Mercurial > repos > ppericard > viscorvar
view circleCor.xml @ 1:e93350dc99f1 draft
"planemo upload for repository https://gitlab.com/bilille/galaxy-viscorvar commit 1eda261d4fe137d6e8806b0c6af7eaf12d11ac95"
author | ppericard |
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date | Thu, 15 Oct 2020 12:22:25 +0000 |
parents | d0b77b926863 |
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<tool id="circleCor" name="circleCor" version="0.6+galaxy0" profile="16.04" workflow_compatible="true"> <description>plots a correlation circle for the datasets whose correlation circles can be superimposed. This correlation circle contains the selected variables of these datasets which are included in a rectangle and the response variables.</description> <requirements> <requirement type="package" version="0.6">r-viscorvar</requirement> <requirement type="package" version="2.0">r-argparse</requirement> </requirements> <stdio> <!-- <exit_code range="1:" level="fatal" /> --> </stdio> <command detect_errors="aggressive"> <![CDATA[ Rscript ${__tool_directory__}/circleCor_wrapper.R --input_rdata ${input_rdata} --blocks_vec ${select_blocks.value} --responses_var ${select_responses_var} --x_min ${x_min} --x_max ${x_max} --y_min ${y_min} --y_max ${y_max} --output_var ${output_var} --output_pdf ${output_pdf} ]]> </command> <inputs> <param name="input_rdata" type="data" format="rdata" label="Input RData file" help="output RData from matCorAddVar"/> <param name="blocks_vec_list" type="data" format="tabular" label="List of blocks vector." help="output *_blocks_comb.tsv file from matCorAddVar"/> <param name="select_blocks" type="select" label="Blocks" help="list of the blocks that are to be superimposed"> <options from_dataset="blocks_vec_list"> <column name="value" index="0"/> <filter type="unique_value" column="0"/> <filter type="sort_by" name="sorted_value" column="0"/> </options> </param> <param name="responses_var_list" type="data" format="tabular" label="List of response variables" help="output *_response_var.tsv file from matCorAddVar"/> <param name="select_responses_var" type="select" display="checkboxes" multiple="true" label="Response variables" help="select the response variables which will be plotted in the correlation circle"> <!-- <param name="select_responses_var" type="select" multiple="true" label="Response variables"> --> <options from_dataset="responses_var_list"> <column name="value" index="0"/> <filter type="unique_value" column="0"/> <filter type="sort_by" name="sorted_value" column="0"/> </options> </param> <param name="x_min" type="float" value="-1" min="-1" max="1" label="X min" help="" /> <param name="x_max" type="float" value="1" min="-1" max="1" label="X max" help="" /> <param name="y_min" type="float" value="-1" min="-1" max="1" label="Y min" help="" /> <param name="y_max" type="float" value="1" min="-1" max="1" label="Y max" help="" /> </inputs> <outputs> <data name="output_var" format="tabular" label="${tool.name}_selected_var.tsv" /> <data name="output_pdf" format="pdf" label="${tool.name}.pdf" /> </outputs> <tests> </tests> <help> </help> </tool>