| Previous changeset 0:be0e7952e229 (2022-08-29) Next changeset 2:4a058bd23a12 (2024-04-29) |
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Commit message:
planemo upload for repository https://github.com/goeckslab/tools-mti/tree/main/tools/squidpy commit 130ef7e8ae6cab35866b72617e53d35acc11475a |
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modified:
main_macros.xml squidpy_spatial.xml |
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| diff -r be0e7952e229 -r bad34051dc8a main_macros.xml --- a/main_macros.xml Mon Aug 29 23:20:54 2022 +0000 +++ b/main_macros.xml Wed Feb 28 20:52:29 2024 +0000 |
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| @@ -1,7 +1,7 @@ <macros> <token name="@TOOL_VERSION@">1.1.2</token> <token name="@PROFILE@">20.01</token> - <token name="@VERSION_SUFFIX@">0</token> + <token name="@VERSION_SUFFIX@">2</token> <xml name="macro_stdio"> <stdio> |
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| diff -r be0e7952e229 -r bad34051dc8a squidpy_spatial.xml --- a/squidpy_spatial.xml Mon Aug 29 23:20:54 2022 +0000 +++ b/squidpy_spatial.xml Wed Feb 28 20:52:29 2024 +0000 |
| [ |
| @@ -1,12 +1,15 @@ -<tool id="squidpy_spatial" name="Squidpy Graph and Plotting" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@"> - <description>for spatial analysis </description> +<tool id="squidpy_spatial" name="Analyze and visualize spatial multi-omics data" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@"> + <description>with Squidpy</description> <macros> <import>main_macros.xml</import> </macros> + <edam_operations> + <edam_operation>operation_3443</edam_operation> + </edam_operations> <expand macro="squidpy_requirements"/> <expand macro="macro_stdio" /> <version_command>echo "@TOOL_VERSION@"</version_command> - <command> + <command detect_errors="aggressive"> <![CDATA[ python '$__tool_directory__/squidpy_spatial.py' --inputs '$inputs' @@ -257,7 +260,7 @@ </data> </outputs> <tests> - <test> + <test expect_num_outputs="1"> <param name="anndata" value="imc.h5ad" ftype="h5ad" /> <param name="selected_tool" value="spatial_neighbors" /> <output name="output"> @@ -266,7 +269,7 @@ </assert_contents> </output> </test> - <test> + <test expect_num_outputs="2"> <param name="anndata" value="imc_sn.h5ad" ftype="h5ad" /> <param name="selected_tool" value="nhood_enrichment" /> <param name="cluster_key" value="cell type" /> @@ -277,7 +280,7 @@ </output> <output name="output_plot" file="imc_nhood_enrichment.png" compare="sim_size" delta="2000" /> </test> - <test> + <test expect_num_outputs="2"> <param name="anndata" value="imc_sn.h5ad" ftype="h5ad" /> <param name="selected_tool" value="co_occurrence" /> <param name="cluster_key" value="cell type" /> @@ -288,7 +291,7 @@ </output> <output name="output_plot" file="imc_co_occurrence.png" compare="sim_size" delta="2000" /> </test> - <test> + <test expect_num_outputs="2"> <param name="anndata" value="imc_sn.h5ad" ftype="h5ad" /> <param name="selected_tool" value="centrality_scores" /> <param name="cluster_key" value="cell type" /> @@ -299,7 +302,7 @@ </output> <output name="output_plot" file="imc_centrality_scores.png" compare="sim_size" delta="2000" /> </test> - <test> + <test expect_num_outputs="2"> <param name="anndata" value="imc_sn.h5ad" ftype="h5ad" /> <param name="selected_tool" value="interaction_matrix" /> <param name="cluster_key" value="cell type" /> @@ -310,7 +313,7 @@ </output> <output name="output_plot" file="imc_interaction_matrix.png" compare="sim_size" delta="2000" /> </test> - <test> + <test expect_num_outputs="2"> <param name="anndata" value="imc_sn.h5ad" ftype="h5ad" /> <param name="selected_tool" value="ripley" /> <param name="cluster_key" value="cell type" /> @@ -341,6 +344,5 @@ ]]> </help> - <citations> - </citations> + <expand macro="citations" /> </tool> |