Mercurial > repos > ebi-gxa > scpred_predict_labels

comparison scpred_predict.xml @ 2:051f5801c819 draft

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"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 59503a4ae6f53a7782336df4f82fbd755cfb2933"
author ebi-gxa
date Wed, 29 Apr 2020 12:42:24 -0400
parents c54f0e1a3bd8
children 1bc003e80986
comparison
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1:f0862eb4f999 2:051f5801c819
1 <tool id="scpred_predict_labels" name="Scpred predict" version="@TOOL_VERSION@+galaxy0"> 1 <tool id="scpred_predict_labels" name="Scpred predict" version="@TOOL_VERSION@+galaxy1">
2 <description>Make cell type predictions using trained model.</description> 2 <description>Make cell type predictions using trained model.</description>
3 <macros> 3 <macros>
4 <import>scpred_macros.xml</import> 4 <import>scpred_macros.xml</import>
5 </macros> 5 </macros>
6 <expand macro="requirements" /> 6 <expand macro="requirements" />
7 <command detect_errors="exit_code"><![CDATA[ 7 <command detect_errors="exit_code"><![CDATA[
8 scpred_predict.R --input-object "${input_object}" --pred-data "${pred_data}" --test-labels "${test_labels}" --cell-types-column "${cell_types_column}" --output-path "${output_tbl_path}" --plot-path "${plot_path}" --confusion-table "${confusion_table}" 8 scpred_predict.R --input-object "${input_object}" --pred-data "${pred_data}" --output-path "${output_tbl_path}"
9
10 #if $test_labels
11 --test-labels "${test_labels}"
12 #end if
13 #if $cell_types_column
14 --cell-types-column "${cell_types_column}"
15 #end if
16 #if $plot_path
17 --plot-path "${plot_path}"
18 #end if
19 #if $confusion_table
20 --confusion-table "${confusion_table}"
21 #end if
22
9 ]]></command> 23 ]]></command>
10 <inputs> 24 <inputs>
11 <param type="data" name="input_object" label="Input SCE object" format="rdata" help="Input SCE object in .rds format" /> 25 <param type="data" name="input_object" label="Input SCE object" format="rdata" help="Input SCE object in .rds format" />
12 <param type="data" name="pred_data" label="Matrix with query data" format="rdata" help="Path to the input prediction matrix in .rds format"/> 26 <param type="data" name="pred_data" label="Matrix with query data" format="rdata" help="Path to the input prediction matrix in .rds format"/>
13 <param type="data" name="test_labels" format="txt" label="Test labels" help="Path to the test labels file for evalutation of model performance in text format" /> 27 <param type="data" name="test_labels" format="txt" label="Test labels" help="Path to the test labels file for evalutation of model performance in text format" />