Mercurial > repos > ebi-gxa > scmap_scmap_cell

changeset 2:2b85cec412c3 draft

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"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 542b6e6848acedbbedb6fa2d4b44c8d476597cdd"
author ebi-gxa
date Fri, 03 Apr 2020 06:36:32 -0400
parents c2ca3bc40523
children f8921da94342
files scmap_macros.xml scmap_scmap_cell.xml
diffstat 2 files changed, 7 insertions(+), 8 deletions(-) [+]
line wrap: on
line diff
--- a/scmap_macros.xml	Fri Oct 25 08:45:31 2019 -0400
+++ b/scmap_macros.xml	Fri Apr 03 06:36:32 2020 -0400
@@ -1,11 +1,10 @@
 <macros>
     <token name="@TOOL_VERSION@">1.6.0</token>
     <token name="@HELP@">More information can be found at https://bioconductor.org/packages/release/bioc/html/scmap.html</token>
+    <token name="@PROFILE@">18.01</token>
     <xml name="requirements">
       <requirements>
-        <requirement type="package">openblas</requirement>
-        <requirement type="package">bioconductor-delayedarray</requirement>
-        <requirement type="package" version="0.0.4">scmap-cli</requirement>
+        <requirement type="package" version="0.0.5">scmap-cli</requirement>
             <yield/>
       </requirements>
     </xml>
--- a/scmap_scmap_cell.xml	Fri Oct 25 08:45:31 2019 -0400
+++ b/scmap_scmap_cell.xml	Fri Apr 03 06:36:32 2020 -0400
@@ -1,4 +1,4 @@
-<tool id="scmap_scmap_cell" name="scmap cell projection" version="@TOOL_VERSION@+galaxy0" python_template_version="3.5">
+<tool id="scmap_scmap_cell" name="scmap cell projection" version="@TOOL_VERSION@+galaxy1" profile="@PROFILE@">
     <description>searches each cell in a query dataset for the nearest neighbours by cosine distance within a collection of reference datasets.</description>
     <macros>
         <import>scmap_macros.xml</import>
@@ -45,10 +45,10 @@
             <param name="index_single_cell_experiment" value="index_cell.rds" ftype="rdata"/>
             <param name="project_single_cell_experiment" value="test_sce.rds" ftype="rdata"/>
             <param name="cluster_projection" value="true" ftype="rdata"/>
-            <output name="output_single_cell_experiment" file="closest_cells_clusters.rds"/>
-            <output name="closest_cells_clusters_csv" file="closest_cells_clusters.csv" />
-            <output name="closest_cells_text_file" file="closest_cells.csv"/>
-            <output name="closest_cells_similarities_text_file" file="closest_cells_similarities.csv"/>
+            <output name="output_single_cell_experiment" file="closest_cells_clusters.rds" compare="sim_size"/>
+            <output name="closest_cells_clusters_csv" file="closest_cells_clusters.csv" compare="sim_size" />
+            <output name="closest_cells_text_file" file="closest_cells.csv" compare="sim_size"/>
+            <output name="closest_cells_similarities_text_file" file="closest_cells_similarities.csv" compare="sim_size"/>
         </test>
     </tests>
     <help><![CDATA[