diff snpfreqplot.xml @ 2:dc51db22310c draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/snpfreqplot/ commit d1c54d077cfc0eeb9699719760e668948cb9bbbc"

--- a/snpfreqplot.xml	Thu Dec 10 13:41:29 2020 +0000
+++ b/snpfreqplot.xml	Fri Dec 18 23:48:01 2020 +0000
@@ -3,7 +3,7 @@
     <description>Generates a heatmap of allele frequencies grouped by variant type for SnpEff-annotated SARS-CoV-2 data</description>
     <macros>
         <token name="@VERSION@">1.0</token>
-        <token name="@GALAXY_VERSION@">1</token>
+        <token name="@GALAXY_VERSION@">2</token>
     </macros>
     <requirements>
         <requirement type="package" version="4.0">r-base</requirement>
@@ -179,6 +179,14 @@
             <output name="outfile" ftype="pdf" value="heatmap.default.pdf" compare="sim_size" delta="250" />
         </test>
         <test expect_num_outputs="1">
+            <!-- PDF, tabular inputs, short color palette -->
+            <param name="sinputs" ftype="tabular" value="input436.tabular,input437.tabular,input438.tabular,input439.tabular,input440.tabular,input441.tabular,input442.tabular,input443.tabular,input444.tabular" />
+            <section name="advanced" >
+                <param name="color" value="Set2" />
+            </section>
+            <output name="outfile" ftype="pdf" value="heatmap.default.pdf" compare="sim_size" delta="250" />
+        </test>
+        <test expect_num_outputs="1">
             <!-- PNG, multiple inputs, non-numeric IDS -->
             <param name="sinputs" ftype="tabular" value="input436.tabular,input437.tabular,input443.tabular,input444.tabular" />
             <param name="varfreq" value="0.5" />
@@ -242,15 +250,16 @@
             </output>
         </test>
         <test expect_num_outputs="1">
-            <!-- SVG, Vcf test with problematic splice+syn at snpeff789.vcf for threshold = 0.0222 -->
-            <param name="sinputs" ftype="vcf" value="snpeff.123.vcf,snpeff.456.vcf,snpeff.789.vcf" />
+            <!-- SVG, Vcf test with problematic splice+syn at snpeff789.vcf for threshold = 0.0222
+            and an "empty" file (no variants) and a file with just one variant among its inputs -->
+            <param name="sinputs" ftype="vcf" value="snpeff.123.vcf,snpeff.456.vcf,snpeff.789.vcf,no_variants.vcf,single_variant.vcf" />
             <param name="varfreq" value="0.0222" />
             <section name="advanced" >
                 <param name="output_type" value="svg" />
             </section>
             <output name="outfile" ftype="svg">
                 <assert_contents>
-                    <has_text text="viewBox=&quot;0 0 3101 879&quot;" />
+                    <has_text text="viewBox=&quot;0 0 1962 546&quot;" />
                 </assert_contents>
             </output>
         </test>