diff sorted_uniq.xml @ 1:a4ad586d1403 draft

Uploaded

--- a/sorted_uniq.xml	Thu Sep 05 04:58:21 2013 -0400
+++ b/sorted_uniq.xml	Thu Sep 05 11:42:27 2013 -0400
@@ -1,7 +1,8 @@
 <tool id="unixtools_uniq_tool" name="Unique lines">
-    <description>from sorted file</description>
+    <description>assuming sorted input file</description>
     <requirements>
         <requirement type="package" version="8.21">gnu_coreutils</requirement>
+        <requirement type="package" version="4.2.2-sandbox">gnu_sed</requirement>
     </requirements>
     <command>
         uniq 
@@ -15,17 +16,23 @@
             
             ## feature is not yet released, it will be in the next 8.22 version
             ##--group=$group
+            
+            #if $count:
+                # count will print the count with spaces infrontof the line and
+                # with a space (not a tab) after the number, we need to cahnge that
+                | sed -e 's/ *//' -e 's/ /\t/' &gt; $output
+            #end if
             &gt; $output
     </command>
 
     <inputs>
-        <param format="txt" name="input" type="data" label="File to scan for unique values" help="Make sure you have sorted this file" />
+        <param format="txt,tabular" name="input" type="data" label="File to scan for unique values" help="Make sure you have sorted this file" />
 
-        <param name="count" type="boolean" label="count [-c]" help="Prefix lines by the number of occurrences" truevalue="-c" falsevalue="" />
-        <param name="repeated" type="boolean" label="repeated [-d]" help="Only print duplicate lines" truevalue="-d" falsevalue="" />
-        <param name="ignorecase" type="boolean" label="ignore case [-i]" help="Ignore differences in case when comparing" truevalue="-i" falsevalue="" />
-        <param name="uniqueonly" type="boolean" label="unique only [-u]" help="Only print unique lines" truevalue="-u" falsevalue="" />
-        <param name="skipfields" type="integer" label="skip fields [-f]" help="Avoid comparing the first N fields. (use zero to start from the first field)" size="2" value="0" />
+        <param name="count" type="boolean" label="Counting number of occurrences [-c]" help="Prefix lines by the number of occurrences" truevalue="-c" falsevalue="" />
+        <param name="repeated" type="boolean" label="Only print duplicate lines [-d]" truevalue="-d" falsevalue="" />
+        <param name="ignorecase" type="boolean" label="Ignore differences in case when comparing [-i]" truevalue="-i" falsevalue="" />
+        <param name="uniqueonly" type="boolean" label="Only print unique lines [-u]" checked="True" truevalue="-u" falsevalue="" />
+        <param name="skipfields" type="integer" label="Avoid comparing the first N fields [-f]" help="Use zero to start from the first field" size="2" value="0" />
 
         <!--
         <param name="group" type="select" label="Output all lines, and delimit each unique group.">