# HG changeset patch
# User iuc
# Date 1755623674 0
# Node ID b91a71153b2f66d3d1fe51828b99e245814de628
# Parent  654a2f089252c32ee7e0e0562daa63295aac1840
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/seqkit commit 10a55aa92dba7af64cfa0a308191722655a9fba9

diff -r 654a2f089252 -r b91a71153b2f macros.xml
--- a/macros.xml	Tue Jul 15 19:35:45 2025 +0000
+++ b/macros.xml	Tue Aug 19 17:14:34 2025 +0000
@@ -1,6 +1,6 @@
 <macros>
     <token name="@TOOL_VERSION@">2.10.0</token>
-    <token name="@VERSION_SUFFIX@">1</token>
+    <token name="@VERSION_SUFFIX@">2</token>
     <token name="@PROFILE@">24.0</token>
     <xml name="bio_tools">
         <xrefs>
diff -r 654a2f089252 -r b91a71153b2f seqkit_fx2tab.xml
--- a/seqkit_fx2tab.xml	Tue Jul 15 19:35:45 2025 +0000
+++ b/seqkit_fx2tab.xml	Tue Aug 19 17:14:34 2025 +0000
@@ -15,6 +15,12 @@
 '${input_identifier}'
 $alphabet
 $avg_qual
+#if str($B) != 'None'
+    -B ${ str($B).replace(",","") }
+#end if
+#if str($C) != 'None'
+    -C ${ str($C).replace(",","") }
+#end if
 $gc
 $gc_skew
 $header_line
@@ -32,6 +38,20 @@
         <param name="input" type="data" format="fasta,fasta.gz,fastqsanger,fastqsanger.gz" label="Input file"/>
         <param argument="--alphabet" type="boolean" truevalue="--alphabet" falsevalue="" checked="false" label="Output alphabet letters?"/>
         <param argument="--avg_qual" type="boolean" truevalue="--avg-qual" falsevalue="" checked="false" label="Output average quality of the read?"/>
+        <param argument="-B" type="select" multiple="true" label="Append a precentage column of the selected bases">
+            <option value="A"></option>
+            <option value="G"></option>
+            <option value="C"></option>
+            <option value="T"></option>
+            <option value="N"></option>
+        </param>
+        <param argument="-C" type="select" multiple="true" label="Append a count column of the selected bases">
+            <option value="A"></option>
+            <option value="G"></option>
+            <option value="C"></option>
+            <option value="T"></option>
+            <option value="N"></option>
+        </param>
         <param argument="--gc" type="boolean" truevalue="--gc" falsevalue="" checked="false" label="Output GC content?"/>
         <param argument="--gc_skew" type="boolean" truevalue="--gc-skew" falsevalue="" checked="false" label="Output GC-Skew?"/>
         <param argument="--header_line" type="boolean" truevalue="--header-line" falsevalue="" checked="false" label="Output header line?"/>
@@ -66,6 +86,8 @@
             <param name="input" value="input1.fasta.gz" ftype="fasta.gz"/>
             <param name="alphabet" value="true"/>
             <param name="avg_qual" value="true"/>
+            <param name="B" value="A,T"/>
+            <param name="C" value="A"/>
             <param name="gc" value="true"/>
             <param name="gc_skew" value="true"/>
             <param name="header_line" value="true"/>
diff -r 654a2f089252 -r b91a71153b2f test-data/fx2tab_output4.tabular
--- a/test-data/fx2tab_output4.tabular	Tue Jul 15 19:35:45 2025 +0000
+++ b/test-data/fx2tab_output4.tabular	Tue Aug 19 17:14:34 2025 +0000
@@ -1,4 +1,4 @@
-#id	length	GC	GC-Skew	alphabet	avg.qual	seq.hash
-ENA|AB011145|AB011145.1	4796	38.47	11.65	ACGT	0.00	c19cf05cadbdbc26e22efc2201acfcec
-ENA|M10051|M10051.1	4723	55.24	0.50	ACGT	0.00	4f6bbf79e427ef90b6f31de5023ad241
-ENA|BC112106|BC112106.1	1213	58.78	-15.01	ACGT	0.00	3b099f7df389373bb7e3269efc819599
+#id	length	GC	GC-Skew	A	AT	alphabet	avg.qual	seq.hash
+ENA|AB011145|AB011145.1	4796	38.47	11.65	1545	61.53	ACGT	0.00	c19cf05cadbdbc26e22efc2201acfcec
+ENA|M10051|M10051.1	4723	55.24	0.50	1068	44.76	ACGT	0.00	4f6bbf79e427ef90b6f31de5023ad241
+ENA|BC112106|BC112106.1	1213	58.78	-15.01	233	41.22	ACGT	0.00	3b099f7df389373bb7e3269efc819599