diff phonR_tool.xml @ 3:24f05f509f09 draft

planemo upload commit e4adec77d8b4e6385b7db85ebbe01cfb85ed8de2

--- a/phonR_tool.xml	Fri Oct 14 14:13:23 2016 -0400
+++ b/phonR_tool.xml	Fri Oct 14 15:07:25 2016 -0400
@@ -8,7 +8,7 @@
     </requirements>
 
     <command interpreter="Rscript">
-        $__tool_directory__/phonR_tool.R --input="${input}" --outdir="$htmlfile.files_path" --htmlfile="$htmlfile" --column1="${f1}" --column2="${f2}" --columnvowels="${vowel}" --pretty="${pretty}" --ellipse="${ellipse}" --tokens="${tokens}" --means="${means}" --cextokens="${cextokens}" --alphatokens="${alphatokens}" --cexmeans="${cexmeans}"
+        $__tool_directory__/phonR_tool.R --input="${input}"  --pdffile="$pdffile" --column1="${f1}" --column2="${f2}" --columnvowels="${vowel}" --pretty="${pretty}" --ellipse="${ellipse}" --tokens="${tokens}" --means="${means}" --cextokens="${cextokens}" --alphatokens="${alphatokens}" --cexmeans="${cexmeans}"
     </command>
 
     <inputs>
@@ -37,7 +37,7 @@
     </inputs>
 
     <outputs>
-        <data format="html" name="htmlfile" label="output.html" />
+        <data format="pdf" name="pdffile" label="vowelplot.pdf" />
     </outputs>
 
 
@@ -46,12 +46,8 @@
             <param name="input" value="femaletest.tsv"/>
             <param name="f1" value='4' />
             <param name="f2" value='5' />
-            <param name="vowel" value="vowel"/>
-            <output name="output">
-                <assert_contents>
-                    <has_text text="html"/>
-                </assert_contents>
-            </output>
+            <param name="vowel" value='3'/>
+            <output name="output" file="femalevowelplot.pdf" compare="sim_size" />
         </test>
     </tests>