# HG changeset patch
# User ebi-gxa
# Date 1587742106 14400
# Node ID 4a77d2091aec91fcac6ff23b422f4274c40f2cf2
# Parent  db7ecc1aaf59e0c08c698d57d1bef3aafc214e5b
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 241c850301f8094f6aa0016e2335a8b550c29aed"

diff -r db7ecc1aaf59 -r 4a77d2091aec scpred_get_feature_space.xml
--- a/scpred_get_feature_space.xml	Wed Apr 08 06:38:03 2020 -0400
+++ b/scpred_get_feature_space.xml	Fri Apr 24 11:28:26 2020 -0400
@@ -5,7 +5,15 @@
     </macros>
     <expand macro='requirements' />
     <command detect_errors='exit_code'><![CDATA[
-        scpred_get_feature_space.R  --input-object '${input_object}'  --prediction-column '${prediction_column}' --explained-var-limit '${explained_var_limit}' --output-path '${output_obj_path}' --eigenvalue-plot-path '${eigenvalue_plot_path}']]></command>
+        scpred_get_feature_space.R  --input-object '${input_object}'  --prediction-column '${prediction_column}'  --output-path '${output_obj_path}' 
+
+        #if $explained_var_limit
+        --explained-var-limit '${explained_var_limit}'
+        #end if
+        #if $eigenvalue_plot_path
+        --eigenvalue-plot-path '${eigenvalue_plot_path}'
+        #end if
+        ]]></command>
     <inputs>
         <param type='data' name='input_object' label='Input SCE object' format='rdata' help='Input SCE object in .rds format' />
         <param type='text' name='prediction_column' label='Prediction column' help='Name of the metadata column that contains training labels' />
diff -r db7ecc1aaf59 -r 4a77d2091aec scpred_macros.xml
--- a/scpred_macros.xml	Wed Apr 08 06:38:03 2020 -0400
+++ b/scpred_macros.xml	Fri Apr 24 11:28:26 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>
-