Simple tool test for citations.

test/functional/tools/bibtex.xml

@@ -1,19 +1,12 @@
-<tool id="bibtex" name="Concatenate datasets (with a bunch of citations)">
-    <command>
-      cat $input1
-      #for $q in $queries
-            ${q.input2}
-      #end for
-      &gt; $out_file1;
-    </command>
+<tool id="bibtex" name="bibtex" version="0.1.0">
+    <command><![CDATA[
+      echo "$input1" > "$out_file1"
+   ]]></command>
     <inputs>
-        <param name="input1" type="data" label="Concatenate Dataset" />
-        <repeat name="queries" title="Dataset">
-            <param name="input2" type="data" label="Select" />
-        </repeat>
+        <param name="input1" type="integer" help="integer" value="8" />
     </inputs>
     <outputs>
-        <data name="out_file1" format="input" metadata_source="input1"/>
+        <data name="out_file1" format="txt" />
     </outputs>
     <help>
 
@@ -24,6 +17,7 @@
     </help>
     <citations>
       <citation type="doi">10.1101/gr.4086505</citation>
+      <citation type="doi">10.6084/m9.figshare.979190</citation>
       <citation type="bibtex">
 @misc{Garrison2015,
   author = {Garrison, Erik},
@@ -32,6 +26,16 @@
   publisher = {GitHub},
   journal = {GitHub repository},
   url = {https://github.com/ekg/vcflib},
+}
+      </citation>
+      <citation type="bibtex">
+@online{lh32017,
+  author = {Heng Li},
+  year = {2017},
+  title = {bwa},
+  publisher = {GitHub},
+  journal = {GitHub repository},
+  url = {https://github.com/lh3/bwa},
 }
       </citation>
       <!-- BibTeX examples taken from:
@@ -317,6 +321,5 @@
    note = "Talk at Fanstord University (this is a full UNPUBLISHED entry)",
 }
       </citation>
-      <citation type="doi">10.1101/gr.4086505</citation>
     </citations>
 </tool>

test/functional/tools/samples_tool_conf.xml

@@ -12,6 +12,7 @@
   <tool file="disambiguate_cond.xml" />
   <tool file="multi_repeats.xml"/>
   <tool file="library_data.xml"/>
+  <tool file="bibtex.xml"/>
   <tool file="multi_select.xml" />
   <tool file="multi_output.xml" />
   <tool file="multi_output_configured.xml" />

test/galaxy_selenium/navigation.yml

@@ -164,6 +164,10 @@ tool_form:
   selectors:
     options: '#options .dropdown-toggle'
     execute: 'button#execute'
+    citations: '.citations-formatted'
+    reference: '.citations-formatted .formatted-reference'
+    show_bibtex: 'button.citations-to-bibtex'
+    bibtex_area: '.citations-bibtex textarea'
 
   labels:
     generate_tour: 'Generate Tour'
@@ -221,3 +225,8 @@ libraries:
 published_grids:
   selectors:
     search: '#input-free-text-search-filter'
+
+charts:
+  selectors:
+    visualize_button: '.ui-portlet .button i.fa-line-chart'  # without icon - it waits on other buttons that aren't visible, need more specific class
+    viewport_canvas: 'svg.charts-viewport-canvas'

test/galaxy_selenium/smart_components.py

@@ -53,6 +53,9 @@ class SmartTarget(object):
         else:
             return simple_object
 
+    def all(self):
+        return self._has_driver.driver.find_elements(*self._target.element_locator)
+
     def wait_for_and_click(self, **kwds):
         return self._has_driver.wait_for_and_click(self._target, **kwds)
 

test/selenium_tests/test_tool_form.py

@@ -105,6 +105,22 @@ class ToolFormTestCase(SeleniumTestCase, UsesHistoryItemAssertions):
         assert latest_hda["hid"] == 3
         assert latest_hda["name"] == "Select first on data 1"
 
+    @selenium_test
+    def test_bibtex_rendering(self):
+        self.home()
+        self.tool_open("bibtex")
+        self.components.tool_form.citations.wait_for_visible()
+        references = self.components.tool_form.reference.all()
+        assert len(references) == 26, len(references)
+        doi_resolved_citation = references[0]
+        assert "Galaxy: A platform for interactive" in doi_resolved_citation.text
+        self.screenshot("tool_form_citations_formatted")
+
+        self.components.tool_form.show_bibtex.wait_for_and_click()
+        textarea = self.components.tool_form.bibtex_area.wait_for_visible()
+        assert "Galaxy: A platform for interactive" in textarea.get_attribute("value")
+        self.screenshot("tool_form_citations_bibtex")
+
     def _check_dataset_details_for_inttest_value(self, hid, expected_value="42"):
         self.hda_click_primary_action_button(hid, "info")