e31cf0a8c121c0d36707912926d4d6f6f80b3708 hiram Fri Jun 3 12:05:39 2022 -0700 now using chromAlias.bb, better mkSymlink progress, no more restriction on dynamicBlat server space and report total track count on verify diff --git src/hg/makeDb/doc/asmHubs/mkSymLinks.pl src/hg/makeDb/doc/asmHubs/mkSymLinks.pl index 58d8f36..4f885d0 100755 --- src/hg/makeDb/doc/asmHubs/mkSymLinks.pl +++ src/hg/makeDb/doc/asmHubs/mkSymLinks.pl @@ -64,31 +64,31 @@ $accessionDir .= "/" . substr($asmId, 4 ,3); $accessionDir .= "/" . substr($asmId, 7 ,3); $accessionDir .= "/" . substr($asmId, 10 ,3); $destDir = "/hive/data/genomes/asmHubs/$accessionDir/$accessionId"; my $buildDir = "/hive/data/genomes/asmHubs/refseqBuild/$accessionDir/$asmId"; if ($gcPrefix eq "GCA") { $buildDir = "/hive/data/genomes/asmHubs/genbankBuild/$accessionDir/$asmId"; } my $trackDb = "$buildDir/$asmId.trackDb.txt"; if ( ! -s "${trackDb}" ) { printf STDERR "# %03d not built yet: %s\n", $orderIndex, $asmId; printf STDERR "# missing tdb: '%s'\n", $trackDb; next; } ++$buildDone; - printf STDERR "# %03d symlinks %s %s\n", $buildDone, $accessionId, $asmId; + printf STDERR "# %03d symlinks %s %s\n", $buildDone, $asmId, $commonName{$asmId}; # printf STDERR "%s\n", $buildDir; # printf STDERR "%s\n", $destDir; if ( ! -d "${destDir}" ) { `mkdir -p "${destDir}"`; } `rm -f "${destDir}/bbi"`; `rm -f "${destDir}/genes"`; `rm -f "${destDir}/ixIxx"`; `rm -f "${destDir}/genesGtf"`; `rm -f "${destDir}/liftOver"`; `rm -f "${destDir}/otherAligners"`; `rm -fr "${destDir}/html"`; `mkdir -p "${destDir}/html"`; `rm -f "${destDir}/${accessionId}.2bit"`; `rm -f "${destDir}/${accessionId}.chrNames.2bit"`;