Ensembl QA

There are periodic updates to all Ensembl Genes tracks in all dbs. Here is a list of things to do in addition to the regular QA you would do normally for a track:

• Run qaEnsGenes.csh
  • Run it before you push to beta, as it compares dev to beta. You'll lose that comparison if you push too soon.

• All Ensembl builds are documented in the single file:

   src/hg/makeDb/doc/makeEnsembl.txt

• You can find all ensembl gene builds in:

   /hive/data/genomes/<db>/bed/ensGene.NN/

where NN is the ensembl version number.

• To get the links to go to the correct place at Ensembl, you will have to check for the appropriate rows in trackVersion table in hgFixed database
  • Basically, lines from trackVersion need to be copied over into the hgFixed database on beta and the RR. Do this as you push the tables along.
  • You can also manipulate the dates so the current version says 'current'. However, that does not seem to be a rule.

• New: You also need to update the blastTabs if the zebrafish assembly used in hgGene got new Ensembl Genes. Talk to Brooke or Mary if this is case.