Mercurial > repos > tduigou > doe_synbio_sampler

changeset 14:1833b1b04278 draft default tip

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planemo upload for repository ['https://github.com/brsynth/icfree-ml', 'https://github.com/pablocarb/doebase'] commit 91b7c075c2c087bb431397326521fdfb9c61f894
author tduigou
date Thu, 20 Feb 2025 12:34:52 +0000
parents 9cc1c04278e9
children
files sampler.xml test-data/sampler/output/sampling.test-1.csv test-data/sampler/output/sampling.test-1.tsv test-data/sampler/output/sampling.test-2.csv test-data/sampler/output/sampling.test-2.tsv test-data/sampler/output/sampling.test-3.csv test-data/sampler/output/sampling.test-3.tsv test-data/sampler/output/sampling.test-4.csv test-data/sampler/output/sampling.test-4.tsv
diffstat 9 files changed, 24 insertions(+), 24 deletions(-) [+]
line wrap: on
line diff
--- a/sampler.xml	Thu Jan 02 05:56:17 2025 +0000
+++ b/sampler.xml	Thu Feb 20 12:34:52 2025 +0000
@@ -2,7 +2,7 @@
     <description>Generate Latin Hypercube Samples for given components.</description>
     <macros>
         <import>macros.xml</import>
-        <token name="@TOOL_VERSION@">2.7.1</token>
+        <token name="@TOOL_VERSION@">2.9.0</token>
     </macros>
     <requirements>
         <requirement type="package" version="@TOOL_VERSION@">icfree</requirement>
@@ -74,7 +74,7 @@
         </section>
     </inputs>
     <outputs>
-        <data name="output_sampling" format="tabular" label="${tool.name}" />
+        <data name="output_sampling" format="csv" label="${tool.name}" />
     </outputs>
     <tests>
         <!-- test 1: check if identical outputs are produced with default parameters  -->
@@ -83,7 +83,7 @@
             <param name="num_samples" value="3" />
             <param name="seed_param" value="not_random" />
             <param name="seed" value="0" />
-            <output name="output_sampling" file="sampler/output/sampling.test-1.tsv" ftype="tabular" compare="diff" />
+            <output name="output_sampling" file="sampler/output/sampling.test-1.csv" ftype="csv" compare="diff" />
         </test>
         <!-- test 2: with specific step  -->
         <test>
@@ -93,7 +93,7 @@
             <param name="by_step" value="3.1" />
             <param name="seed_param" value="not_random" />
             <param name="seed" value="0" />
-            <output name="output_sampling" file="sampler/output/sampling.test-2.tsv" ftype="tabular" compare="diff" />
+            <output name="output_sampling" file="sampler/output/sampling.test-2.csv" ftype="csv" compare="diff" />
         </test>
         <!-- test 3: with fixed values  -->
         <test>
@@ -109,7 +109,7 @@
                 <param name="component_name" value="RNA 1ug/uL" />
                 <param name="component_value" value="20" />
             </repeat>
-            <output name="output_sampling" file="sampler/output/sampling.test-3.tsv" ftype="tabular" compare="diff" />
+            <output name="output_sampling" file="sampler/output/sampling.test-3.csv" ftype="csv" compare="diff" />
         </test>
         <!-- test 4: with ratios  -->
         <test>
@@ -119,7 +119,7 @@
             <param name="seed" value="0" />
             <param name="range_param" value="ratios" />
             <param name="by_ratios" value="0.5,0.1,0.3,0.2" />
-            <output name="output_sampling" file="sampler/output/sampling.test-4.tsv" ftype="tabular" compare="diff" />
+            <output name="output_sampling" file="sampler/output/sampling.test-4.csv" ftype="csv" compare="diff" />
         </test>
     </tests>
     <help><![CDATA[
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/sampler/output/sampling.test-1.csv	Thu Feb 20 12:34:52 2025 +0000
@@ -0,0 +1,4 @@
+Hela lysate,Access prot 50%,Reaction mix,RNA 1ug/uL
+492.5,25.0,310.0,152.5
+970.0,165.0,257.5,112.5
+537.5,325.0,192.5,185.0
--- a/test-data/sampler/output/sampling.test-1.tsv	Thu Jan 02 05:56:17 2025 +0000
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,4 +0,0 @@
-Hela lysate,Access prot 50%,Reaction mix,RNA 1ug/uL
-492.5,25.0,310.0,152.5
-970.0,165.0,257.5,112.5
-537.5,325.0,192.5,185.0
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/sampler/output/sampling.test-2.csv	Thu Feb 20 12:34:52 2025 +0000
@@ -0,0 +1,5 @@
+Hela lysate,Access prot 50%,Reaction mix,RNA 1ug/uL
+610.7,403.0,378.2,52.7
+666.5,384.40000000000003,282.1,111.60000000000001
+62.0,319.3,170.5,52.7
+409.2,238.70000000000002,399.90000000000003,37.2
--- a/test-data/sampler/output/sampling.test-2.tsv	Thu Jan 02 05:56:17 2025 +0000
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,5 +0,0 @@
-Hela lysate,Access prot 50%,Reaction mix,RNA 1ug/uL
-610.7,403.0,378.2,52.7
-666.5,384.40000000000003,282.1,111.60000000000001
-62.0,319.3,170.5,52.7
-409.2,238.70000000000002,399.90000000000003,37.2
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/sampler/output/sampling.test-3.csv	Thu Feb 20 12:34:52 2025 +0000
@@ -0,0 +1,4 @@
+Hela lysate,Access prot 50%,Reaction mix,RNA 1ug/uL
+10.0,165.0,257.5,20.0
+10.0,325.0,192.5,20.0
+10.0,310.0,305.0,20.0
--- a/test-data/sampler/output/sampling.test-3.tsv	Thu Jan 02 05:56:17 2025 +0000
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,4 +0,0 @@
-Hela lysate,Access prot 50%,Reaction mix,RNA 1ug/uL
-10.0,165.0,257.5,20.0
-10.0,325.0,192.5,20.0
-10.0,310.0,305.0,20.0
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/sampler/output/sampling.test-4.csv	Thu Feb 20 12:34:52 2025 +0000
@@ -0,0 +1,5 @@
+Hela lysate,Access prot 50%,Reaction mix,RNA 1ug/uL
+200.0,80.0,120.0,20.0
+200.0,80.0,40.0,100.0
+500.0,120.0,40.0,60.0
+300.0,80.0,120.0,20.0
--- a/test-data/sampler/output/sampling.test-4.tsv	Thu Jan 02 05:56:17 2025 +0000
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,5 +0,0 @@
-Hela lysate,Access prot 50%,Reaction mix,RNA 1ug/uL
-200.0,80.0,120.0,20.0
-200.0,80.0,40.0,100.0
-500.0,120.0,40.0,60.0
-300.0,80.0,120.0,20.0