diff tools/blast_rbh/README.rst @ 4:d8d9a9069586 draft

v0.1.11 using BLAST+ 2.5.0 and Biopython 1.67

--- a/tools/blast_rbh/README.rst	Mon Sep 07 04:40:51 2015 -0400
+++ b/tools/blast_rbh/README.rst	Wed Apr 19 07:44:47 2017 -0400
@@ -1,7 +1,7 @@
 Find BLAST Reciprocal Best Hits (RBH), with Galaxy wrapper
 ==========================================================
 
-This tool is copyright 2011-2015 by Peter Cock, The James Hutton Institute
+This tool is copyright 2011-2017 by Peter Cock, The James Hutton Institute
 (formerly SCRI, Scottish Crop Research Institute), UK. All rights reserved.
 See the licence text below.
 
@@ -84,7 +84,13 @@
 v0.1.7  - Reorder XML elements (internal change only).
         - Planemo for Tool Shed upload (``.shed.yml``, internal change only).
         - Updated citation information with GigaScience paper.
-v0.1.8  - Updated to depend on  NCBI BLAST+ 2.2.31 via ToolShed install.
+v0.1.8  - Updated to depend on NCBI BLAST+ 2.2.31 via ToolShed install.
+v0.1.9  - Updates to the command line API for the Python script.
+        - PEP8 style updates to the Python script (internal change only).
+        - Fix parameter help text which was not being displayed.
+v0.1.11 - Updated to depend on NCBI BLAST+ 2.5.0 via ToolShed or BioConda.
+        - Update Biopython dependency.
+        - Tweak Python script to work under Python 2 or Python 3.
 ======= ======================================================================
 
 
@@ -98,17 +104,17 @@
 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 -t testtoolshed --check_diff ~/repositories/galaxy_blast/tools/blast_rbh/
+    $ planemo shed_update -t testtoolshed --check_diff tools/blast_rbh/
     ...
 
 or::
 
-    $ planemo shed_update -t toolshed --check_diff ~/repositories/galaxy_blast/tools/blast_rbh/
+    $ planemo shed_update -t toolshed --check_diff tools/blast_rbh/
     ...
 
 To just build and check the tar ball, use::
 
-    $ planemo shed_upload --tar_only  ~/repositories/galaxy_blast/tools/blast_rbh/
+    $ planemo shed_upload --tar_only tools/blast_rbh/
     ...
     $ tar -tzf shed_upload.tar.gz 
     test-data/four_human_proteins.fasta