Mercurial > repos > iuc > proteinortho_grab_proteins

changeset 5:a87f7278b4ee draft

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planemo upload for repository https://gitlab.com/paulklemm_PHD/proteinortho commit 84c463c8317d7c16c2b86b1d8657932cc0f39791
author iuc
date Tue, 22 Nov 2022 16:51:10 +0000
parents d5e4450964f8
children e2a8e134e928
files proteinortho_grab_proteins.xml proteinortho_macros.xml
diffstat 2 files changed, 9 insertions(+), 10 deletions(-) [+]
line wrap: on
line diff
--- a/proteinortho_grab_proteins.xml	Tue Jan 04 18:45:51 2022 +0000
+++ b/proteinortho_grab_proteins.xml	Tue Nov 22 16:51:10 2022 +0000
@@ -18,11 +18,9 @@
         proteinortho_grab_proteins.pl 
             --tofiles
             #if $regex:
-                $regex
+                '$regex'
             #end if
-            #if $source:
-                $source
-            #end if
+            $source
             #if $query.querytype == "string":
                 '$query.querystring'
             #else:
@@ -41,6 +39,7 @@
             </param>
             <when value="string">
                 <param name="querystring" type="text" label="A string of the protein/gene name/identifier that you want to search">
+                    <validator type="regex" negate="true" message="Identifier must not end with a backslash">.*\\$</validator>
                     <sanitizer invalid_char="">
                         <valid initial="string.letters,string.digits">
                             <add value="!"/>
--- a/proteinortho_macros.xml	Tue Jan 04 18:45:51 2022 +0000
+++ b/proteinortho_macros.xml	Tue Nov 22 16:51:10 2022 +0000
@@ -1,7 +1,7 @@
 <?xml version="1.0"?>
 <macros>
-   <token name="@TOOL_VERSION@">6.0.32</token>
-   <token name="@WRAPPER_VERSION@">0</token>
+   <token name="@TOOL_VERSION@">6.1.2</token>
+   <token name="@WRAPPER_VERSION@">1</token>
    <token name="@PROFILE@">20.09</token>
    <xml name="citations">
         <citations>
@@ -14,10 +14,10 @@
             <requirement type="package" version="@TOOL_VERSION@">proteinortho</requirement>
             <!-- blast, blat, and last are not in the biopython requirements
                  diamond is, but latest version does not work: https://gitlab.com/paulklemm_PHD/proteinortho/-/issues/55 -->
-            <requirement type="package" version="2.0.9">diamond</requirement>
-            <requirement type="package" version="2.12.0">blast</requirement>
-            <requirement type="package" version="36">blat</requirement>
-            <requirement type="package" version="1257">last</requirement>
+            <requirement type="package" version="2.0.15">diamond</requirement>
+            <requirement type="package" version="2.13.0">blast</requirement>
+            <requirement type="package" version="377">ucsc-blat</requirement>
+            <requirement type="package" version="1418">last</requirement>
         </requirements>
     </xml>
     <xml name="version_command">