Mercurial > repos > fgiacomoni > hmdb_ms_search

comparison wsdl_hmdb.xml @ 2:a3744fb3605c draft

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planemo upload commit e3e676478019ab709f0043c09b02ba93e042957f
author fgiacomoni
date Fri, 25 Nov 2016 05:05:54 -0500
parents 6d0a0f8f672a
children 505956db90c5
comparison
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1:6d0a0f8f672a 2:a3744fb3605c
76 <filter>input_type['choice'] == "YES"</filter> 76 <filter>input_type['choice'] == "YES"</filter>
77 </data> 77 </data>
78 <data name="HmdbOutWeb" format="html" label="${input_type.masses.name[:-6]}.HMDB_WEB.html"> 78 <data name="HmdbOutWeb" format="html" label="${input_type.masses.name[:-6]}.HMDB_WEB.html">
79 <filter>input_type['choice'] == "YES"</filter> 79 <filter>input_type['choice'] == "YES"</filter>
80 </data> 80 </data>
81 <data name="HmdbOutXlsx" label="${input_type.masses.name[:-6]}.HMDB.xlsx" format="tabular"> 81 <data name="HmdbOutXlsx" label="${input_type.masses.name[:-6]}.HMDB_XLS.txt" format="tabular">
82 <filter>input_type['choice'] == "YES"</filter> 82 <filter>input_type['choice'] == "YES"</filter>
83 </data> 83 </data>
84 <data name="variableMetadata2" format="tabular" label="HMDB.tabular"> 84 <data name="variableMetadata2" format="tabular" label="HMDB.tabular">
85 <filter>input_type['choice'] == "NO"</filter> 85 <filter>input_type['choice'] == "NO"</filter>
86 </data> 86 </data>
87 <data name="HmdbOutWeb2" format="html" label="HMDB_WEB.html"> 87 <data name="HmdbOutWeb2" format="html" label="HMDB_WEB.html">
88 <filter>input_type['choice'] == "NO"</filter> 88 <filter>input_type['choice'] == "NO"</filter>
89 </data> 89 </data>
90 <data name="HmdbOutXlsx2" label="HMDB.xlsx" format="tabular"> 90 <data name="HmdbOutXlsx2" label="HMDB_XLS.txt" format="tabular">
91 <filter>input_type['choice'] == "NO"</filter> 91 <filter>input_type['choice'] == "NO"</filter>
92 </data> 92 </data>
93 </outputs> 93 </outputs>
94 94
95 <tests> 95 <tests>
103 <param name="delta" value="0.001"/> 103 <param name="delta" value="0.001"/>
104 <param name="mode" value="neutral"/> 104 <param name="mode" value="neutral"/>
105 <param name="maxquery" value="5"/> 105 <param name="maxquery" value="5"/>
106 <output name="variableMetadata" file="out_test01.tabular"/> 106 <output name="variableMetadata" file="out_test01.tabular"/>
107 <output name="HmdbOutWeb" file="out_test01.html"/> 107 <output name="HmdbOutWeb" file="out_test01.html"/>
108 <output name="HmdbOutXlsx" file="out_test01.xlsx"/> 108 <output name="HmdbOutXlsx" file="out_test01.txt"/>
109 </test> 109 </test>
110 <test> 110 <test>
111 <!--test 02 : some results - with-mzrt-input-with-id file--> 111 <!--test 02 : some results - with-mzrt-input-with-id file-->
112 <param name="choice" value="YES"/> 112 <param name="choice" value="YES"/>
113 <param name="masses" value="input_test02_mzrt-input-with-id.tabular"/> 113 <param name="masses" value="input_test02_mzrt-input-with-id.tabular"/>
117 <param name="delta" value="0.001"/> 117 <param name="delta" value="0.001"/>
118 <param name="mode" value="positive"/> 118 <param name="mode" value="positive"/>
119 <param name="maxquery" value="5"/> 119 <param name="maxquery" value="5"/>
120 <output name="variableMetadata" file="out_test02.tabular"/> 120 <output name="variableMetadata" file="out_test02.tabular"/>
121 <output name="HmdbOutWeb" file="out_test02.html"/> 121 <output name="HmdbOutWeb" file="out_test02.html"/>
122 <output name="HmdbOutXlsx" file="out_test02.xlsx"/> 122 <output name="HmdbOutXlsx" file="out_test02.txt"/>
123 </test> 123 </test>
124 <test> 124 <test>
125 <!--test 03 : some results - with-mz list in manual mass mode--> 125 <!--test 03 : some results - with-mz list in manual mass mode-->
126 <param name="choice" value="NO"/> 126 <param name="choice" value="NO"/>
127 <param name="mass" value="175.01 238.19 420.16 780.32 956.25 1100.45"/> 127 <param name="mass" value="175.01 238.19 420.16 780.32 956.25 1100.45"/>
128 <param name="delta" value="0.05"/> 128 <param name="delta" value="0.05"/>
129 <param name="mode" value="positive"/> 129 <param name="mode" value="positive"/>
130 <param name="maxquery" value="5"/> 130 <param name="maxquery" value="5"/>
131 <output name="variableMetadata2" file="out_test03.tabular"/> 131 <output name="variableMetadata2" file="out_test03.tabular"/>
132 <output name="HmdbOutWeb2" file="out_test03.html"/> 132 <output name="HmdbOutWeb2" file="out_test03.html"/>
133 <output name="HmdbOutXlsx2" file="out_test03.xlsx"/> 133 <output name="HmdbOutXlsx2" file="out_test03.txt"/>
134 </test> 134 </test>
135 </tests> 135 </tests>
136 136
137 <help><![CDATA[ 137 <help><![CDATA[
138 138
249 Two types of files 249 Two types of files
250 | HMDB_WEB.HTML: for viewing result via HTML. 250 | HMDB_WEB.HTML: for viewing result via HTML.
251 | 251 |
252 | HMDB_TABULAR.tabular: for linking with others modules. 252 | HMDB_TABULAR.tabular: for linking with others modules.
253 | 253 |
254 | HMDB_XLSX.xlsx: an excel-like output permitting manual annotation cleaning. 254 | HMDB_XLS.txt: an excel-like output permitting manual annotation cleaning.
255 | 255 |
256 256
257 --------------------------------------------------- 257 ---------------------------------------------------
258 258
259 259