diff tools/effectiveT3/README.rst @ 7:5f85301d50bf draft

v0.0.16, adding new model TTSS-STD-2.0.2.jar
author peterjc
date Mon, 21 Sep 2015 05:52:29 -0400
parents 0f6eb4a75000
children 60a9b3f760cc
line wrap: on
line diff
--- a/tools/effectiveT3/README.rst	Wed Aug 05 11:04:42 2015 -0400
+++ b/tools/effectiveT3/README.rst	Mon Sep 21 05:52:29 2015 -0400
@@ -27,7 +27,8 @@
 ======================
 
 This should be straightforward, Galaxy should automatically download and install
-the Jar files for effectiveT3 v1.0.1 and the three models (animal, plant and std).
+the Jar files for effectiveT3 v1.0.1 and its associated models (animal, plant and
+standard).
 
 
 Manual Installation
@@ -73,7 +74,7 @@
 Version Changes
 ------- ----------------------------------------------------------------------
 v0.0.7  - Initial public release
-v0.0.8  - Include effectiveT3.loc.sample in Tool Shed
+v0.0.8  - Include ``effectiveT3.loc.sample`` in Tool Shed
 v0.0.9  - Check the return code for errors in the XML
 v0.0.10 - Added unit test
 v0.0.11 - Automated installation
@@ -89,6 +90,10 @@
 v0.0.14 - Fixed error handling in ``effectiveT3.py``.
 v0.0.15 - Reorder XML elements (internal change only).
         - Planemo for Tool Shed upload (``.shed.yml``, internal change only).
+v0.0.16 - Updated URLs to download the tool and models.
+        - Includes new standard classification model v2.0.2 (Sep 2015)
+          as the default entry in ``tool-data/effectiveT3.loc``
+        - Catch java exception, e.g. if Java too old for ``TTSS-STD-2.0.1.jar``
 ======= ======================================================================
 
 
@@ -105,12 +110,12 @@
 Planemo commands (which requires you have set your Tool Shed access details in
 ``~/.planemo.yml`` and that you have access rights on the Tool Shed)::
 
-    $ planemo shed_update --shed_target testtoolshed --check_diff ~/repositories/pico_galaxy/tools/effectiveT3/
+    $ planemo shed_update -t testtoolshed --check_diff ~/repositories/pico_galaxy/tools/effectiveT3/
     ...
 
 or::
 
-    $ planemo shed_update --shed_target toolshed --check_diff ~/repositories/pico_galaxy/tools/effectiveT3/
+    $ planemo shed_update -t toolshed --check_diff ~/repositories/pico_galaxy/tools/effectiveT3/
     ...
 
 To just build and check the tar ball, use::