diff orfipy.xml @ 1:45d4d26e01b5 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/orfipy commit 472277ff42e1d7018e0d2921bd51a018572793c5

--- a/orfipy.xml	Wed May 25 14:53:03 2022 +0000
+++ b/orfipy.xml	Thu Sep 22 14:03:42 2022 +0000
@@ -1,4 +1,4 @@
-<tool id="orfipy" name="ORFipy" version="@TOOL_VERSION@+galaxy0" profile="21.05">
+<tool id="orfipy" name="ORFipy" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="21.05">
     <description>a versatile ORF finder</description>
     <macros>
         <import>macros.xml</import>
@@ -28,6 +28,9 @@
 #if $min:
     --min $min
 #end if
+#if $max:
+    --max $max
+#end if
 --table $table
 #if $start:
     --start '$start'
@@ -84,6 +87,8 @@
         </param>
         <param argument="--min" type="integer" min="0" optional="true" label="Minimum length of ORFs"
                help="No ORFs below this value will be reported. All ORFs will be reported if this parameter is not set. Default is 30"/>
+        <param argument="--max" type="integer" min="0" optional="true" label="Maximum length of ORFs"
+               help="This value doesn't take in account the STOP codon. No ORFs over this value will be reported. Default is 1.000.000.000."/>
         <param argument="--start" type="text" optional="true" label="Start codon(s) to use"
                help="A comma-separated list without spaces. Only ATCG and comma are allowed">
             <validator type="regex" message="Only 'ATCGatcg' and ',' are allowed in this field">^[ATGCatcg,]*$</validator>
@@ -140,6 +145,12 @@
             <param name="partial_5" value="true"/>
             <output name="out_dna" file="test2.fa"/>
         </test>
+        <test expect_num_outputs="1">
+            <param name="input1" value="orfipy.fa.gz"/>
+            <param name="out_files" value="DNA"/>
+            <param name="max" value="100000000"/>
+            <output name="out_dna" file="test3.fa"/>
+        </test>
     </tests>
     <help><![CDATA[
 **What it does**