Mercurial > repos > jjohnson > bcftools_annotate

diff bcftools_annotate.xml @ 1:6c6a06ac35c1 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit 21c66fb27c7e2fd21c7f7607b3b29e77e64fb86d-dirty
author jjohnson
date Sun, 26 Jun 2016 15:31:54 -0400
parents a30804010531
children
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--- a/bcftools_annotate.xml	Sat Jun 25 20:46:09 2016 -0400
+++ b/bcftools_annotate.xml	Sun Jun 26 15:31:54 2016 -0400
@@ -135,7 +135,7 @@
                  To remove all INFO tags except "FOO" and "BAR", use "^INFO/FOO,INFO/BAR" (and similarly for FORMAT and FILTER). 
                  "INFO" can be abbreviated to "INF" and "FORMAT" to "FMT". 
                 ]]></help>
-                <validator type="regex" message="">^([+]?(%[A-Z]+)(\_%[A-Z]+)*)?$</validator>
+                <validator type="regex" message="">^(\^?[A-Z]+(/\w+)?(,\^?[A-Z]+(/\w+)?)*)?$</validator>
             </param>
             <param name="rename_chrs" type="data" format="tabular" label="Rename CHROM" optional="True" 
                    help="rename chromosomes according to the map in file, with old_name new_name pairs separated by whitespaces, each on a separate line." />
@@ -225,7 +225,7 @@
             <param name="output_type" value="v" />
             <output name="output_file">
                 <assert_contents>
-                    <not_has_text text="ID=X" />
+                    <not_has_text text="fltY" />
                 </assert_contents>
             </output>
         </test>
@@ -236,7 +236,7 @@
             <param name="output_type" value="v" />
             <output name="output_file">
                 <assert_contents>
-                    <not_has_text text="ID=PL" />
+                    <not_has_text text="GT:X:PL:Y:AA" />
                 </assert_contents>
             </output>
         </test>