# HG changeset patch
# User galaxyp
# Date 1546240836 18000
# Node ID 66690eb50a32ef58f1803f7240f3f318fc1731d7
# Parent  5814883aa2175f362d76562b61e0c333d9553a59
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/peptideshaker commit 1165d86d2f2714093577c54b7e6d3a7149778bd3

diff -r 5814883aa217 -r 66690eb50a32 macros.xml
--- a/macros.xml	Thu Nov 08 12:23:02 2018 -0500
+++ b/macros.xml	Mon Dec 31 02:20:36 2018 -0500
@@ -12,6 +12,7 @@
 	    <regex match="CompomicsError" level="fatal" description="Compomics Error"/>
         </stdio>
     </xml>
+
     <token name="@GENERAL_PARAMETERS@">
             -frag_tol '${precursor_options.fragment_tol}'
             -frag_ppm '${precursor_options.fragment_tol_units}'
@@ -53,9 +54,10 @@
             #end if
 
     </token>
+
     <token name="@SEARCHGUI_MAJOR_VERSION@">3</token>
-    <token name="@SEARCHGUI_VERSION@">3.3.6</token>
-    <token name="@PEPTIDESHAKER_VERSION@">1.16.32</token>
+    <token name="@SEARCHGUI_VERSION@">3.3.10</token>
+    <token name="@PEPTIDESHAKER_VERSION@">1.16.36</token>
     <xml name="general_options">
 
         <section name="protein_digest_options" expanded="false" title="Protein Digestion Options">
diff -r 5814883aa217 -r 66690eb50a32 searchgui_mods.loc.sample
--- a/searchgui_mods.loc.sample	Thu Nov 08 12:23:02 2018 -0500
+++ b/searchgui_mods.loc.sample	Mon Dec 31 02:20:36 2018 -0500
@@ -15,6 +15,7 @@
 Carbamilation of K
 Carbamilation of protein N-term
 Carboxymethylation of C
+Citrullination of R
 Deamidation of N
 Deamidation of N 18O
 Deamidation of Q
@@ -23,6 +24,7 @@
 Didehydro of T
 Diiodination of Y
 Dimethylation of K
+Dimethylation of K 2H(4)
 Dimethylation of K 2H(6)
 Dimethylation of K 2H(6) 13C(2)
 Dimethylation of R
@@ -43,6 +45,8 @@
 Glutathione of C
 Guanidination of K
 Guanidination of peptide N-term
+Heme B of C
+Heme B of H
 Hex(1)NAc(1) of S
 Hex(1)NAc(1) of T
 Hex(5) HexNAc(4) NeuAc(2) Na of N
@@ -63,6 +67,8 @@
 ICPL6 of K
 ICPL6 of peptide N-term
 Isoleucine 13C(6) 15N(1)
+iodoTMT zero of C
+iodoTMT 6-plex of C
 Label of K 2H(4)
 Leucine 13C(6) 15N(1)
 Lipoyl of K
@@ -107,15 +113,27 @@
 SUMO-2/3 Q87R
 Sodium adduct to D
 Sodium adduct to E
-Sulfonation of S
-Sulfonation of T
-Sulfonation of Y
+Sulfation of S
+Sulfation of T
+Sulfation of Y
+S-nitrosylation
 TMT 10-plex of K
 TMT 10-plex of peptide N-term
 TMT 2-plex of K
 TMT 2-plex of peptide N-term
 TMT 6-plex of K
+TMT 6-plex of K+4
+TMT 6-plex of K+6
+TMT 6-plex of K+8
 TMT 6-plex of peptide N-term
+TMT 10-plex of K+4
+TMT 10-plex of K+6
+TMT 10-plex of K+8
+TMT 10-plex of peptide N-term
+TMT 11-plex of K+4
+TMT 11-plex of K+6
+TMT 11-plex of K+8
+TMT 11-plex of peptide N-term
 Thioacyl of peptide N-term
 Trideuterated Methyl Ester of D
 Trideuterated Methyl Ester of E