Mercurial > repos > tduigou > icfree_instructor

changeset 1:a4022782b0fc draft

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planemo upload for repository https://github.com/brsynth/icfree-ml commit 1e01b679611d980f87089184e7d8a538b96d68c7
author tduigou
date Tue, 30 May 2023 21:04:38 +0000
parents f93749376fe5
children 4f1eeb35ade7
files config/tool_conf.xml instructor.xml
diffstat 2 files changed, 8 insertions(+), 14 deletions(-) [+]
line wrap: on
line diff
--- a/config/tool_conf.xml	Tue Mar 28 12:35:26 2023 +0000
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,6 +0,0 @@
-  <section id="sbc-pa" name="SynBioCAD Pathway Analysis">
-    <tool file="synbiocad-galaxy-wrappers/icfree/converter.xml" />
-    <tool file="synbiocad-galaxy-wrappers/icfree/instructor.xml" />
-    <tool file="synbiocad-galaxy-wrappers/icfree/plates_generator.xml" />
-    <tool file="synbiocad-galaxy-wrappers/icfree/sampler.xml" />
-  </section>
--- a/instructor.xml	Tue Mar 28 12:35:26 2023 +0000
+++ b/instructor.xml	Tue May 30 21:04:38 2023 +0000
@@ -37,10 +37,10 @@
             --robot '$robot'
             --output-folder '.' &&
         mv instructions.csv '$output_instruction' &&
-        #if not os.path.isfile('volume_warning.tsv')
-            touch volume_warning.tsv &&
+        #if not os.path.isfile('volumes_warnings.tsv')
+            touch volumes_warnings.tsv &&
         #end if
-        mv volume_warning.tsv '$output_warning'
+        mv volumes_warnings.tsv '$output_warning'
     ]]></command>
     <inputs>
         <param name="plates_generator" type="data_collection" collection_type="list" format="json,tabular" label="Source/Destination corresponding to plate/wells" help="Output from iCFree plates generator"/>
@@ -53,7 +53,7 @@
         </param>
     </inputs>
     <outputs>
-        <data name="output_warning" format="tsv" label="${tool.name} - Warning" />
+        <data name="output_warning" format="tabular" label="${tool.name} - Warning" />
         <data name="output_instruction" format="csv" label="${tool.name} - Instruction" />
     </outputs>
     <tests>
@@ -61,10 +61,10 @@
             <!-- test 1: check if identical outputs are produced with default parameters  -->
             <param name="plates_generator">
                 <collection type="list">
-                    <element name="plates_generator_source_plate_1" value="plates_generator_source_plate_1.test-1.json" />
-                    <element name="plates_generator_source_plate_1.test-1.tsv" value="plates_generator_source_plate_1.test-1.tsv" />
-                    <element name="plates_generator_destination_plate_1.test-1.json" value="plates_generator_destination_plate_1.test-1.json" />
-                    <element name="plates_generator_destination_plate_1.test-1.tsv" value="plates_generator_destination_plate_1.test-1.tsv" />
+                    <element name="source_plate_1.json" value="plates_generator_source_plate_1.test-1.json" />
+                    <element name="source_plate_1.tsv" value="plates_generator_source_plate_1.test-1.tsv" />
+                    <element name="destination_plate_1.json" value="plates_generator_destination_plate_1.test-1.json" />
+                    <element name="destination_plate_1.tsv" value="plates_generator_destination_plate_1.test-1.tsv" />
                 </collection>
             </param>
             <output name="output_warning" ftype="tabular">