Mercurial > repos > bgruening > cp_cellprofiler

changeset 4:c8fa4617f9aa draft

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"planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools commit 705efdd46afce6cbb44c87d8249566ebd528b230"
author bgruening
date Fri, 29 May 2020 21:40:02 +0000
parents 74ee5f19a155
children a99bfa2909cb
files cellprofiler.xml
diffstat 1 files changed, 25 insertions(+), 7 deletions(-) [+]
line wrap: on
line diff
--- a/cellprofiler.xml	Mon May 11 11:38:48 2020 +0000
+++ b/cellprofiler.xml	Fri May 29 21:40:02 2020 +0000
@@ -208,18 +208,36 @@
     </tests>
     
     <help>
-    This tool runs a CellProfiler @CP_VERSION@ pipeline file. 
+    <![CDATA[
+
+      .. class:: infomark
+
+      **What it does**
 
-    *** Parameters ***
+      This is the last tool in a CellProfiler workflow and runs a CellProfiler @CP_VERSION@ pipeline file on a collection of images.
+
+
+      .. class:: infomark
+
+      **Input**
+
+      - Collection of images.
 
-    images: multi-select image files
-    
-    pipeline: CellProfiler pipeline file(.cppipe) file.
+      - Existing CellProfiler pipeline file *(.cppipe)* or generated by linking CellProfiler tools.
+
+      .. class:: infomark
+
+      **Output**
 
-    *** Note ***
+      - Images if the tool *SaveImages* was included in the workflow.
+      - The features selected if the tool *ExportToSpreadsheet* was included in the workflow.
+
+      .. class:: warningmark
 
-    Only version @CP_VERSION@ pipeline can be run, other versions may cause problems.
+      **IMPORTANT**
 
+      Only the pipelines generated with the version @CP_VERSION@ of CellProfiler can be run, other versions may cause problems.
+      ]]>
     </help>
     <expand macro="citations" />
 </tool>