9e7949fb6dd9cbb6379327b52e762cdecde5341a
hiram
  Thu Oct 7 09:47:15 2021 -0700
finish off lastz/chain/net procedure no redmine

diff --git src/hg/utils/automation/pairLastz.sh src/hg/utils/automation/pairLastz.sh
index af01456..8539b77 100755
--- src/hg/utils/automation/pairLastz.sh
+++ src/hg/utils/automation/pairLastz.sh
@@ -353,32 +353,34 @@
 grep -w real rbest.log | sed -e 's/^/    # /;'
 
 sed -e 's/^/    #/;' fb.\${targetDb}.chainRBest.\${QueryDb}.txt
 " > ${buildDir}/run.sh
 chmod +x ${buildDir}/run.sh
 
 ### run the primary alignment
 printf "running: time (${buildDir}/run.sh) >> ${buildDir}/do.log 2>&1\n" 1>&2
 
 time (${buildDir}/run.sh) >> ${buildDir}/do.log 2>&1
 
 fi      ###     if [ $primaryDone -eq 0 ]; then
 
 #### print out the makeDoc.txt to this point into buildDir/makeDoc.txt
 
+export userName="`whoami`"
+
 printf "##############################################################################
-# LASTZ ${tOrgName} ${Target} vs. $qOrgName ${Query} (DONE - $DS - Hiram)
+# LASTZ ${tOrgName} ${Target} vs. $qOrgName ${Query} (DONE - $DS - $userName)
     mkdir $buildDir
     cd $buildDir
 
     printf '${defString}
 ' > DEF
 
     time (~/kent/src/hg/utils/automation/doBlastzChainNet.pl ${trackHub} -verbose=2 \`pwd\`/DEF -syntenicNet \\
       ${tFullName} ${qFullName} -workhorse=hgwdev -smallClusterHub=hgwdev -bigClusterHub=ku \\
         -chainMinScore=${minScore} -chainLinearGap=${linearGap}) > do.log 2>&1
     grep -w real do.log | sed -e 's/^/    # /;'
 " > ${buildDir}/makeDoc.txt
 
 (grep -w real $buildDir/do.log || true) | sed -e 's/^/    # /;' | head -1 >> ${buildDir}/makeDoc.txt
 
 printf "\n    sed -e 's/^/    # /;' fb.${tAsmId}.chain${Query}Link.txt\n" >> ${buildDir}/makeDoc.txt