Changeset 345 for trunk/se/lu/thep/affymetrix/README

Timestamp:

Jun 27, 2007, 9:47:01 PM (15 years ago)

Author:

Jari Häkkinen

Message:

Fixes #67 and #68. Added information on how to install in Microsoft Windows. Also improved the docs.

File:

• trunk/se/lu/thep/affymetrix/README (modified) (6 diffs)

trunk/se/lu/thep/affymetrix/README

@@ -35 +35 @@
 define what reporter information is stored in BASE and how to change
 what is stored, you may want to visit
-http://base.thep.lu.se/chrome/site/doc/admin/extended-properties.html
+http://base.thep.lu.se/chrome/site/doc/html/appendix/appendix.extendedproperties.html
 before you start using your shiny BASE installation.''
 
@@ -45 +45 @@
 package contains the RMAExpress and Plier plug-ins.
 
-The RMAExpress plug-in is installed in the
-[http://base2.thep.lu.se:8080/demo BASE2 demo server].
+The plug-ins in this package are installed in the
+[http://base2.thep.lu.se:8080/demo BASE2 demo server]. You can try
+them there before deciding to install them in your local BASE server.
 
 For installation or updating instructions please see file INSTALL.
@@ -87 +88 @@
 This section is a short introduction to get going with the plug-ins
 and Affymetrix data in BASE. More documentation is available at
-http://base.thep.lu.se/wiki/Manuals and you should read them to learn
-how to use BASE.
+http://base.thep.lu.se/ and you should read them to learn how to use
+BASE.
 
  1. You need to install the plug-in and make BASE aware of the new
@@ -100 +101 @@
     privileges, an ordinary BASE user does NOT have this privilege.
 
- There is more than one way to create plug-in configurations. Here we
- outline the most straightforward route. There is a chapter in the
- BASE manual devoted for plug-in installation, follow the link above
- to find the document.
+    There is more than one way to create plug-in configurations. Here
+    we outline the most straightforward route. There is a chapter in
+    the BASE manual devoted for plug-in installation, follow the link
+    above to find the document.
 
     - First you need to create an plug-in configuration for the
@@ -133 +134 @@
       the import by clicking 'Next' in the parameter dialog.
 
- The reporter information is now in the database. You may delete the
- AffyChip_annot.csv file from BASE if you wish, it is not needed
- anymore. You may want to update reporter information when Affymetrix
- releases a new version of their annotation but remember there is no
- versioning for this type of information in BASE. If you update
- reporter information you only need to redo the last step.
+    The reporter information is now in the database. You may delete
+    the AffyChip_annot.csv file from BASE if you wish, it is not
+    needed anymore. You may want to update reporter information when
+    Affymetrix releases a new version of their annotation but remember
+    there is no versioning for this type of information in BASE. If
+    you update reporter information you only need to redo the last
+    step.
 
  3. You need to define the design of the !AffyChip in BASE,
@@ -188 +190 @@
 
  7. You made it here. This means that the plug-in works and you are
-    ready to start using BASE. The get the most out of BASE you should
-    now read the BASE manual and documentation available at
-    http://base.thep.lu.se/wiki/Manuals
+    ready to start using Affymetrix data in BASE. The get the most out
+    of BASE you should now read the BASE manual and documentation
+    available at http://base.thep.lu.se/