Mercurial > repos > iuc > qiime_validate_mapping_file
view macros.xml @ 6:1fe225d38243 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/qiime/ commit a4b0969b33a68a0ea9ba12291f6694aec24f13ed
author | iuc |
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date | Tue, 30 Oct 2018 19:47:53 -0400 |
parents | 6b784a33f3b3 |
children | d1701fcfd7e5 |
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<?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="assign_taxonomy_reference_source"> <conditional name="references"> <param name="source_selector" type="select" label="Select a reference sequence file from"> <option value="cached">The local cache</option> <option value="history">The active history</option> </param> <when value="cached"> <param argument="--reference_seqs_fp" type="select" label="Reference sequences either used to generate a blast database (Blast) or used as training sequences for the selected classifier (RDP, Mothur)"> <options from_data_table="qiime_rep_set"/> </param> </when> <when value="history"> <param argument="--reference_seqs_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>