Mercurial > repos > ebi-gxa > scmap_index_cluster
diff scmap_index_cluster.xml @ 1:e6d99b0652ec draft
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit b9472e45f909300389b426955f4f563b8428ed07
author | ebi-gxa |
---|---|
date | Fri, 25 Oct 2019 08:45:05 -0400 |
parents | 6b24ebf5b7fb |
children | 63f1a27dce34 |
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--- a/scmap_index_cluster.xml Mon Sep 16 09:56:06 2019 -0400 +++ b/scmap_index_cluster.xml Fri Oct 25 08:45:05 2019 -0400 @@ -5,7 +5,7 @@ </macros> <expand macro="requirements" /> <command detect_errors="exit_code"><![CDATA[ - scmap-index-cluster.R --input-object-file '$input_single_cell_experiment' --cluster-col '$cluster_col' --output-object-file '$output_single_cell_experiment' --output-plot-file '$plot' + scmap-preprocess-sce.R --input-object "${input_single_cell_experiment}" --output-sce-object "preprocessed_${input_single_cell_experiment}" && scmap-index-cluster.R --input-object-file "preprocessed_${input_single_cell_experiment}" --cluster-col '$cluster_col' --output-object-file '$output_single_cell_experiment' --output-plot-file '$plot' ]]></command> <inputs> <param type="data" name="input_single_cell_experiment" label="SingleCellExperiment object" format="rdata" help="File with serialized SingleCellExperiment object as produced by 'scmap select features'" />