Mercurial > repos > ebi-gxa > scmap_select_features
changeset 1:953c7ff4069e 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 08:45:58 -0400 |
| parents | 22b605f49f5f |
| children | 3e22b96ba4fb |
| files | scmap_macros.xml scmap_select_features.xml |
| diffstat | 2 files changed, 4 insertions(+), 2 deletions(-) [+] |
line wrap: on
line diff
--- a/scmap_macros.xml Mon Sep 16 09:57:48 2019 -0400 +++ b/scmap_macros.xml Fri Oct 25 08:45:58 2019 -0400 @@ -3,7 +3,9 @@ <token name="@HELP@">More information can be found at https://bioconductor.org/packages/release/bioc/html/scmap.html</token> <xml name="requirements"> <requirements> - <requirement type="package" version="0.0.2">scmap-cli</requirement> + <requirement type="package">openblas</requirement> + <requirement type="package">bioconductor-delayedarray</requirement> + <requirement type="package" version="0.0.4">scmap-cli</requirement> <yield/> </requirements> </xml>
--- a/scmap_select_features.xml Mon Sep 16 09:57:48 2019 -0400 +++ b/scmap_select_features.xml Fri Oct 25 08:45:58 2019 -0400 @@ -5,7 +5,7 @@ </macros> <expand macro="requirements" /> <command detect_errors="exit_code"><![CDATA[ - scmap-select-features.R --input-object-file '$input_single_cell_experiment' --n-features '$n_features' --output-object-file '$output_single_cell_experiment' --output-plot-file '$plot' + scmap-preprocess-sce.R --input-object "${input_single_cell_experiment}" --output-sce-object "${input_single_cell_experiment}.preprocessed" && scmap-select-features.R --input-object-file "${input_single_cell_experiment}.preprocessed" --n-features '$n_features' --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" />