Mercurial > repos > iuc > biom_convert
comparison biom_convert.xml @ 12:d4d4e9febf5c draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/biom_format commit 950bc3657a7bd6975337324bd0f1d0e5c0afc0f4
| author | iuc |
|---|---|
| date | Fri, 15 Mar 2024 15:26:20 +0000 |
| parents | 091bb5922a82 |
| children |
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| 11:091bb5922a82 | 12:d4d4e9febf5c |
|---|---|
| 112 </inputs> | 112 </inputs> |
| 113 <outputs> | 113 <outputs> |
| 114 <data format="biom1" name="output_fp"> | 114 <data format="biom1" name="output_fp"> |
| 115 <change_format> | 115 <change_format> |
| 116 <when input="output.type_selector" value="tsv" format="tabular" /> | 116 <when input="output.type_selector" value="tsv" format="tabular" /> |
| 117 <when input="output.biom_type" value="json" format="biom1" /> | 117 <when input="output.biom_type.selector" value="json" format="biom1" /> |
| 118 <when input="output.biom_type" value="hdf5" format="biom2" /> | 118 <when input="output.biom_type.selector" value="hdf5" format="biom2" /> |
| 119 </change_format> | 119 </change_format> |
| 120 </data> | 120 </data> |
| 121 </outputs> | 121 </outputs> |
| 122 <tests> | 122 <tests> |
| 123 <test> | 123 <test> |
| 130 <param name="type_selector" value="biom"/> | 130 <param name="type_selector" value="biom"/> |
| 131 <param name="table_type" value="OTU table"/> | 131 <param name="table_type" value="OTU table"/> |
| 132 <conditional name="biom_type"> | 132 <conditional name="biom_type"> |
| 133 <param name="selector" value="json"/> | 133 <param name="selector" value="json"/> |
| 134 </conditional> | 134 </conditional> |
| 135 <param name="sample_metadata_fp"/> | |
| 136 <param name="observation_metadata_fp"/> | |
| 137 </conditional> | 135 </conditional> |
| 138 <output name="output_fp" file="output_taxonomy_1.biom1.re" ftype="biom1" compare="re_match"/> | 136 <output name="output_fp" file="output_taxonomy_1.biom1.re" ftype="biom1" compare="re_match"/> |
| 137 </test> | |
| 138 <test> | |
| 139 <conditional name="input"> | |
| 140 <param name="type_selector" value="tsv"/> | |
| 141 <param name="input_fp" value="input_abundance_taxonomy_1.tabular" ftype="tabular"/> | |
| 142 <param name="process_obs_metadata" value="taxonomy"/> | |
| 143 </conditional> | |
| 144 <conditional name="output"> | |
| 145 <param name="type_selector" value="biom"/> | |
| 146 <param name="table_type" value="OTU table"/> | |
| 147 <conditional name="biom_type"> | |
| 148 <param name="selector" value="hdf5"/> | |
| 149 </conditional> | |
| 150 </conditional> | |
| 151 <output name="output_fp" ftype="biom2"> | |
| 152 <assert_contents> | |
| 153 <has_size value="37k" delta="10k"/> | |
| 154 </assert_contents> | |
| 155 </output> | |
| 139 </test> | 156 </test> |
| 140 <test> | 157 <test> |
| 141 <conditional name="input"> | 158 <conditional name="input"> |
| 142 <param name="type_selector" value="tsv"/> | 159 <param name="type_selector" value="tsv"/> |
| 143 <param name="input_fp" value="input_abundance_1.tabular" ftype="tabular"/> | 160 <param name="input_fp" value="input_abundance_1.tabular" ftype="tabular"/> |