# HG changeset patch
# User bgruening
# Date 1654096557 0
# Node ID ad1149b4f795e13033bbb8cf257da5f3446c1f62
# Parent  2b8b4cacb83da75a5e8853a8bfbb993cc3e25ae6
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/gfastats commit 0c9612e0257a872892894530669785d1e02aaacc

diff -r 2b8b4cacb83d -r ad1149b4f795 gfastats.xml
--- a/gfastats.xml	Mon Apr 25 09:38:18 2022 +0000
+++ b/gfastats.xml	Wed Jun 01 15:15:57 2022 +0000
@@ -75,7 +75,7 @@
             </param>
             <when value="false"/>
             <when value="true">
-                <param name="target_sequence" type="text" value="" label="Target sequence" help="Target specific sequence by header, optionally with coordinates: header[:start-end]">
+                <param name="target_sequence" type="text" value="" label="Target sequence" optional="true" help="Target specific sequence by header, optionally with coordinates: header[:start-end]">
                     <sanitizer invalid_char="">
                         <valid initial="string.digits,string.letters">
                             <add value=":"/>
@@ -325,6 +325,15 @@
             </conditional>
             <output name="output" value="test_10.gfa" ftype="gfa1"/>
         </test>
+        <!--Test 11 -->
+        <test expect_num_outputs="1">
+            <param name="input_file" value="dataset_03.fasta"/>
+            <conditional name="target_condition">
+                <param name="target_option" value="true"/>
+                <param name="include_bed" value="regions.bed"/>
+            </conditional>
+            <output name="stats" value="test_11_stats.tabular" ftype="tabular"/>
+        </test>
     </tests>
     <help><![CDATA[
 
diff -r 2b8b4cacb83d -r ad1149b4f795 macros.xml
--- a/macros.xml	Mon Apr 25 09:38:18 2022 +0000
+++ b/macros.xml	Wed Jun 01 15:15:57 2022 +0000
@@ -1,5 +1,5 @@
 <macros>
-    <token name="@TOOL_VERSION@">1.2.1</token>
+    <token name="@TOOL_VERSION@">1.2.2</token>
     <token name="@SUFFIX_VERSION@">0</token>
     <xml name="requirements">
         <requirements>
diff -r 2b8b4cacb83d -r ad1149b4f795 test-data/regions.bed
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/regions.bed	Wed Jun 01 15:15:57 2022 +0000
@@ -0,0 +1,1 @@
+contig_1	0	1680
diff -r 2b8b4cacb83d -r ad1149b4f795 test-data/test_11_stats.tabular
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/test_11_stats.tabular	Wed Jun 01 15:15:57 2022 +0000
@@ -0,0 +1,88 @@
+# scaffolds	1
+Total scaffold length	1680
+Average scaffold length	1680.00
+Scaffold N50	1680
+Scaffold auN	1680.00
+Scaffold L50	1
+Largest scaffold	1680
+Total contig length	1679
+Average contig length	839.50
+Contig N50	922
+Contig auN	847.61
+Contig L50	1
+Largest contig	922
+# gaps in scaffolds	1
+Total gap length in scaffolds	1
+Average gap length in scaffolds	1.00
+Gap N50 in scaffolds	1
+Gap auN in scaffolds	1.00
+Gap L50 in scaffolds	1
+Largest gap in scaffolds	1
+Base composition (A:C:G:T)	388:497:402:392
+GC content %	53.54
+# soft-masked bases	0
+# segments	2
+Total segment length	1679
+Average segment length	839.50
+# gaps	1
+# paths	1
+Scaffold N10	1680
+Scaffold N20	1680
+Scaffold N30	1680
+Scaffold N40	1680
+Scaffold N50	1680
+Scaffold N60	1680
+Scaffold N70	1680
+Scaffold N80	1680
+Scaffold N90	1680
+Scaffold N100	1680
+Scaffold L10	1
+Scaffold L20	1
+Scaffold L30	1
+Scaffold L40	1
+Scaffold L50	1
+Scaffold L60	1
+Scaffold L70	1
+Scaffold L80	1
+Scaffold L90	1
+Scaffold L100	1
+Contig N10	922
+Contig N20	922
+Contig N30	922
+Contig N40	922
+Contig N50	922
+Contig N60	757
+Contig N70	757
+Contig N80	757
+Contig N90	757
+Contig N100	757
+Contig L10	1
+Contig L20	1
+Contig L30	1
+Contig L40	1
+Contig L50	1
+Contig L60	2
+Contig L70	2
+Contig L80	2
+Contig L90	2
+Contig L100	2
+Gap N10	1
+Gap N20	1
+Gap N30	1
+Gap N40	1
+Gap N50	1
+Gap N60	1
+Gap N70	1
+Gap N80	1
+Gap N90	1
+Gap N100	1
+Gap L10	1
+Gap L20	1
+Gap L30	1
+Gap L40	1
+Gap L50	1
+Gap L60	1
+Gap L70	1
+Gap L80	1
+Gap L90	1
+Gap L100	1