diff filter_tabular.xml @ 13:4d5aae46f850 draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"

--- a/filter_tabular.xml	Sat Jun 19 14:16:06 2021 +0000
+++ b/filter_tabular.xml	Thu Aug 19 19:39:58 2021 +0000
@@ -1,4 +1,4 @@
-<tool id="filter_tabular" name="Filter Tabular" version="3.1.2">
+<tool id="filter_tabular" name="Filter Tabular" version="3.3.0">
     <description></description>
 
     <macros>
@@ -8,12 +8,14 @@
     <command detect_errors="exit_code"><![CDATA[
         python '$__tool_directory__/filter_tabular.py'
         -i '$input'
+        $comment_char
         -j '$filter_json'
         -o '$output'
     ]]></command>
     <configfiles>
         <configfile name="filter_json">
 #import json
+#set $dataset_name = $input.element_identifier
 @LINEFILTERS@
 #if $input_filters:
 #echo $json.dumps($input_filters)
@@ -22,6 +24,7 @@
     </configfiles>
     <inputs>
         <param name="input" type="data" format="tabular" label="Tabular Dataset to filter"/>
+        <param name="comment_char" type="boolean" truevalue="--comment_char '#'" falsevalue="" checked="true" label="exclude lines starting with #"/>
         <expand macro="macro_line_filters" />
     </inputs>
     <outputs>
@@ -139,6 +142,30 @@
             </repeat>
             <output name="output" file="filtered_customers_results.tsv"/>
         </test>
+        <test>
+            <param name="input" ftype="tabular" value="IEDB.tsv"/>
+            <param name="comment_char" value="False"/>
+            <repeat name="linefilters">
+                <conditional name="filter">
+                    <param name="filter_type" value="replace"/>
+                    <param name="column" value="c1"/>
+                    <param name="regex_pattern" value="#ID"/>
+                    <param name="regex_replace" value="ID"/>
+                </conditional>
+            </repeat>
+            <repeat name="linefilters">
+                <conditional name="filter">
+                    <param name="filter_type" value="select_column_slices"/>
+                    <param name="columns" value="6,0:6,8,-3"/>
+                </conditional>
+            </repeat>
+            <repeat name="linefilters">
+                <conditional name="filter">
+                    <param name="filter_type" value="append_dataset_name"/>
+                </conditional>
+            </repeat>
+            <output name="output" file="filtered_IEDB.tsv"/>
+        </test>
     </tests>
     <help><![CDATA[
 ==============