8a407abcc7db4a11459d510159866c30628500d6
hiram
  Fri Jan 24 09:54:25 2020 -0800
do not make symlinks to jpg files, there are none refs #24354

diff --git src/hg/makeDb/doc/globalReference/mkSymLinks.sh src/hg/makeDb/doc/globalReference/mkSymLinks.sh
index 15cf6d5..002ca99 100755
--- src/hg/makeDb/doc/globalReference/mkSymLinks.sh
+++ src/hg/makeDb/doc/globalReference/mkSymLinks.sh
@@ -1,50 +1,47 @@
 #!/bin/bash
 
 set -beEu -o pipefail
 
 export Name="GlobalReference"
 export subDir="globalReference"
 
 cd /hive/data/genomes/asmHubs/${subDir}
 
 ls -d */bbi | sed -e 's#/bbi##;' | while read asmId
 do
    mkdir -p /gbdb/hubs/$subDir/genomes/$asmId /gbdb/hubs/$subDir/genomes/$asmId/html
    rm -f /gbdb/hubs/$subDir/genomes/$asmId/bbi
    rm -f /gbdb/hubs/$subDir/genomes/$asmId/ixIxx
    rm -f /gbdb/hubs/$subDir/genomes/$asmId/html/*.html
-   rm -f /gbdb/hubs/$subDir/genomes/$asmId/html/*.jpg
-   rm -f /gbdb/hubs/$subDir/genomes/$asmId/html/*.png
    rm -f /gbdb/hubs/$subDir/genomes/$asmId/$asmId.2bit
    rm -f /gbdb/hubs/$subDir/genomes/$asmId/$asmId.agp
    rm -f /gbdb/hubs/$subDir/genomes/$asmId/$asmId.agp.gz
    rm -f /gbdb/hubs/$subDir/genomes/$asmId/$asmId.genomes.txt
    rm -f /gbdb/hubs/$subDir/genomes/$asmId/$asmId.trackDb.txt
    rm -f /gbdb/hubs/$subDir/genomes/$asmId/$asmId.chrom.sizes
    rm -f /gbdb/hubs/$subDir/genomes/$asmId/${asmId}_assembly_report.txt
    rm -f /gbdb/hubs/$subDir/hub.txt
    rm -f /gbdb/hubs/$subDir/groups.txt
    rm -f /gbdb/hubs/$subDir/index.html
    rm -f /gbdb/hubs/$subDir/testIndex.html
    rm -f /gbdb/hubs/$subDir/asmStats$Name.html
    rm -f /gbdb/hubs/$subDir/testAsmStats$Name.html
    rm -f /gbdb/hubs/$subDir/genomes.txt
    ln -s `pwd -P`/$asmId/bbi /gbdb/hubs/$subDir/genomes/$asmId/bbi
    ln -s `pwd -P`/$asmId/ixIxx /gbdb/hubs/$subDir/genomes/$asmId/ixIxx
    ln -s `pwd -P`/$asmId/html/*.html /gbdb/hubs/$subDir/genomes/$asmId/html/
-   ln -s `pwd -P`/$asmId/html/*.jpg /gbdb/hubs/$subDir/genomes/$asmId/html/
    ln -s `pwd -P`/$asmId/trackData/addMask/$asmId.masked.2bit /gbdb/hubs/$subDir/genomes/$asmId/$asmId.2bit
    ln -s `pwd -P`/$asmId/$asmId.agp.gz /gbdb/hubs/$subDir/genomes/$asmId/$asmId.agp.gz
    ln -s `pwd -P`/$asmId/$asmId.genomes.txt /gbdb/hubs/$subDir/genomes/$asmId
    ln -s `pwd -P`/$asmId/$asmId.chrom.sizes /gbdb/hubs/$subDir/genomes/$asmId
    ln -s `pwd -P`/$asmId/$asmId.trackDb.txt /gbdb/hubs/$subDir/genomes/$asmId
    ln -s `pwd -P`/$asmId/download/${asmId}_assembly_report.txt /gbdb/hubs/$subDir/genomes/$asmId/
    ln -s /hive/data/genomes/asmHubs/${subDir}/hub.txt /gbdb/hubs/$subDir/
    ln -s /hive/data/genomes/asmHubs/${subDir}/groups.txt /gbdb/hubs/$subDir/
    ln -s /hive/data/genomes/asmHubs/${subDir}/index.html /gbdb/hubs/$subDir/
    sed -e "s/hgdownload.soe/genome-test.gi/g; s/asmStats$Name/testAsmStats$Name/;" /hive/data/genomes/asmHubs/${subDir}/index.html > /hive/data/genomes/asmHubs/${subDir}/testIndex.html
    chmod +x /hive/data/genomes/asmHubs/${subDir}/testIndex.html
    ln -s /hive/data/genomes/asmHubs/${subDir}/testIndex.html /gbdb/hubs/$subDir/
    ln -s /hive/data/genomes/asmHubs/${subDir}/genomes.txt /gbdb/hubs/$subDir/
    ln -s /hive/data/genomes/asmHubs/${subDir}/asmStats$Name.html /gbdb/hubs/$subDir/
    sed -e 's/hgdownload.soe/genome-test.gi/g; s/index.html/testIndex.html/;' /hive/data/genomes/asmHubs/${subDir}/asmStats$Name.html > /hive/data/genomes/asmHubs/${subDir}/testAsmStats$Name.html