Mercurial > repos > ebi-gxa > scanpy_compute_graph
diff scanpy-neighbours.xml @ 16:087a7edb0995 draft
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/scanpy commit 0fc0cc467014e750dbaa6c47b528b25af0bdc0c4-dirty"
| author | ebi-gxa |
|---|---|
| date | Wed, 07 Oct 2020 16:07:10 +0000 |
| parents | 3cf0177ed87e |
| children | 1dc0ea7a7e62 |
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--- a/scanpy-neighbours.xml Wed Sep 30 11:16:35 2020 +0000 +++ b/scanpy-neighbours.xml Wed Oct 07 16:07:10 2020 +0000 @@ -1,22 +1,22 @@ <?xml version="1.0" encoding="utf-8"?> -<tool id="scanpy_compute_graph" name="Scanpy ComputeGraph" version="@TOOL_VERSION@+galaxy3" profile="@PROFILE@"> +<tool id="scanpy_compute_graph" name="Scanpy ComputeGraph" version="@TOOL_VERSION@+galaxy4" profile="@PROFILE@"> <description>to derive kNN graph</description> <macros> <import>scanpy_macros2.xml</import> </macros> <expand macro="requirements"/> <command detect_errors="exit_code"><![CDATA[ -#if $settings.n_neighbors_file - #set f = open($settings.n_neighbors_file.__str__) - #set n_neighbors = f.read().strip() - #silent f.close -#elif $settings.n_neighbors - #set n_neighbors = $settings.n_neighbors.__str__.strip() -#end if - ln -s '${input_obj_file}' input.h5 && PYTHONIOENCODING=utf-8 scanpy-neighbors #if $settings.default == "false" + #if $settings.n_neighbors_file + #set f = open($settings.n_neighbors_file.__str__) + #set n_neighbors = f.read().strip() + #silent f.close + #elif $settings.n_neighbors + #set n_neighbors = $settings.n_neighbors.__str__.strip() + #end if + #if $n_neighbors --n-neighbors $n_neighbors #end if