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comparison gemini_macros.xml @ 11:53a5647e5271 draft

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Uploaded
author iuc
date Wed, 18 Feb 2015 11:36:37 -0500
parents 0f1bcedd836f
children ce61d4876838
comparison
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10:0f1bcedd836f 11:53a5647e5271
86 </conditional> 86 </conditional>
87 </xml> 87 </xml>
88 88
89 <xml name="sanitize_query"> 89 <xml name="sanitize_query">
90 <sanitizer invalid_char=""> 90 <sanitizer invalid_char="">
91 <valid initial="string.printable"> 91 <valid initial="string.printable"/>
92 </valid>
93 </sanitizer> 92 </sanitizer>
94 </xml> 93 </xml>
94
95 <token name="@CMDLN_SQL_FILTER_FILTER_OPTION@">
96 #if str($filter.filter_selector) == 'yes' and $filter.filter:
97 #import pipes
98 --filter ${ pipes.quote( str( $filter.filter ) ) or "''" }
99 #end if
100 </token>
95 101
96 <xml name="min_sequence_depth"> 102 <xml name="min_sequence_depth">
97 <param name="d" type="integer" value="0" size="5" label="The minimum aligned sequence depth (genotype DP) required for each sample" 103 <param name="d" type="integer" value="0" size="5" label="The minimum aligned sequence depth (genotype DP) required for each sample"
98 help="default: 0 (-d)"> 104 help="default: 0 (-d)">
99 <validator type="in_range" min="0"/> 105 <validator type="in_range" min="0"/>
100 </param> 106 </param>
101 </xml> 107 </xml>
102 108
103 <token name="@VERSION@">0.10.0</token> 109 <token name="@VERSION@">0.10.1</token>
104 110
105 <token name="@CITATION@">------ 111 <token name="@CITATION@">------
106 112
107 **Citation** 113 **Citation**
108 114
113 <citations> 119 <citations>
114 <citation type="doi">10.1371/journal.pcbi.1003153</citation> 120 <citation type="doi">10.1371/journal.pcbi.1003153</citation>
115 <yield /> 121 <yield />
116 </citations> 122 </citations>
117 </xml> 123 </xml>
124
125 <xml name="infile">
126 <param name="infile" type="data" format="gemini.sqlite" label="GEMINI database" help="Only files with version @VERSION@ are accepted." >
127 <options options_filter_attribute="metadata.gemini_version" >
128 <filter type="add_value" value="@VERSION@" />
129 </options>
130 <validator type="expression" message="This version of Gemini will only work with Gemini files that are for version @VERSION@.">value is not None and value.metadata.gemini_version == "@VERSION@"</validator>
131 </param>
132 </xml>
133
118 </macros> 134 </macros>