diff tools/ncbi_blast_plus/README.rst @ 20:3034ce97dd33 draft

Uploaded v0.1.08, can search multiple local databases, fixes a pipe problem in blastdbcmd, and minor internal changes.

--- a/tools/ncbi_blast_plus/README.rst	Thu Nov 19 06:30:35 2015 -0500
+++ b/tools/ncbi_blast_plus/README.rst	Mon Nov 07 11:31:37 2016 -0500
@@ -1,14 +1,14 @@
 Galaxy wrappers for NCBI BLAST+ suite
 =====================================
 
-These wrappers are copyright 2010-2014 by Peter Cock (The James Hutton Institute,
+These wrappers are copyright 2010-2016 by Peter Cock (The James Hutton Institute,
 UK) and additional contributors including Edward Kirton, John Chilton,
 Nicola Soranzo, Jim Johnson, and Bjoern Gruening.
 
 See the licence text below.
 
-Currently tested with NCBI BLAST 2.2.30+ (i.e. version 2.2.30 of BLAST+),
-and does not work with the NCBI 'legacy' BLAST suite (e.g. ``blastall``).
+Currently tested with NCBI BLAST+ 2.2.31, and does not work with the NCBI
+'legacy' BLAST suite (e.g. ``blastall``).
 
 Note that these wrappers (and the associated datatypes) were originally
 distributed as part of the main Galaxy repository, but as of August 2012
@@ -118,8 +118,9 @@
 four cores to each BLAST job.
 
 In addition, the BLAST+ wrappers also support high level parallelism by task
-splitting if ``use_tasked_jobs = True`` is enabled in your ``universe_wsgi.ini``
-configuration file. Essentially, the FASTA input query files are broken up into
+splitting if ``use_tasked_jobs = True`` is enabled in the ``config/galaxy.ini``
+configuration file (previously ``universe_wsgi.ini`` on older versions of
+Galaxy). Essentially, the FASTA input query files are broken up into
 batches of 1000 sequences, a separate BLAST child job is run for each chunk,
 and then the BLAST output files are merged (in order). This is transparent
 for the end user.
@@ -227,6 +228,12 @@
           on the Tool Shed test framework, but that is not currently in use).
         - Fixed macro problem with version field in blastxml_to_tabular.xml
           (contribution from Bjoern Gruening and Daniel Blankenberg).
+v0.1.08 - Allow searching against multiple locally installed databases
+          (contribution from Gildas Le Corguillé and Emma Prudent).
+        - Minor XML and Python style changes (internal change only).
+        - Set ``allow_duplicate_entries="False"`` in sample configuration file
+	  ``tool_data_table_conf.xml``.
+        - Fix identifers with pipes in ``blastdbcmd`` wrapper (Devon Ryan).
 ======= ======================================================================