Mercurial > repos > tduigou > cloning_simulation

diff cloning_similation.xml @ 3:044d36066cb3 draft

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planemo upload for repository https://github.com/Edinburgh-Genome-Foundry/DnaCauldron/tree/master commit 6ae809b563b40bcdb6be2e74fe2a84ddad5484ae
author tduigou
date Fri, 16 May 2025 12:40:59 +0000
parents 3171db614963
children 254d284a5be9
line wrap: on
line diff
--- a/cloning_similation.xml	Fri May 16 11:32:06 2025 +0000
+++ b/cloning_similation.xml	Fri May 16 12:40:59 2025 +0000
@@ -38,7 +38,7 @@
             --output_simulation 'output_zip.zip'
             --enzyme '$adv.enzyme' 
             --topology '$topology'&&
-        cp 'output_zip.zip' '$output_zip'
+        cp 'output_zip.zip' '$output_zip' 
     ]]></command>
     <inputs>
         <param name="genbank_files" type="data_collection" collection_type="list" format="genbank,fasta" label="GenBank and/or Fasta File(s)"/>
@@ -97,7 +97,7 @@
                     </has_archive_member>
                 </assert_contents>
             </output>
-            <output_collection name="outdir_gb" type="list" count="4">
+            <output_collection name="construct_gb" type="list" count="4">
                 <element name="construct_1">
                     <assert_contents>
                      <has_n_lines min="20" />
@@ -139,7 +139,7 @@
                     </has_archive_member>
                 </assert_contents>
             </output>
-            <output_collection name="outdir_gb" type="list" count="4">
+            <output_collection name="construct_gb" type="list" count="3">
                 <element name="construct_1">
                     <assert_contents>
                      <has_n_lines min="20" />
@@ -177,7 +177,7 @@
                     </has_archive_member>
                 </assert_contents>
             </output>
-            <output_collection name="outdir_gb" type="list" count="0">
+            <output_collection name="construct_gb" type="list" count="0">
             </output_collection>
         </test>
         <!--test BASIC_assembly class-->
@@ -203,7 +203,7 @@
                     </has_archive_member>
                 </assert_contents>
             </output>
-            <output_collection name="outdir_gb" type="list" count="0">
+            <output_collection name="construct_gb" type="list" count="0">
             </output_collection>
         </test>
         <!--test biobrick_assembly class-->
@@ -229,7 +229,22 @@
                     </has_archive_member>
                 </assert_contents>
             </output>
-            <output_collection name="outdir_gb" type="list" count="0">
+            <output_collection name="construct_gb" type="list" count="3">
+                <element name="C1_prom_barcode">
+                    <assert_contents>
+                     <has_n_lines min="20" />
+                    </assert_contents>
+                </element>
+                <element name="C2_gfp_term">
+                    <assert_contents>
+                     <has_n_lines min="20" />
+                    </assert_contents>
+                </element>
+                <element name="C3_final">
+                    <assert_contents>
+                     <has_n_lines min="20" />
+                    </assert_contents>
+                </element>
             </output_collection>
         </test>
         <!--test type2s_assembly with domesticated files-->
@@ -266,7 +281,7 @@
                     </has_archive_member>
                 </assert_contents>
             </output>
-            <output_collection name="outdir_gb" type="list" count="4">
+            <output_collection name="construct_gb" type="list" count="4">
                 <element name="construct_1">
                     <assert_contents>
                      <has_n_lines min="20" />