# HG changeset patch
# User iuc
# Date 1534950301 14400
# Node ID 567d5b3c52b1a5b4b35d216a31bebb00adba17ec
# Parent  dd3737e40dcefeef8feb9f407b9f820f63cf9aed
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/fastx_toolkit/fastx_artifacts_filter commit 3953b65f6b1c0336e9cadbe0792a5d3b14b5643a

diff -r dd3737e40dce -r 567d5b3c52b1 fastx_artifacts_filter.xml
--- a/fastx_artifacts_filter.xml	Tue May 08 13:27:02 2018 -0400
+++ b/fastx_artifacts_filter.xml	Wed Aug 22 11:05:01 2018 -0400
@@ -9,6 +9,7 @@
 -v
 -o '$output'
 @FQQUAL@
+@GZIP@
     ]]></command>
 
     <inputs>
diff -r dd3737e40dce -r 567d5b3c52b1 macros.xml
--- a/macros.xml	Tue May 08 13:27:02 2018 -0400
+++ b/macros.xml	Wed Aug 22 11:05:01 2018 -0400
@@ -2,7 +2,7 @@
 <macros>
     <token name="@CATS@">
         #if $input.is_of_type('fasta.gz', 'fastqsanger.gz', 'fastqsolexa.gz', 'fastqillumina.gz'):
-            zcat -f '$input' |
+            gunzip -c -f '$input' |
         #elif $input.is_of_type('fastqsanger.bz2', 'fastqsolexa.bz2', 'fastqillumina.bz2'):
             bzcat -f '$input' |
         #else:
@@ -18,6 +18,13 @@
             #end if
         ]]>
     </token>
+    <token name="@GZIP@">
+        <![CDATA[
+            #if $input.is_of_type('fasta.gz', 'fastqsanger.gz', 'fastqsolexa.gz', 'fastqillumina.gz'):
+                -z
+            #end if
+        ]]>
+    </token>
     <xml name="requirements">
         <requirements>
             <requirement type="package" version="@VERSION@">fastx_toolkit</requirement>