[pygr-notify] [pygr commit] r86 - wiki

[codesite-noreply at google.com]

Author: deepreds
Date: Mon Aug  4 18:00:22 2008
New Revision: 86

Modified:
   wiki/PygrResourceDownloader.wiki

Log:
How to use Pre-built XMLRPC server and Downloadable Resources

Modified: wiki/PygrResourceDownloader.wiki
==============================================================================
--- wiki/PygrResourceDownloader.wiki	(original)
+++ wiki/PygrResourceDownloader.wiki	Mon Aug  4 18:00:22 2008
@@ -1,14 +1,17 @@
-One can easily download pre-built pygr.Data resources into your localdisk.
+One can easily download pre-built pygr.Data resources into your 
localdisk. Be sure to give writable path before XMLRPC server ('.' in PYGRDATAPATH).

   * import os
-  * os.environ['PYGRDATAPATH'] = 'http://biodb.bioinformatics.ucla.edu:5000'
+  * os.environ['PYGRDATAPATH'] = '.,http://biodb2.bioinformatics.ucla.edu:5000'
   * import pygr.Data

+  * pygr.Data.dir('') # RETURNS ALL XMLRPC RESOURCES
+  * pygr.Data.dir('', download=True) # RETURNS ALL DOWNLOADABLE RESOURCES
+
 For seqdb.BlastDB, you have to setup PYGRDATADOWNLOAD path.

   * os.environ['PYGRDATADOWNLOAD'] = '/my/seqdb/path'

-  * hg18 = pygr.Data.Seq.Genome.HUMAN.hg18()
+  * hg18 = pygr.Data.Seq.Genome.HUMAN.hg18(download=True)

  Above line will initiate downloading and saving hg18 into your 
PYGRDATADOWNLOAD path.

@@ -16,10 +19,8 @@

   * os.environ['PYGRDATABUILDER'] = '/my/nlmsa/path'

-  * hg18_multiz28way = pygr.Data.MSA.UCSC.hg18_multiz28way()
+  * hg18_multiz28way = pygr.Data.MSA.UCSC.hg18_multiz28way(download=True)

  Above line will initiate downloading and saving hg18_multiz28way into 
your PYGRDATABUILDER path.

-If you don't have huge disk space, don't forget to delete intermediate 
compressed files and text files.
-
-Test XMLRPC server for pygr.Data resources is 
http://biodb2.bioinformatics.ucla.edu:5000 You can use pygr.Data 
resources on this PYGRDATAPATH.
\ No newline at end of file
+If you don't have huge disk space, don't forget to delete intermediate 
compressed files and text files.
\ No newline at end of file