Fix gz/zip upload of files to test framework.

With test case to ensure they don't break again. Problem was due to a small switch of an if to an elif in 7114d15a6d22 which had been sort of masking over an older bug.

Thanks to Peter Cock for reporting the issue.

lib/galaxy/tools/test.py

@@ -195,7 +195,9 @@ class ToolTestBuilder( object ):
                     if isinstance( value, basic.DataToolParameter ):
                         if not isinstance(param_value, list):
                             param_value = [ param_value ]
-                        processed_value = [ self.__add_uploaded_dataset( context.for_state(), v, param_extra, value ) for v in param_value ]
+                        map( lambda v: self.__add_uploaded_dataset( context.for_state(), v, param_extra, value ),
+param_value )
+                        processed_value = param_value
                     elif isinstance( value, basic.DataCollectionToolParameter ):
                         assert 'collection' in param_extra
                         collection_def = param_extra[ 'collection' ]

test/functional/tools/gzipped_inputs.xml

@@ -0,0 +1,19 @@
+<tool id="gzipped_inputs" name="Echo Dataset">
+    <command>
+        cat $input1 > $out_file1
+    </command>
+    <inputs>
+        <param name="input1" type="data" label="Concatenate Dataset"/>
+    </inputs>
+    <outputs>
+        <data name="out_file1" format="input" metadata_source="input1"/>
+    </outputs>
+    <tests>
+        <test>
+            <param name="input1" value="4.bed.gz" />
+            <output name="out_file1" file="4.bed" />
+        </test>
+    </tests>
+    <help>
+    </help>
+</tool>

test/functional/tools/samples_tool_conf.xml

@@ -11,6 +11,7 @@
   <tool file="multi_output_configured.xml" />
   <tool file="composite_output.xml" />
   <tool file="metadata.xml" />
+  <tool file="gzipped_inputs.xml" />
   <tool file="output_order.xml" />
   <tool file="output_format.xml" />
   <tool file="output_filter.xml" />