Hi Paul, I just checked the size of hg18_multiz44way and it is 167GB for just NLMSA. If we consider genome assemblies you may not have, it would be ~ 250GB. I think it would take a long time to download all files.
-- Namshin Kim On Wed, Sep 2, 2009 at 1:33 PM, Paul Rigor (gmail) <paulri...@gmail.com>wrote: > > Hi Namshin, > I'm running this over night =) Has anyone successfully pulled and used > this alignment? > > Thanks, > Paul > > On Sun, Aug 2, 2009 at 4:40 PM, Namshin Kim <deepr...@gmail.com> wrote: > >> Now the downloadable resources are available on biodb2 XMLRPC server. >> >> Two ways to build NLMSA. >> >> 1. metabase >> >> >>> import os >> >>> os.environ['WORLDBASEPATH'] = '., >> http://biodb2.bioinformatics.ucla.edu:5000' >> >>> from pygr import metabase >> >>> mdb = metabase.MetabaseList() >> >>> hg18 = mdb('Bio.MSA.UCSC.hg18_multiz44way',download=True) >> >> 2. from text files >> >> download text files from http://biodb.bioinformatics.ucla.edu/PYGRDATA/ >> use cnestedlist.textfile_to_binaries('hg18_multiz44way') function to >> convert from text to binaries >> >> If you want to see the script used to add these resources, visit this URL. >> >> >> http://github.com/deepreds/pygr/tree/d7ab9247dcd39b7d474029cb8749a53eb8582968/tests/biodb2_update >> >> > > > --~--~---------~--~----~------------~-------~--~----~ You received this message because you are subscribed to the Google Groups "pygr-dev" group. To post to this group, send email to pygr-dev@googlegroups.com To unsubscribe from this group, send email to pygr-dev+unsubscr...@googlegroups.com For more options, visit this group at http://groups.google.com/group/pygr-dev?hl=en -~----------~----~----~----~------~----~------~--~---
