Mercurial > repos > iuc > freyja_aggregate_plot
changeset 4:640c0b8cc8bf draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/freyja commit cb599a5ca4a1612c5fc8050d6042d52c729a7c06
| author | iuc |
|---|---|
| date | Wed, 19 Feb 2025 11:09:01 +0000 |
| parents | 54acd5139cab |
| children | |
| files | macros.xml |
| diffstat | 1 files changed, 11 insertions(+), 6 deletions(-) [+] |
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--- a/macros.xml Fri Nov 15 16:44:42 2024 +0000 +++ b/macros.xml Wed Feb 19 11:09:01 2025 +0000 @@ -1,7 +1,7 @@ <?xml version="1.0"?> <macros> <token name="@TOOL_VERSION@">1.5.2</token> - <token name="@VERSION_SUFFIX@">0</token> + <token name="@VERSION_SUFFIX@">1</token> <token name="@PROFILE@">21.01</token> <xml name="biotools"> <xrefs> @@ -22,6 +22,16 @@ freyja update && #end if ]]></token> + <token name="@CUSTOM_BARCODES_LINKING@"><![CDATA[ +#if $usher_update_option.choice == 'custom' + ln -s '${usher_update_option.usher_barcodes}' usher_barcodes.csv && +#end if + ]]></token> + <token name="@CUSTOM_BARCODES_COMMAND@"><![CDATA[ +#if $usher_update_option.choice == 'custom' + --barcodes usher_barcodes.csv +#end if +]]></token> <token name="@PREPROCESS_VCF_INPUT@"><![CDATA[ ln -s '$variants_file' 'variants_file.vcf' && ]]></token> @@ -41,11 +51,6 @@ $confirmedonly --pathogen '$pathogen' ]]></token> - <token name="@CUSTOM_BARCODES_COMMAND@"><![CDATA[ -#if $usher_update_option.choice == 'custom' - --barcodes '${usher_update_option.usher_barcodes}' -#end if -]]></token> <token name="@DASH_COMMAND@"><![CDATA[ echo '${plot_format.plot_title}' > plot_title.txt && echo '${plot_format.plot_intro}' > plot_intro.txt &&