Mercurial > repos > iuc > qiime_alpha_diversity
diff macros.xml @ 0:2ceee245d97c draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/qiime/ commit c9bf747b23b4a9d6adc20c7740b9247c22654862
author | iuc |
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date | Thu, 18 May 2017 09:32:36 -0400 |
parents | |
children | fdd0a0d19b5c |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/macros.xml Thu May 18 09:32:36 2017 -0400 @@ -0,0 +1,57 @@ +<?xml version="1.0" ?> +<macros> + <token name="@WRAPPER_VERSION@">1.9.1</token> + + <xml name="requirements"> + <requirements> + <requirement type="package" version="@WRAPPER_VERSION@">qiime</requirement> + <yield/> + </requirements> + </xml> + + <xml name="citations"> + <citation type="doi">10.1038/nmeth.f.303</citation> + </xml> + + <xml name="pick_otus_reference_source"> + <conditional name="references"> + <param name="source_selector" type="select" label="Use reference sequences from"> + <option value="cached">Local cache</option> + <option value="history">History</option> + </param> + <when value="cached"> + <param argument="--refseqs_fp" label="Reference sequences" type="select"> + <options from_data_table="qiime_rep_set"/> + </param> + </when> + <when value="history"> + <param argument="--refseqs_fp" type="data" format="fasta" label="Reference sequences to search against"/> + </when> + </conditional> + </xml> + <xml name="pick_otus_similarity"> + <param argument="--similarity" type="float" value="0.97" label="Sequence similarity threshold"/> + </xml> + <xml name="pick_otus_denovo_otu_id_prefix"> + <param argument="--denovo_otu_id_prefix" type="text" value="denovo" label="OTU identifier prefix for the de novo OTU pickers"/> + </xml> + <xml name="pick_otus_enable_rev_strand_match"> + <param argument="--enable_rev_strand_match" type="boolean" truevalue="--enable_rev_strand_match" falsevalue="" checked="false" label="Enable reverse strand matching?" help="Will double the amount of memory used"/> + </xml> + <xml name="pick_otus_suppress_presort_by_abundance_uclust"> + <param argument="--suppress_presort_by_abundance_uclust" type="boolean" truevalue="--suppress_presort_by_abundance_uclust" falsevalue="" checked="false" label="Suppress presorting of sequences by abundance?"/> + </xml> + <xml name="pick_otus_max"> + <param argument="--max_accepts" type="integer" value="1" label="Max_accepts value"/> + <param argument="--max_rejects" type="integer" value="8" label="Max_rejects value"/> + </xml> + <xml name="pick_otus_stepwords"> + <param argument="--stepwords" type="integer" value="8" label="Stepwords value"/> + </xml> + <xml name="pick_otus_word_length"> + <param argument="--word_length" type="integer" value="8" label="Word length value"/> + </xml> + <xml name="pick_otus_suppress_prefilter_exact_match"> + <param argument="--suppress_prefilter_exact_match" type="boolean" truevalue="--suppress_prefilter_exact_match" falsevalue="" checked="false" label="Don't collapse exact matches before calling?"/> + </xml> +</macros>