Mercurial > repos > ebi-gxa > scmap_get_std_output
diff scmap_get_std_output.xml @ 8:601a933714f1 draft
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 8350493268ce3ced12b1133b9b0f734a288deb75
| author | ebi-gxa |
|---|---|
| date | Tue, 23 Apr 2024 07:49:05 +0000 |
| parents | 2f63b1cd9122 |
| children |
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--- a/scmap_get_std_output.xml Fri Nov 27 13:42:47 2020 +0000 +++ b/scmap_get_std_output.xml Tue Apr 23 07:49:05 2024 +0000 @@ -5,7 +5,12 @@ </macros> <expand macro="requirements" /> <command detect_errors="exit_code"><![CDATA[ - scmap_get_std_output.R --predictions-file "${input_predictions_file}" --output-table "${output_predictions_file}" --include-scores "${include_scores}" --tool '${tool}' --sim-col-name "${sim_col_name}" + scmap_get_std_output.R + --predictions-file "${input_predictions_file}" + --output-table "${output_predictions_file}" + --include-scores "${include_scores}" + --tool '${tool}' + --sim-col-name "${sim_col_name}" #if $index --index "${index}" #end if @@ -21,13 +26,19 @@ <param type="text" name="sim_col_name" value="scmap_cluster_siml" label="Column name of similarity scores" help="Name of column that contains distances between clusters/cells" /> </inputs> <outputs> - <data name="output_predictions_file" format="txt" /> + <data name="output_predictions_file" format="tabular" /> </outputs> <tests> <test> <param name="input_predictions_file" value="closest_cells_clusters.tsv" /> <param name="include_scores" value="TRUE" /> - <output name="output_predictions_file" value="scmap_output_tbl.txt" compare="sim_size" /> + <output name="output_predictions_file"> + <assert_contents> + <has_n_lines n="92"/> + <has_text text="predicted_label"/> + <has_text text="Zygote..3.RPKM."/> + </assert_contents> + </output> </test> </tests> <help><![CDATA[