# HG changeset patch
# User iuc
# Date 1767868208 0
# Node ID 13c348da56a8fff72a68a8234d5e656c99404669
# Parent  45c8bfaab6089b11ccefd9b879405fecfdbea6a3
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/data_managers/data_manager_build_coreprofiler commit adc61f2c22d06e320a8a3776d5255f14ddd94e78

diff -r 45c8bfaab608 -r 13c348da56a8 data_manager/data_manager_build_coreprofiler_download.xml
--- a/data_manager/data_manager_build_coreprofiler_download.xml	Thu Dec 18 15:21:46 2025 +0000
+++ b/data_manager/data_manager_build_coreprofiler_download.xml	Thu Jan 08 10:30:08 2026 +0000
@@ -2,7 +2,7 @@
     <description></description>
     <macros>
         <token name="@TOOL_VERSION@">2.0.0</token>
-        <token name="@VERSION_SUFFIX@">1</token>
+        <token name="@VERSION_SUFFIX@">2</token>
         <token name="@PROFILE@">22.05</token>
         <xml name="version_command">
             <version_command><![CDATA[$ coreprofiler --version]]></version_command>
@@ -120,7 +120,7 @@
 
 {
     "data_tables":{
-    "coreprofiler_scheme":[
+    "coreprofiler_versioned_scheme":[
     {
         "value": "coreprofiler_downloaded_${today}-${scheme_name}-${scheme_desc}-${scheme_loci}-${scheme_db}-${db_version}",
         "name": "${scheme_name}: ${scheme_desc} [${scheme_loci} loci] (${scheme_db} - ${db_date_version})",
@@ -278,7 +278,7 @@
             </conditional>
             <output name="out_file">
                 <assert_contents>
-                    <has_text text='"coreprofiler_scheme":'/>
+                    <has_text text='"coreprofiler_versioned_scheme":'/>
                     <has_text_matching expression='"value": "coreprofiler_downloaded_[0-9-]{10}-borrelia_3-cgMLST-639-pubmlst-no_token"'/>
                     <has_text text='"name": "borrelia_3: cgMLST [639 loci] (pubmlst - version before 2025)"'/>
                     <has_text_matching expression='"tool_version": "[0-9.]+"'/>
@@ -298,7 +298,7 @@
             </conditional>
             <output name="out_file">
                 <assert_contents>
-                    <has_text text='"coreprofiler_scheme":'/>
+                    <has_text text='"coreprofiler_versioned_scheme":'/>
                     <has_text_matching expression='"value": "coreprofiler_downloaded_[0-9-]{10}-yersinia_1-Yersinia_cgMLST-500-bigsdb-no_token"'/>
                     <has_text text='"name": "yersinia_1: Yersinia_cgMLST [500 loci] (bigsdb - version before 2025)"'/>
                     <has_text_matching expression='"tool_version": "[0-9.]+"'/>
@@ -317,7 +317,7 @@
             </conditional>
             <output name="out_file">
                 <assert_contents>
-                    <has_text text='"coreprofiler_scheme":'/>
+                    <has_text text='"coreprofiler_versioned_scheme":'/>
                     <has_text_matching expression='"value": "coreprofiler_downloaded_[0-9-]{10}-escherichia_v1-cgMLST-2513-enterobase-no_token"'/>
                     <has_text_matching expression='"name": "escherichia_v1: cgMLST \[2513 loci\] \(enterobase - downloaded on [0-9-]{10}\)"'/>
                     <has_text_matching expression='"tool_version": "[0-9.]+"'/>
@@ -336,7 +336,7 @@
             </conditional>
             <output name="out_file">
                 <assert_contents>
-                    <has_text text='"coreprofiler_scheme":'/>
+                    <has_text text='"coreprofiler_versioned_scheme":'/>
                     <has_text_matching expression='"value": "coreprofiler_downloaded_[0-9-]{10}-mgallisepticum-Mycoplasma_gallisepticum-425-cgmlstorg-no_token"'/>
                     <has_text_matching expression='"name": "mgallisepticum: Mycoplasma_gallisepticum \[425 loci\] \(cgmlstorg - downloaded on [0-9-]{10}\)"'/>
                     <has_text_matching expression='"tool_version": "[0-9.]+"'/>
diff -r 45c8bfaab608 -r 13c348da56a8 data_manager_conf.xml
--- a/data_manager_conf.xml	Thu Dec 18 15:21:46 2025 +0000
+++ b/data_manager_conf.xml	Thu Jan 08 10:30:08 2026 +0000
@@ -1,7 +1,7 @@
 <?xml version="1.0"?>
 <data_managers>
     <data_manager tool_file="data_manager/data_manager_build_coreprofiler_download.xml" id="data_manager_build_coreprofiler_download">
-        <data_table name="coreprofiler_scheme">  <!-- Defines a Data Table to be modified. -->
+        <data_table name="coreprofiler_versioned_scheme">  <!-- Defines a Data Table to be modified. -->
             <output> <!-- Handle the output of the Data Manager Tool -->
                 <column name="value"/>  <!-- columns that are going to be specified by the Data Manager Tool -->
                 <column name="name"/>  <!-- columns that are going to be specified by the Data Manager Tool -->
diff -r 45c8bfaab608 -r 13c348da56a8 test-data/coreprofiler_scheme.loc.test
--- a/test-data/coreprofiler_scheme.loc.test	Thu Dec 18 15:21:46 2025 +0000
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,10 +0,0 @@
-#This is a tab separated file describing the location of CoreProfiler scheme 
-#used for the CoreProfiler tool
-#
-#file has this format (white space characters are TAB characters)
-#
-#The columns are:
-#value	name	tool_version	database	path	db_path	scheme_path
-#
-#For example
-#coreprofiler_downloaded_20250625_klebsiella_3_scgMLST634_632_loci_bigsdb	klebsiella_3: scgMLST634 [632 loci] (BIGSdb)	1.1.1	bigsdb	coreprofiler_klebsiella_3	db_klebsiella_3/klebsiella_3.fasta	scheme_klebsiella_3
diff -r 45c8bfaab608 -r 13c348da56a8 test-data/coreprofiler_versioned_scheme.loc.test
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/coreprofiler_versioned_scheme.loc.test	Thu Jan 08 10:30:08 2026 +0000
@@ -0,0 +1,10 @@
+#This is a tab separated file describing the location of CoreProfiler scheme 
+#used for the CoreProfiler tool
+#
+#file has this format (white space characters are TAB characters)
+#
+#The columns are:
+#value	name	tool_version	database	path	db_path	scheme_path
+#
+#For example
+#coreprofiler_downloaded_20250625_klebsiella_3_scgMLST634_632_loci_bigsdb	klebsiella_3: scgMLST634 [632 loci] (BIGSdb)	1.1.1	bigsdb	coreprofiler_klebsiella_3	db_klebsiella_3/klebsiella_3.fasta	scheme_klebsiella_3
diff -r 45c8bfaab608 -r 13c348da56a8 tool-data/coreprofiler_scheme.loc.sample
--- a/tool-data/coreprofiler_scheme.loc.sample	Thu Dec 18 15:21:46 2025 +0000
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,10 +0,0 @@
-#This is a tab separated file describing the location of CoreProfiler scheme 
-#used for the CoreProfiler tool
-#
-#file has this format (white space characters are TAB characters)
-#
-#The columns are:
-#value	name	tool_version	database	path	db_path	scheme_path
-#
-#For example
-#coreprofiler_downloaded_20250625_klebsiella_3_scgMLST634_632_loci_bigsdb	klebsiella_3: scgMLST634 [632 loci] (BIGSdb)	1.1.1	bigsdb	coreprofiler_klebsiella_3	db_klebsiella_3/klebsiella_3.fasta	scheme_klebsiella_3
\ No newline at end of file
diff -r 45c8bfaab608 -r 13c348da56a8 tool-data/coreprofiler_versioned_scheme.loc.sample
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool-data/coreprofiler_versioned_scheme.loc.sample	Thu Jan 08 10:30:08 2026 +0000
@@ -0,0 +1,10 @@
+#This is a tab separated file describing the location of CoreProfiler scheme 
+#used for the CoreProfiler tool
+#
+#file has this format (white space characters are TAB characters)
+#
+#The columns are:
+#value	name	tool_version	database	path	db_path	scheme_path
+#
+#For example
+#coreprofiler_downloaded_20250625_klebsiella_3_scgMLST634_632_loci_bigsdb	klebsiella_3: scgMLST634 [632 loci] (BIGSdb)	1.1.1	bigsdb	coreprofiler_klebsiella_3	db_klebsiella_3/klebsiella_3.fasta	scheme_klebsiella_3
\ No newline at end of file
diff -r 45c8bfaab608 -r 13c348da56a8 tool_data_table_conf.xml.sample
--- a/tool_data_table_conf.xml.sample	Thu Dec 18 15:21:46 2025 +0000
+++ b/tool_data_table_conf.xml.sample	Thu Jan 08 10:30:08 2026 +0000
@@ -1,6 +1,6 @@
 <tables>
-    <table name="coreprofiler_scheme" comment_char="#">
+    <table name="coreprofiler_versioned_scheme" comment_char="#">
         <columns>value, name, tool_version, database, path, db_path, scheme_path</columns>
-        <file path="tool-data/coreprofiler_scheme.loc"/>
+        <file path="tool-data/coreprofiler_versioned_scheme.loc"/>
     </table>
 </tables>
\ No newline at end of file
diff -r 45c8bfaab608 -r 13c348da56a8 tool_data_table_conf.xml.test
--- a/tool_data_table_conf.xml.test	Thu Dec 18 15:21:46 2025 +0000
+++ b/tool_data_table_conf.xml.test	Thu Jan 08 10:30:08 2026 +0000
@@ -1,6 +1,6 @@
 <tables>
-    <table name="coreprofiler_scheme" comment_char="#">
+    <table name="coreprofiler_versioned_scheme" comment_char="#">
         <columns>value, name, tool_version, database, path, db_path, scheme_path</columns>
-        <file path="${__HERE__}/test-data/coreprofiler_scheme.loc.test"/>
+        <file path="${__HERE__}/test-data/coreprofiler_versioned_scheme.loc.test"/>
     </table>
 </tables>
\ No newline at end of file