changeset 9:62614b5a7834 draft default tip

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ncbi_entrez_eutils commit 851b88d92fa7740880a5edf407f629bf3f7f7bf0
author iuc
date Fri, 04 Oct 2024 14:35:58 +0000
parents ad1e5225bca4
children
files ecitmatch.xml egquery.py macros.xml
diffstat 3 files changed, 1 insertions(+), 75 deletions(-) [+]
line wrap: on
line diff
--- a/ecitmatch.xml	Mon Jan 23 10:36:54 2023 +0000
+++ b/ecitmatch.xml	Fri Oct 04 14:35:58 2024 +0000
@@ -1,4 +1,3 @@
-<?xml version="1.0"?>
 <tool id="ncbi_eutils_ecitmatch" name="NCBI ECitMatch" version="@WRAPPER_VERSION@" profile="@PROFILE@">
   <description>search NCBI for citations in PubMed</description>
   <macros>
--- a/egquery.py	Mon Jan 23 10:36:54 2023 +0000
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,25 +0,0 @@
-#!/usr/bin/env python
-
-import argparse
-
-import eutils
-
-
-if __name__ == '__main__':
-    parser = argparse.ArgumentParser(description='EGQuery', epilog='')
-    parser.add_argument('term', help='Query')
-
-    parser.add_argument('--user_email', help="User email")
-    parser.add_argument('--admin_email', help="Admin email")
-
-    parser.add_argument('--version', action='version', version=eutils.Client.getVersion(), help='Version (reports Biopython version)')
-
-    args = parser.parse_args()
-
-    c = eutils.Client(user_email=args.user_email, admin_email=args.admin_email)
-
-    payload = {
-        'term': args.term,
-    }
-    results = c.gquery(**payload)
-    print(results)
--- a/macros.xml	Mon Jan 23 10:36:54 2023 +0000
+++ b/macros.xml	Fri Oct 04 14:35:58 2024 +0000
@@ -2,7 +2,7 @@
 <macros>
   <token name="@PROFILE@">18.01</token>
   <token name="@TOOL_VERSION@">1.70</token>
-  <token name="@VERSION_SUFFIX@">3</token>
+  <token name="@VERSION_SUFFIX@">4</token>
   <token name="@WRAPPER_VERSION@">@TOOL_VERSION@+galaxy@VERSION_SUFFIX@</token>
   <token name="@EMAIL_ARGUMENTS@">
 --user_email "$__user_email__"
@@ -4467,54 +4467,6 @@
               </when>
             </conditional>
           </when>
-          <when value="annotinfo">
-            <conditional name="db_to">
-              <param name="db_select_to" type="select" label="To NCBI Database">
-                <option value="none">Not applicable</option>
-              </param>
-              <when value="none">
-                <param name="linkname" type="select" label="Link Name">
-                  <option value="none">Not applicable</option>
-                </param>
-              </when>
-            </conditional>
-          </when>
-          <when value="gapplus">
-            <conditional name="db_to">
-              <param name="db_select_to" type="select" label="To NCBI Database">
-                <option value="none">Not applicable</option>
-              </param>
-              <when value="none">
-                <param name="linkname" type="select" label="Link Name">
-                  <option value="none">Not applicable</option>
-                </param>
-              </when>
-            </conditional>
-          </when>
-          <when value="ncbisearch">
-            <conditional name="db_to">
-              <param name="db_select_to" type="select" label="To NCBI Database">
-                <option value="none">Not applicable</option>
-              </param>
-              <when value="none">
-                <param name="linkname" type="select" label="Link Name">
-                  <option value="none">Not applicable</option>
-                </param>
-              </when>
-            </conditional>
-          </when>
-          <when value="grasp">
-            <conditional name="db_to">
-              <param name="db_select_to" type="select" label="To NCBI Database">
-                <option value="none">Not applicable</option>
-              </param>
-              <when value="none">
-                <param name="linkname" type="select" label="Link Name">
-                  <option value="none">Not applicable</option>
-                </param>
-              </when>
-            </conditional>
-          </when>
     </conditional>
   </xml>
   <token name="@LINK_TOKEN@">