# HG changeset patch
# User ebi-gxa
# Date 1587742062 14400
# Node ID a7bf1d2b310bb77cc7f903cd408d700a478c24f7
# Parent  156b1e9cc26925a9f7488c92c263c6f6be1a44d9
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 241c850301f8094f6aa0016e2335a8b550c29aed"

diff -r 156b1e9cc269 -r a7bf1d2b310b scpred_get_std_output.xml
--- a/scpred_get_std_output.xml	Wed Apr 08 06:29:34 2020 -0400
+++ b/scpred_get_std_output.xml	Fri Apr 24 11:27:42 2020 -0400
@@ -5,10 +5,11 @@
     </macros>
     <expand macro="requirements" />
     <command detect_errors="exit_code"><![CDATA[ 
-        scpred_get_std_output.R --predictions-file "${predictions_file}" --get-scores "${get_scores}" --output-table "${output_table}" 
+        scpred_get_std_output.R --predictions-file "${predictions_file}" --get-scores "${get_scores}" --classifier '${classifier}' --output-table "${output_table}" 
         ]]></command>
     <inputs>
         <param type="data" name="predictions_file" label="Predictions file" format="txt" help="Path to the predictions file in text format" />
+        <param type="data" name="classifier" label="Classifier object" format="rdata" help="Path to the classifier object used to obtain predictions" />
         <param type="boolean" checked="false" name="get_scores" label="Get scores" help="Boolean: should the prediction scores be included? default: FALSE" />
     </inputs>
     <outputs>
diff -r 156b1e9cc269 -r a7bf1d2b310b scpred_macros.xml
--- a/scpred_macros.xml	Wed Apr 08 06:29:34 2020 -0400
+++ b/scpred_macros.xml	Fri Apr 24 11:27:42 2020 -0400
@@ -4,7 +4,7 @@
     <token name="@PROFILE@">18.01</token>
     <xml name="requirements">
         <requirements>
-            <requirement type="package" version="0.0.5">scpred-cli</requirement>
+            <requirement type="package" version="0.0.7">scpred-cli</requirement>
                 <yield/>
         </requirements>
     </xml>
@@ -37,10 +37,9 @@
                 journal = {GitHub repository},
                 url = {https://github.com/ebi-gene-expression-group/scpred-cli.git},
               }
-
             </citation>
+            <citation type="doi">10.1101/2020.04.08.032698</citation>
             <yield />
         </citations>
     </xml>
 </macros>
-