# HG changeset patch
# User ebi-gxa
# Date 1587742032 14400
# Node ID 3867289e6c1a0957e7bde5e19e4bf35961c7a717
# Parent  c6fd7cbaf247f46e8c9466b22cbd29ae0b633a16
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 241c850301f8094f6aa0016e2335a8b550c29aed"

diff -r c6fd7cbaf247 -r 3867289e6c1a scpred_eigen_decomp.xml
--- a/scpred_eigen_decomp.xml	Wed Apr 08 06:25:22 2020 -0400
+++ b/scpred_eigen_decomp.xml	Fri Apr 24 11:27:12 2020 -0400
@@ -5,7 +5,15 @@
     </macros>
     <expand macro="requirements" />
     <command detect_errors="exit_code"><![CDATA[
-        scpred_eigen_decomp.R --training-matrix "${training_matrix}" --log-transform "${log_transform}" --training-labels "${training_labels}" --principal-comps "${principal_components}" --output-path "${output_object_path}" ]]></command>
+        scpred_eigen_decomp.R --training-matrix "${training_matrix}" --training-labels "${training_labels}"  --output-path "${output_object_path}"
+
+        #if $log_transform
+        --log-transform "${log_transform}" 
+        #end if
+        #if $principal_components
+        --principal-comps "${principal_components}"
+        #end if
+         ]]></command>
     <inputs>
         <param type="data" name="training_matrix" label="Training matrix" format="rdata" help="Training matrix obtained from train/test split step" />
         <param type="boolean" name="log_transform" label="log-transform" checked="True" help="Should log-transform be performed on training data?" />
diff -r c6fd7cbaf247 -r 3867289e6c1a scpred_macros.xml
--- a/scpred_macros.xml	Wed Apr 08 06:25:22 2020 -0400
+++ b/scpred_macros.xml	Fri Apr 24 11:27:12 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>
-