[pygr-notify] [pygr commit] r241 - Made code blocks verbatim, it's easier than having to remember to escape any characters co...

[codesite-noreply at google.com]

Author: marecki
Date: Tue Jun  2 14:36:51 2009
New Revision: 241

Modified:
    wiki/PygrResourceDownloader.wiki

Log:
Made code blocks verbatim, it's easier than having to remember to escape  
any characters considered by the Wiki.

Modified: wiki/PygrResourceDownloader.wiki
==============================================================================
--- wiki/PygrResourceDownloader.wiki	(original)
+++ wiki/PygrResourceDownloader.wiki	Tue Jun  2 14:36:51 2009
@@ -5,32 +5,40 @@

  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://biodb2.bioinformatics.ucla.edu:5000'
-  * import pygr.Data
-
-  * pygr.Data.dir('') # RETURNS ALL XMLRPC RESOURCES
-  * pygr.Data.dir('', download=True) # RETURNS ALL DOWNLOADABLE RESOURCES
+{{{
+  import os
+  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'
+{{{
+  os.environ['PYGRDATADOWNLOAD'] = '/my/seqdb/path'

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

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

  For NLMSA, you have to setup PYGRDATABUILDDIR path..

-  * os.environ['PYGRDATABUILDDIR'] = '/my/nlmsa/path'
+{{{
+  os.environ['PYGRDATABUILDDIR'] = '/my/nlmsa/path'

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

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

  If you don't have huge disk space, don't forget to delete intermediate  
compressed files and text files.

-Of course, if you delete download=True option, it will access biodb2  
XMLRPC resourcese.
+Of course, if you delete download=True option, it will access biodb2  
XMLRPC resources.

-  * hg18 = pygr.Data.Bio.Seq.Genome.HUMAN.hg18()
-  * hg18_multiz28way = pygr.Data.Bio.MSA.UCSC.hg18_multiz28way()
\ No newline at end of file
+{{{
+  hg18 = pygr.Data.Bio.Seq.Genome.HUMAN.hg18()
+  hg18_multiz28way = pygr.Data.Bio.MSA.UCSC.hg18_multiz28way()
+}}}
\ No newline at end of file