Test taxonomy_krona_chart 2.7.1

[jennaj]

galaxyproject/usegalaxy-playbook#360

tool_id=toolshed.g2.bx.psu.edu/repos/crs4/taxonomy_krona_chart/taxonomy_krona_chart/2.7.1

[jennaj]

/run-tool-test tool_id=toolshed.g2.bx.psu.edu/repos/crs4/taxonomy_krona_chart/taxonomy_krona_chart/2.7.1

[mvdbeek]

Results (powered by Planemo)

Summary

State	Count
Total	2
Passed	1
Error	0
Failure	1
Skipped	0

Failed s

• ❌ toolshed.g2.bx.psu.edu/repos/crs4/taxonomy_krona_chart/taxonomy_krona_chart (Test tool test #1)

  Problems:

  • Output output:  different than expected, difference (using diff):
    ( /tmp/tmpe6j_x8ivkrona_test1.html v. /tmp/tmpfpnjpzx8krona_test1.html )
    --- local_file
    +++ history_data
    @@ -6621,77 +6621,18 @@
        </datasets>
     <node name="Root">
      <count><val>100</val></count>
    - <node name="Eukaryota">
    -  <rank><val>superkingdom</val></rank>
    -  <count><val>94</val></count>
    -  <node name="Metazoa">
    -   <rank><val>kingdom</val></rank>
    -   <count><val>94</val></count>
    -   <node name="Chordata">
    -    <rank><val>phylum</val></rank>
    -    <count><val>94</val></count>
    -    <node name="Craniata">
    -     <rank><val>subphylum</val></rank>
    -     <count><val>94</val></count>
    -     <node name="Gnathostomata">
    -      <rank><val>superclass</val></rank>
    -      <count><val>94</val></count>
    -      <node name="Mammalia">
    -       <rank><val>class</val></rank>
    -       <count><val>94</val></count>
    -       <node name="Euarchontoglires">
    ********
    *SNIP *
    ********
    +             <unassigned><val>2</val></unassigned>
    +             <count><val>94</val></count>
    +             <rank><val>genus</val></rank>
    +             <node name="Rattus norvegicus">
    +              <rank><val>species</val></rank>
    +              <members>
    +               <vals><val>IA_1-144417</val><val>IA_1-278966</val><val>IA_1-314709</val><val>IA_1-324951</val><val>IA_1-27817</val><val>IA_1-95255</val><val>IA_1-104173</val><val>IA_1-135979</val><val>IA_1-139090</val><val>IA_1-139090</val><val>IA_1-139090</val><val>IA_1-144996</val><val>IA_1-160446</val><val>IA_1-160446</val><val>IA_1-160446</val><val>IA_1-160446</val><val>IA_1-160446</val><val>IA_1-160446</val><val>IA_1-160446</val><val>IA_1-160446</val><val>IA_1-161439</val><val>IA_1-190855</val><val>IA_1-190855</val><val>IA_1-190855</val><val>IA_1-190855</val><val>IA_1-190855</val><val>IA_1-190855</val><val>IA_1-190855</val><val>IA_1-190855</val><val>IA_1-190855</val><val>IA_1-190855</val><val>IA_1-190855</val><val>IA_1-190855</val><val>IA_1-190855</val><val>IA_1-190855</val><val>IA_1-190855</val><val>IA_1-190855</val><val>IA_1-190855</val><val>IA_1-190855</val><val>IA_1-190855</val><val>IA_1-190855</val><val>IA_1-190855</val><val>IA_1-205154</val><val>IA_1-205154</val><val>IA_1-205154</val><val>IA_1-205154</val><val>IA_1-205154</val><val>IA_1-205154</val><val>IA_1-205154</val><val>IA_1-205154</val><val>IA_1-205154</val><val>IA_1-205154</val><val>IA_1-216231</val><val>IA_1-236286</val><val>IA_1-236286</val><val>IA_1-236286</val><val>IA_1-236286</val><val>IA_1-236286</val><val>IA_1-236286</val><val>IA_1-236286</val><val>IA_1-236286</val><val>IA_1-236286</val><val>IA_1-236286</val><val>IA_1-236286</val><val>IA_1-236286</val><val>IA_1-237681</val><val>IA_1-250166</val><val>IA_1-254274</val><val>IA_1-254274</val><val>IA_1-27817</val><val>IA_1-29000</val><val>IA_1-291427</val><val>IA_1-291427</val><val>IA_1-293054</val><val>IA_1-293054</val><val>IA_1-296315</val><val>IA_1-310974</val><val>IA_1-310974</val><val>IA_1-311282</val><val>IA_1-311282</val><val>IA_1-42600</val><val>IA_1-45102</val><val>IA_1-45102</val><val>IA_1-48105</val><val>IA_1-48105</val><val>IA_1-57254</val><val>IA_1-61975</val><val>IA_1-61975</val><val>IA_1-66943</val><val>IA_1-68288</val><val>IA_1-82334</val><val>IA_1-95526</val></vals>
    +              </members>
    +              <count><val>92</val></count>
    +             </node>
    +            </node>
    +           </node>
    +          </node>
    +         </node>
    +        </node>
    +       </node>
    +      </node>
    +     </node>
    +    </node>
    +   </node>
    +  </node>
    + </node>
     </node>
       </krona>
     </div></body></html>
    
    

  Command Line:

  Exit Code:

  • 0

  Standard Output:

  • Importing /corral4/main/objects/c/4/b/dataset_c4b1d78e-94da-4429-a952-9922f83d8535.dat...
    Writing /corral4/main/jobs/043/641/43641244/outputs/galaxy_dataset_a3cf03a9-8224-4d41-80a1-d796a3d47c77.dat...
    
    Importing /corral4/main/objects/c/4/b/dataset_c4b1d78e-94da-4429-a952-9922f83d8535.dat...
    Writing /corral4/main/jobs/043/641/43641244/outputs/galaxy_dataset_a3cf03a9-8224-4d41-80a1-d796a3d47c77.dat...
    

  Job Parameters:

  • Job parameter	Parameter value
    type_of_data	{"__current_case__": 0, "input": {"values": [{"id": 98655746, "src": "hda"}]}, "max_rank": "18", "type_of_data_selector": "taxonomy"}
    root_name	"Root"
    combine_inputs	"false"
    chromInfo	"/cvmfs/data.galaxyproject.org/managed/len/ucsc/?.len"
    dbkey	"?"
    __input_ext	"taxonomy"

Passed s

• ✅ toolshed.g2.bx.psu.edu/repos/crs4/taxonomy_krona_chart/taxonomy_krona_chart (Test test against test.galaxyproject.org #2)

  Command Line:

  Exit Code:

  • 0

  Standard Output:

  • Writing /corral4/main/jobs/043/641/43641246/outputs/galaxy_dataset_a226f8e2-f0e0-4f37-a28b-846961ed041e.dat...
    
    Writing /corral4/main/jobs/043/641/43641246/outputs/galaxy_dataset_a226f8e2-f0e0-4f37-a28b-846961ed041e.dat...
    

  Job Parameters:

  • Job parameter	Parameter value
    type_of_data	{"__current_case__": 1, "input": {"values": [{"id": 98655747, "src": "hda"}, {"id": 98655748, "src": "hda"}]}, "type_of_data_selector": "text"}
    root_name	"Root"
    combine_inputs	"false"
    chromInfo	"/cvmfs/data.galaxyproject.org/managed/len/ucsc/?.len"
    dbkey	"?"
    __input_ext	"tabular"

[jennaj]

galaxyproject/usegalaxy-playbook#360 (comment)