Hello, There have been some changes that need to be put into place for your mirror to function correctly. Specifically, hgTrackDb and tdbQuery need to be updated. Both are called when you do a make in the trackDb directory.
https://lists.soe.ucsc.edu/pipermail/genome-mirror/2010-February/001584.html https://lists.soe.ucsc.edu/pipermail/genome-mirror/2010-February/001599.html --------------------------------- Jennifer Jackson UCSC Genome Bioinformatics Group http://genome.ucsc.edu/ On 3/2/10 12:41 PM, Smirnov, Ivan wrote: > Hi, > > after I installed the most current Kent's source jksrc.v225.zip on my GB > mirror (hg18 only), I am getting a lot of errors while rebuilding > hg18.trackDB from the corresponding trackDb.ra files: > > Error: 'wgEncodeUwDGF' missing shortLabels or sortOrder setting is > inconsistent. > Error: 'wgEncodeUwChIPSeq' missing shortLabels or sortOrder setting is > inconsistent. > Error: 'wgEncodeGisPet' missing shortLabels or sortOrder setting is > inconsistent. > Error: 'wgEncodeSunyalbanyRnaGeneChip' missing shortLabels or sortOrder > setting is inconsistent. > Error: 'wgEncodeCshlShortRnaSeq' missing shortLabels or sortOrder setting is > inconsistent. > Error: 'wgEncodeRikenCage' missing shortLabels or sortOrder setting is > inconsistent. > Error: 'wgEncodeHudsonalphaChipSeq' missing shortLabels or sortOrder setting > is inconsistent. > Error: 'barskiChIPseq' missing shortLabels or sortOrder setting is > inconsistent. > Error: 'wgEncodeHudsonalphaRnaSeq' missing shortLabels or sortOrder setting > is inconsistent. > Error: 'wgEncodeHudsonalphaCnv' missing shortLabels or sortOrder setting is > inconsistent. > Error: 'wgEncodeUmasshaTfbsValid' missing shortLabels or sortOrder setting is > inconsistent. > Error: 'wgEncodeChromatinMap' missing shortLabels or sortOrder setting is > inconsistent. > Error: 'zhaoLabNucleosome' missing shortLabels or sortOrder setting is > inconsistent. > Error: 'wgEncodeCshlLongRnaSeq' missing shortLabels or sortOrder setting is > inconsistent. > Error: 'wgEncodeCaltechRnaSeq' missing shortLabels or sortOrder setting is > inconsistent. > Error: 'wgEncodeMapability' missing shortLabels or sortOrder setting is > inconsistent. > Error: 'wgEncodeBroadChipSeq' missing shortLabels or sortOrder setting is > inconsistent. > Error: 'wgEncodeGisDnaPet' missing shortLabels or sortOrder setting is > inconsistent. > Error: 'wgEncodeAffyRnaChip' missing shortLabels or sortOrder setting is > inconsistent. > Error: 'wgEncodeGisRnaSeq' missing shortLabels or sortOrder setting is > inconsistent. > Error: 'wgEncodeUwDnaseSeq' missing shortLabels or sortOrder setting is > inconsistent. > Error: 'wgEncodeNhgriNre' missing shortLabels or sortOrder setting is > inconsistent. > Error: 'wgEncodeYaleChIPseq' missing shortLabels or sortOrder setting is > inconsistent. > > followed by 2000+ "parent X missing for subtrack Y" messages. > > Is it because those the new .ra files are broken, or I am doing something > wrong? > > Thanks > Ivan > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
