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Rename test files for taxonomy tools and set ftype for test's input datasets.

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This commit is contained in:
Greg Von Kuster
2009-11-20 15:35:30 -05:00
parent 82eef1efcf
commit f5bf037191
6 changed files with 10 additions and 16 deletions
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test-data/taxonomyGI.txt → test-data/taxonomyGI.tabular
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tools/taxonomy/example_dataset_missing_nodes.txt
-6
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@@ -1,6 +0,0 @@
Species_1 1 root superkingdom1 kingdom1 subkingdom1 superphylum1 phylum1 subphylum1 superclass1 class1 subclass1 superorder1 order1 suborder1 superfamily1 family1 subfamily1 tribe1 subtribe1 genus1 subgenus1 species1 subspecies1
Species_2 2 root superkingdom1 kingdom1 subkingdom1 superphylum1 phylum1 subphylum1 superclass1 class1 subclass1 superorder1 order1 suborder1 superfamily1 family1 subfamily1 tribe1 subtribe1 genus2 n species2 subspecies2
Species_3 3 root superkingdom1 kingdom1 subkingdom1 superphylum1 n subphylum3 superclass3 class3 subclass3 superorder3 order3 suborder3 superfamily3 family3 subfamily3 tribe3 subtribe3 genus3 subgenus3 species3 subspecies3
Species_4 4 root superkingdom1 kingdom1 subkingdom1 superphylum1 phylum4 subphylum4 superclass4 class4 subclass4 superorder4 order4 suborder4 superfamily4 family4 subfamily4 tribe4 subtribe4 genus4 subgenus4 species4 subspecies4
Species_5 5 root superkingdom1 kingdom1 subkingdom1 superphylum1 n subphylum3 superclass3 class3 subclass3 superorder3 order3 suborder3 superfamily3 family3 subfamily3 tribe3 subtribe3 genus3 subgenus3 species5 subspecies5
tools/taxonomy/find_diag_hits.xml
+2 -2
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@@ -37,11 +37,11 @@
</outputs>
<tests>
<test>
<param name="input1" value="taxonomyGI.dat" ftype="taxonomy"/>
<param name="input1" value="taxonomyGI.taxonomy" ftype="taxonomy"/>
<param name="id_col" value="1" />
<param name="rank_list" value="order,genus" />
<param name="out_format" value="counts" />
<output name="out_file1" file="find_diag_hits.dat" ftype="tabular"/>
<output name="out_file1" file="find_diag_hits.tabular" />
</test>
</tests>
tools/taxonomy/gi2taxonomy.xml
+2 -2
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@@ -14,10 +14,10 @@
</requirements>
<tests>
<test>
<param name="input" value="taxonomy2gi-input.txt"/>
<param name="input" ftype="tabular" value="taxonomy2gi-input.tabular"/>
<param name="giField" value="1"/>
<param name="idField" value="2"/>
<output name="out_file1" file="taxonomy2gi-output.txt"/>
<output name="out_file1" file="taxonomy2gi-output.tabular"/>
</test>
</tests>
tools/taxonomy/poisson2test.xml
+4 -4
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@@ -16,20 +16,20 @@
</outputs>
<tests>
<test>
<param name="input1" value="poisson2test1.txt"/>
<param name="input1" value="poisson2test1.tabular" ftype="tabular"/>
<param name="input2" value="2" />
<param name="input3" value="3" />
<param name="input4" value="0.44" />
<param name="input5" value="0" />
<output name="output1" file="poisson2test1.out" />
<output name="output1" file="poisson2test1_out.tabular" />
</test>
<test>
<param name="input1" value="poisson2test2.txt"/>
<param name="input1" value="poisson2test2.tabular" ftype="tabular"/>
<param name="input2" value="2" />
<param name="input3" value="3" />
<param name="input4" value="0.44" />
<param name="input5" value="0" />
<output name="output1" file="poisson2test2.out" />
<output name="output1" file="poisson2test2_out.tabular" />
</test>
</tests>
<help>
tools/taxonomy/t2t_report.xml
+2 -2
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@@ -12,8 +12,8 @@
</requirements>
<tests>
<test>
<param name="input" value="taxonomyGI.dat" ftype="taxonomy"/>
<output name="out_file1" file="t2t_report.dat"/>
<param name="input" value="taxonomyGI.taxonomy" ftype="taxonomy"/>
<output name="out_file1" file="t2t_report.tabular"/>
</test>
</tests>