Mercurial > repos > iuc > stacks2_refmap
diff macros.xml @ 1:319b10947ec1 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit c300b84615660459bb0020fa74ccd3b874d329a4"
author | iuc |
---|---|
date | Mon, 30 Sep 2019 14:15:21 -0400 |
parents | 45385ba40a75 |
children | 6dafad990086 |
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--- a/macros.xml Mon Jul 01 11:03:22 2019 -0400 +++ b/macros.xml Mon Sep 30 14:15:21 2019 -0400 @@ -8,7 +8,7 @@ </xml> <token name="@STACKS_VERSION@">2.4</token> - <token name="@WRAPPER_VERSION@">0</token> + <token name="@WRAPPER_VERSION@">1</token> <!-- fix to 18.01 since https://github.com/galaxyproject/galaxy/pull/7032 --> <token name="@PROFILE@">18.01</token> @@ -216,8 +216,8 @@ </expand> </xml> - <!-- fastq input (used in denovomap, tsv2bam, ustacks) - - fastq_optional: makes fastq input optional (true/false) + <!-- fastq input (used in denovomap, tsv2bam, ustacks) + - fastq_optional: makes fastq input optional (true/false) - se_option: wording for "single end" option (for tsv2bam this is the reverse reads for the others its the forward reads) - help: help text --> @@ -568,10 +568,10 @@ </expand> </xml> - <!-- variant calling option for use in gstacks and denovomap + <!-- variant calling option for use in gstacks and denovomap default for var_alpha is 0.01 if model == marukilow (which is the case in denovomap and refmap) otherwise no default is is available and gstacks will output and error - "Error: No value was provided for \-\-var-alpha and there is no default for this model)" + "Error: No value was provided for \-\-var-alpha and there is no default for this model)" --> <xml name="variant_calling_options_vg" token_varalpha_default=""> <param argument="--var-alpha" name="var_alpha" type="float" value="@VARALPHA_DEFAULT@" min="0" label="Alpha threshold for discovering SNPs" help="Default is 0.01 if the marukilow model is used (which is the case in refmap and denovomap), otherwise no default value is available." />