.tables.txt . hgsql ${oldKnownDb} -Ne "show tables" > ${oldKnownDb}.tables.txt diff <(sort ${PREV_GENCODE_VERSION}.tables.txt) <(sort ${oldKnownDb}.tables.txt) # no difference buildKnown.sh & # Continue with the steps to load the tables into the database.