Well, we have time, storage and bandwidth =) I'll let you know how it goes? Maybe we can host an XMLRPC mirror someday too.
Thanks, Paul On Tue, Sep 1, 2009 at 9:41 PM, Namshin Kim <deepr...@gmail.com> wrote: > 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 >>> >>> >> >> > > > > -- Paul Rigor Graduate Student Institute for Genomics and Bioinformatics Donald Bren School of Information and Computer Sciences University of California, Irvine http://www.paulrigor.net/ http://www.ics.uci.edu/~prigor --~--~---------~--~----~------------~-------~--~----~ 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 -~----------~----~----~----~------~----~------~--~---
