62b1428915cc2c8b9acbf46a86c1248833257efe
mspeir
  Mon Nov 17 18:50:32 2025 -0800
changing rest of genome-source references to github, refs #34485

diff --git src/hg/utils/automation/faToHub.sh src/hg/utils/automation/faToHub.sh
index d9884457969..3a92c80232a 100755
--- src/hg/utils/automation/faToHub.sh
+++ src/hg/utils/automation/faToHub.sh
@@ -56,31 +56,31 @@
 if [ "${asmId}.2bit" -nt "${asmId}.chrom.sizes.txt" ]; then
    printf "# time twoBitInfo ${asmId}.2bit stdout | sort -k2,2nr > ${asmId}.chrom.sizes.txt\n" 1>&2
    printf "# time twoBitInfo ${asmId}.2bit stdout | sort -k2,2nr > ${asmId}.chrom.sizes.txt\n" >> $buildLog
    time twoBitInfo "${asmId}.2bit" stdout | sort -k2,2nr > "${asmId}.chrom.sizes.txt" 2>> $buildLog
    touch -r "${asmId}.2bit" "${asmId}.chrom.sizes.txt"
 fi
 
 #### construct AGP file from assembly.fa sequence ####
 if [ "${asmFa}" -nt "${asmId}.agp.gz" ]; then
   printf "# time hgFakeAgp -minContigGap=1 -minScaffoldGap=1000 -singleContigs  "${asmFa}" stdout | gzip -c > ${asmId}.agp.gz\n" 1>&2
   printf "# time hgFakeAgp -minContigGap=1 -minScaffoldGap=1000 -singleContigs  "${asmFa}" stdout | gzip -c > ${asmId}.agp.gz\n" >> $buildLog
   hgFakeAgp -minContigGap=1 -minScaffoldGap=1000 -singleContigs  "${asmFa}" stdout | gzip -c > "${asmId}.agp.gz" 2>> $buildLog
    touch -r "${asmFa}" "${asmId}.agp.gz"
 fi
 
-wget --timestamping "https://genome-source.gi.ucsc.edu/gitlist/kent.git/raw/master/src/hg/makeDb/doc/asmHubs/groups.txt"
+wget --timestamping "https://github.com/ucscGenomeBrowser/kent/raw/master/src/hg/makeDb/doc/asmHubs/groups.txt"
 
 # calculate a default position in the middle of the largest sequence
 export chrName=`head -1 $asmId.chrom.sizes.txt | cut -f1`
 export bigChrom=`head -1 $asmId.chrom.sizes.txt | awk '{print $NF}'`
 export oneThird=`awk -v s=$bigChrom 'BEGIN {printf "%d", s/3}'`
 export tenK=`awk -v t=$oneThird -v m=$bigChrom 'BEGIN {r=t + 10000; if (r > m) { r = m}; printf "%d", r}'`
 export defPos="${chrName}:${oneThird}-${tenK}"
 
 printf "hub $asmId genome assembly
 shortLabel $asmId
 longLabel $asmId
 useOneFile on
 email yourEmail@uni.edu
 descriptionUrl html/$asmId.description.html