# HG changeset patch
# User pieter.lukasse@wur.nl
# Date 1388668710 -3600
# Node ID fa1eef8595dce5d52a1795755007201fc81a4ac6
# Parent  8cc1f1e012325cfc4e2ae86745ea2cd2dd875a75
fixex/improvements

diff -r 8cc1f1e01232 -r fa1eef8595dc Csv2Apml.jar
Binary file Csv2Apml.jar has changed
diff -r 8cc1f1e01232 -r fa1eef8595dc MsFilt.jar
Binary file MsFilt.jar has changed
diff -r 8cc1f1e01232 -r fa1eef8595dc NapQ.jar
Binary file NapQ.jar has changed
diff -r 8cc1f1e01232 -r fa1eef8595dc PRIMS.jar
Binary file PRIMS.jar has changed
diff -r 8cc1f1e01232 -r fa1eef8595dc ProgenesisConv.jar
Binary file ProgenesisConv.jar has changed
diff -r 8cc1f1e01232 -r fa1eef8595dc Quantifere.jar
Binary file Quantifere.jar has changed
diff -r 8cc1f1e01232 -r fa1eef8595dc Quantiline.jar
Binary file Quantiline.jar has changed
diff -r 8cc1f1e01232 -r fa1eef8595dc README.rst
--- a/README.rst	Thu Jan 02 11:17:21 2014 +0100
+++ b/README.rst	Thu Jan 02 14:18:30 2014 +0100
@@ -6,7 +6,7 @@
 protein inference for labeled and label-free Mass Spectrometry proteomics data. 
 
 Can be used in combination with PRIMS-MASSCOMB (prims_masscomb package) and
-with PRIMV-visualizations (primv_visualizations package).
+with PRIMV-visualization (primv_visualization package).
 
 Copyright 2010-2013 by Pieter Lukasse, Plant Research International (PRI), 
 Wageningen, The Netherlands. All rights reserved. See the license text below.
@@ -20,9 +20,9 @@
 ============== ======================================================================
 Date            Changes
 -------------- ----------------------------------------------------------------------
-January 2014   -first release via Tool Shed
-November 2013  -multiple tools used internally at PRI 
-end 2011       -first tool
+January 2014   * first release via Tool Shed
+November 2013  * multiple tools used internally at PRI 
+end 2011       * first tool
 ============== ======================================================================
 
 Tool Versioning
diff -r 8cc1f1e01232 -r fa1eef8595dc SedMat_cli.jar
Binary file SedMat_cli.jar has changed
diff -r 8cc1f1e01232 -r fa1eef8595dc prims_proteomics_datatypes.py
--- a/prims_proteomics_datatypes.py	Thu Jan 02 11:17:21 2014 +0100
+++ b/prims_proteomics_datatypes.py	Thu Jan 02 14:18:30 2014 +0100
@@ -37,6 +37,6 @@
 
 class Apml( ProteomicsXml ):
     """APML data"""
-    file_ext = "pepxml"
+    file_ext = "apml"
     blurb = 'PRIMS APML proteomics data'
     root = "apml"
\ No newline at end of file