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comparison macros.xml @ 0:f4e449660000 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/obitools commit e1031e4c94b25d1ed535bf221764ab801b710ab2
author iuc
date Wed, 12 Apr 2017 17:39:09 -0400
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children 1405e4efffed
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-1:000000000000 0:f4e449660000
1 <?xml version="1.0"?>
2 <macros>
3 <xml name="requirements">
4 <requirements>
5 <requirement type="package" version="1.0.010">obitools</requirement>
6 </requirements>
7 </xml>
8
9 <token name="@WRAPPER_VERSION@">1.0.010</token>
10
11 <xml name="stdio">
12 <stdio>
13 <exit_code range="1:" level="fatal" description="Error in Obitools execution" />
14 </stdio>
15 </xml>
16
17 <token name="@OBITOOLS_LINK@">
18 <![CDATA[
19 --------
20
21 **Project links:**
22
23 `OBITools`_
24
25 .. _OBITools: http://metabarcoding.org/obitools/
26 ]]>
27 </token>
28
29 <xml name="attributes">
30 <option value="ali_dir" selected="true">ali_dir</option>
31 <option value="ali_length">ali_length</option>
32 <option value="avg_quality">avg_quality</option>
33 <option value="best_match">best_match</option>
34 <option value="best_identity">best_identity</option>
35 <option value="class">class</option>
36 <option value="cluster">cluster</option>
37 <option value="complemented">complemented</option>
38 <option value="count">count</option>
39 <option value="cut">cut</option>
40 <option value="direction">direction</option>
41 <option value="distance">distance</option>
42 <option value="error">error</option>
43 <option value="experiment">experiment</option>
44 <option value="family">family</option>
45 <option value="family_name">family_name</option>
46 <option value="forward_error">forward_error</option>
47 <option value="forward_match">forward_match</option>
48 <option value="forward_primer">forward_primer</option>
49 <option value="forward_score">forward_score</option>
50 <option value="forward_tag">forward_tag</option>
51 <option value="forward_tm">forward_tm</option>
52 <option value="genus">genus</option>
53 <option value="genus_name">genus_name</option>
54 <option value="head_quality">head_quality</option>
55 <option value="id_status">id_status</option>
56 <option value="merged_star">merged_star</option>
57 <option value="merged">merged</option>
58 <option value="mid_quality">mid_quality</option>
59 <option value="mode">mode</option>
60 <option value="obiclean_cluster">obiclean_cluster</option>
61 <option value="obiclean_count">obiclean_count</option>
62 <option value="obiclean_head">obiclean_head</option>
63 <option value="obiclean_headcount">obiclean_headcount</option>
64 <option value="obiclean_internalcount">obiclean_internalcount</option>
65 <option value="obiclean_samplecount">obiclean_samplecount</option>
66 <option value="obiclean_singletoncount">obiclean_singletoncount</option>
67 <option value="obiclean_status">obiclean_status</option>
68 <option value="occurrence">occurrence</option>
69 <option value="order">order</option>
70 <option value="order_name">order_name</option>
71 <option value="pairend_limit ">pairend_limit </option>
72 <option value="partial ">partial </option>
73 <option value="rank">rank</option>
74 <option value="reverse_error">reverse_error</option>
75 <option value="reverse_match">reverse_match</option>
76 <option value="reverse_primer">reverse_primer</option>
77 <option value="reverse_score">reverse_score</option>
78 <option value="reverse_tag">reverse_tag</option>
79 <option value="reverse_tm">reverse_tm</option>
80 <option value="sample">sample</option>
81 <option value="scientific_name">scientific_name</option>
82 <option value="score">score</option>
83 <option value="score_norm">score_norm</option>
84 <option value="select">select</option>
85 <option value="seq_ab_match">seq_ab_match</option>
86 <option value="seq_a_single">seq_a_single</option>
87 <option value="seq_a_mismatch">seq_a_mismatch</option>
88 <option value="seq_a_deletion">seq_a_deletion</option>
89 <option value="seq_a_insertion">seq_a_insertion</option>
90 <option value="seq_b_single">seq_b_single</option>
91 <option value="seq_b_mismatch">seq_b_mismatch</option>
92 <option value="seq_b_deletion">seq_b_deletion</option>
93 <option value="seq_b_insertion">seq_b_insertion</option>
94 <option value="seq_length">seq_length</option>
95 <option value="seq_length_ori">seq_length_ori</option>
96 <option value="seq_rank">seq_rank</option>
97 <option value="sminL">sminL</option>
98 <option value="sminR">sminR</option>
99 <option value="species">species</option>
100 <option value="species_list">species_list</option>
101 <option value="species_name">species_name</option>
102 <option value="status">status</option>
103 <option value="strand">strand</option>
104 <option value="tail_quality">tail_quality</option>
105 <option value="taxid">taxid</option>
106 </xml>
107
108 <xml name="inputtype">
109 <option value="--genbank">genbank</option>
110 <option value="--embl">embl</option>
111 <option value="--sanger">sanger</option>
112 <option value="--solexa">solexa</option>
113 <option value="--ecopcr">ecopcr</option>
114 <option value="--ecopcrdb">ecopcrdb</option>
115 <option value="--fasta" selected="true">fasta</option>
116 </xml>
117
118 <xml name="sanitizer">
119 <sanitizer invalid_char="test">
120 <valid initial="default">
121 <!--add value="&quot;"/-->
122 </valid>
123 <mapping initial="default">
124 <add source="&gt;" target="\&gt;"/>
125 <add source="&quot;" target="\&quot;"/>
126 </mapping>
127 </sanitizer>
128 </xml>
129
130 <xml name="citation">
131 <citations>
132 <citation type="doi">10.1111/1755-0998.12428</citation>
133 </citations>
134 </xml>
135
136 </macros>