Changeset 368

Timestamp:

Aug 2, 2007, 10:54:35 AM (16 years ago)

Author:

dominic

Message:

updated readme.txt

Location:

trunk/uk/ac/ebi/Tab2MageImporter

Files:

• README.txt (modified) (1 diff)
• src/java/net (deleted)

trunk/uk/ac/ebi/Tab2MageImporter/README.txt

@@ +1 @@
+
+
+Dependencies:
+
+--------------------
+
+
+
+- AnnotationTypeCvImporter Plugin – For loading annotation types. The annotations are can annotate raw bio assays by default.
+
+
+
+- AffyArrayDesignImproter Plugin – for loading affy array design
+
+
+
+- Reporter Importer - for loading reporter corresponding to the raw data file
+
+
+
+- Reporter map importer – for adding features to array design
+
+
+
+- Raw Data Importer Plugin – loads raw data. This must have a configuration that could import the raw data files.  Required for multi-channel experiments.
+
+
+
+Please ensure that you have used all the plugins above appropriately before running Tab2Mage importer. Further documentation on
+
+AnnotationTypeCvImporter and AffyArrayDesignImproter plugin is available  on Base2plugin website and for others, please read base2 documentation.
+
+ 
+
+Email alert:
+
+----------------
+
+To receive an email alert on the success or failure of your experiment loading,
+
+
+
+Windows users:
+
+Your antivirus server and anti spam software may prevent you from sending email messages. This is because they must have been configured to block all application requiring connection to your email sever on port 25 (smtp).
+
+
+
+If this happens, you can simply ask your administrator to allow your machine to connect to the email server using port 20.
+
+
+
+The email alert should work on a linux / unix and may be mac machines.
+
+
+
+AnnotationTypes  and Cv Importer
+
+----------------------------------------------
+
+ the annotation type and cv loader plugin; uk.ac.ebi. nugo.plugins.CvAnnotationTypeImporter must be defined and configured. Both the     plugin and its configured object must be shared to the user running the Tab2MageImporter.  Defining and configuring the plugin should   be done preferably by the administrator. The administrator should share the configuration to the users as well. Otherwise suitable  plugin configurations cannot be found and the import would fail. 
+
+ A naming comparism of the annotation type in the flat file to the annotation type in base2 is actualized. Only non-existing annotation    types are created.
+
+
+
+What is not supported
+
+----------------------------------
+
+Pooled experiments are not suppported in this release. It would be supported in future releases.
+