[Patchwork-commits] r127 - www

[noreply at r-forge.r-project.org]

Author: sebastian_d
Date: 2012-04-20 11:15:09 +0200 (Fri, 20 Apr 2012)
New Revision: 127

Modified:
   www/cg_demo.php
   www/pw_inst.php
Log:
added some additional information and guidance to patchworkCG demo

Modified: www/cg_demo.php
===================================================================
--- www/cg_demo.php	2012-04-20 09:07:54 UTC (rev 126)
+++ www/cg_demo.php	2012-04-20 09:15:09 UTC (rev 127)
@@ -1,5 +1,10 @@
-To help you verify that you have installed patchworkCG correctly and that
-it is working we will here use the
+This is a demo or testrun for patchworkCG to help you verify that you have installed
+ patchworkCG correctly and that it is working.<br /><br />
+
+It builds upon the knowledge gained from the other tabs, installation to results,
+and as such is not overly detailed. Read the other tabs before doing the demo!<br /><br />
+
+ Used in this demo is the 
 <a href="ftp://ftp2.completegenomics.com/Cancer_pairs/ASM_Build37_2.0.0/HCC2218/GS00258-DNA_B03/" style="text-decoration:none;"
  target="_blank">publically available cancer data set HCC2218 of CompleteGenomics</a>.
   <br /><br />
@@ -19,14 +24,14 @@
 <pre style="height:500px;overflow:scroll;">
 #For a working directory I chose just above the ASM folder.
 
-➜  GS00258-DNA_B03  ls
+$  GS00258-DNA_B03  ls
 ASM                               idMap-HCC2218-H-200-37-ASM-T1.tsv
 HCC2218-H-200-37-ASM              version
 LIB
 
 #Starting R
 
-➜  GS00258-DNA_B03  R
+$  GS00258-DNA_B03  R
 
 R version 2.14.1 (2011-12-22)
 Copyright (C) 2011 The R Foundation for Statistical Computing
@@ -101,7 +106,7 @@
 
 > q()
 Save workspace image? [y/n/c]: n
-➜  GS00258-DNA_B03  ls
+$  GS00258-DNA_B03  ls
 ASM                               	Demo__KaCh_chr1.png
 CG.Rdata                          	Demo__KaCh_chr10.png
 copynumbers.Rdata                       Demo__KaCh_chr11.png

Modified: www/pw_inst.php
===================================================================
--- www/pw_inst.php	2012-04-20 09:07:54 UTC (rev 126)
+++ www/pw_inst.php	2012-04-20 09:15:09 UTC (rev 127)
@@ -36,7 +36,7 @@
 Patchwork uses a python mod called pysam for chromosome reading. The package already checks if you have
 it installed and otherwise installs it for you the first time you run patchwork however if you lack python
 or python development on your system the installation fails. It seems to already be included in MAC OS X but
-on other systems you should install it. Here is a 
+on other systems you should install/update it. Here is a 
 <a href="http://wiki.python.org/moin/BeginnersGuide/Download" target="_blank" style="text-decoration:none;">guide.</a>
 <br />
 	
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