Mercurial > repos > ebi-gxa > scpred_preprocess_data

annotate scpred_preprocess_data.xml @ 0:ec6d9a9fb273 draft

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"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit c6a3af3aa798c106d1a8f3e2bf1aef5251d0bb7e"
author ebi-gxa
date Mon, 27 Apr 2020 09:43:08 -0400
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children 03b45c148df7
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ec6d9a9fb273 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit c6a3af3aa798c106d1a8f3e2bf1aef5251d0bb7e"
ebi-gxa
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1 <tool id="scpred_preprocess_data" name="Scpred pre-process" version="@TOOL_VERSION@+galaxy0" profile="@PROFILE@">
ec6d9a9fb273 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit c6a3af3aa798c106d1a8f3e2bf1aef5251d0bb7e"
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2 <description>Pre-process input dataset (no train/test split)</description>
ec6d9a9fb273 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit c6a3af3aa798c106d1a8f3e2bf1aef5251d0bb7e"
ebi-gxa
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3 <macros>
ec6d9a9fb273 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit c6a3af3aa798c106d1a8f3e2bf1aef5251d0bb7e"
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4 <import>scpred_macros.xml</import>
ec6d9a9fb273 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit c6a3af3aa798c106d1a8f3e2bf1aef5251d0bb7e"
ebi-gxa
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5 </macros>
ec6d9a9fb273 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit c6a3af3aa798c106d1a8f3e2bf1aef5251d0bb7e"
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6 <expand macro="requirements" />
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ebi-gxa
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7 <command detect_errors="exit_code"><![CDATA[
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8 scpred_preprocess_data.R --input-sce-object "${input_sce_object}" --normalised-counts-slot "${norm_counts_slot}" --output-matrix-object "${output_mat_object}" --output-labels "${output_labels}" ]]></command>
ec6d9a9fb273 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit c6a3af3aa798c106d1a8f3e2bf1aef5251d0bb7e"
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9 <inputs>
ec6d9a9fb273 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit c6a3af3aa798c106d1a8f3e2bf1aef5251d0bb7e"
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10 <param type="data" name="input_sce_object" label="SCE object containing expression data" format="rdata" help="File with serialized SingleCellExperiment object that contains expression matrix" />
ec6d9a9fb273 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit c6a3af3aa798c106d1a8f3e2bf1aef5251d0bb7e"
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11 <param type="text" name="norm_counts_slot" value="normcounts" label="Normalised counts slot" help="Slot containing normalised counts in input SCE object" />
ec6d9a9fb273 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit c6a3af3aa798c106d1a8f3e2bf1aef5251d0bb7e"
ebi-gxa
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12 </inputs>
ec6d9a9fb273 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit c6a3af3aa798c106d1a8f3e2bf1aef5251d0bb7e"
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13 <outputs>
ec6d9a9fb273 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit c6a3af3aa798c106d1a8f3e2bf1aef5251d0bb7e"
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14 <data name="output_mat_object" format="rdata" />
ec6d9a9fb273 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit c6a3af3aa798c106d1a8f3e2bf1aef5251d0bb7e"
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15 <data name="output_labels" format="txt" />
ec6d9a9fb273 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit c6a3af3aa798c106d1a8f3e2bf1aef5251d0bb7e"
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16 </outputs>
ec6d9a9fb273 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit c6a3af3aa798c106d1a8f3e2bf1aef5251d0bb7e"
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17 <help><![CDATA[
ec6d9a9fb273 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit c6a3af3aa798c106d1a8f3e2bf1aef5251d0bb7e"
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18 @HELP@
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19
ec6d9a9fb273 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit c6a3af3aa798c106d1a8f3e2bf1aef5251d0bb7e"
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20 @VERSION_HISTORY@
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21 ]]></help>
ec6d9a9fb273 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit c6a3af3aa798c106d1a8f3e2bf1aef5251d0bb7e"
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22 <expand macro="citations" />
ec6d9a9fb273 "planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit c6a3af3aa798c106d1a8f3e2bf1aef5251d0bb7e"
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23 </tool>