Genbank updates

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Revision as of 00:46, 16 June 2010 by Markd (talk | contribs) (change procedure due to switch to git)
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To disable genbank updates to an assembly:

In addition to removing the assembly name from the hgwbeta.dbs and rr.dbs files, the files here need to be removed:

/cluster/data/genbank/data/ftp/

Otherwise the genbank files will keep reappearing.

So, to disable a genome:

   -> on hgwdev remove the assembly name from these files: 
          ~/kent/src/hg/makeDb/genbank/etc/hgwbeta.dbs
          ~/kent/src/hg/makeDb/genbank/etc/rr.dbs
      and commit.  Please remove the name, don't comment it out, git keeps the file edit history.
   -> ssh hgwbeta
   -> cd ~/kent/src/hg/makeDb/genbank
   -> git pull
   -> make etc-update-rr
   -> cd to /cluster/data/genbank/data/ftp/${assembly} 
   -> remove /cluster/data/genbank/data/ftp/${assembly} 
   -> remove files on hgdownload by sending a push request to drop this directory and its contents:
          /usr/local/apache/htdocs/goldenPath/${assembly}