Mercurial > repos > ebi-gxa > scanpy_normalise_data
diff scanpy-normalise-data.xml @ 6:9e42d8795385 draft
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/scanpy commit 400799f99ee36ad12b990b1ccabf4be16a26c003
author | ebi-gxa |
---|---|
date | Mon, 25 Nov 2019 14:36:21 -0500 |
parents | f7322b68cc90 |
children | 4a6b3778fcc4 |
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--- a/scanpy-normalise-data.xml Wed Nov 20 05:11:20 2019 -0500 +++ b/scanpy-normalise-data.xml Mon Nov 25 14:36:21 2019 -0500 @@ -1,5 +1,5 @@ <?xml version="1.0" encoding="utf-8"?> -<tool id="scanpy_normalise_data" name="Scanpy NormaliseData" version="@TOOL_VERSION@+galaxy3"> +<tool id="scanpy_normalise_data" name="Scanpy NormaliseData" version="@TOOL_VERSION@+galaxy6"> <description>to make all cells having the same total expression</description> <macros> <import>scanpy_macros2.xml</import> @@ -25,7 +25,7 @@ <param name="fraction" argument="--fraction" type="float" value="1" min="0" max="1" label="Exclude top expressed genes until the remaining account for no greater than specified fraction of total counts" help="Only non-excluded genes will sum up the target number."/> - <param name="log_transform" argument="--no-log-transform" type="boolean" truevalue="" falsevalue="--no-log-transform" checked="True" + <param name="log_transform" argument="--no-log-transform" type="boolean" truevalue="" falsevalue="--no-log-transform" checked="True" label="Apply log transform?" help="If enabled, will apply a log transformation following normalisation."/> <param name="save_raw" argument="--save-raw" type="boolean" truevalue="yes" falsevalue="no" checked="true" label="Save normalised data in `.raw`" help="The saved normalised data are log1p transformed."/> @@ -33,7 +33,7 @@ </inputs> <outputs> - <data name="output_h5" format="h5" from_work_dir="output.h5" label="${tool.name} on ${on_string}: Normalised data"/> + <expand macro="output_data_obj" description="Normalised data"/> <expand macro="export_mtx_outputs"/> </outputs>