Genbank updates: Difference between revisions

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So, to disable a genome:
So, to disable a genome:
     -> remove entries from etc/hgwbeta.dbs and etc/rr.dbs
 
       please remove them, don't comment them out, cvs keeps
     -> on hgwdev remove the assembly name from these files:
      the history.
          ~/kent/src/hg/makeDb/genbank/etc/hgwbeta.dbs
     -> cvs update /cluster/data/genbank/etc on hgwdev
          ~/kent/src/hg/makeDb/genbank/etc/rr.dbs
     -> cvs update /genbank/etc on hgwbeta
       please remove the name, don't comment it out, cvs keeps the file edit history.
     -> cvs update in this directory (cvs up -dP /cluster/data/genbank/etc)
    -> ssh hgwbeta
    -> cd /genbank/etc
     -> cvs update /genbank/etc on hgwbeta (cvs up -dP)
    -> cd to /cluster/data/genbank/data/ftp/${assembly}
     -> remove /cluster/data/genbank/data/ftp/${assembly}  
     -> remove /cluster/data/genbank/data/ftp/${assembly}  
     -> remove files on hgdownload
     -> remove files on hgdownload by sending a push request to drop this directory and its contents:
          /usr/local/apache/htdocs/goldenPath/${assembly}




[[Category:Browser QA]]
[[Category:Browser QA]]

Revision as of 00:12, 27 January 2009

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
      please remove the name, don't comment it out, cvs keeps the file edit history.
   -> cvs update in this directory (cvs up -dP /cluster/data/genbank/etc)
   -> ssh hgwbeta
   -> cd /genbank/etc
   -> cvs update /genbank/etc on hgwbeta (cvs up -dP)
   -> 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}