Mercurial > repos > galaxyp > cardinal_quality_report
comparison test-data/out4.imzml @ 2:d4803c1e5e19 draft
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/cardinal commit f127be2141cf22e269c85282d226eb16fe14a9c1
author | galaxyp |
---|---|
date | Fri, 15 Feb 2019 10:21:09 -0500 |
parents | |
children | 74b61bf5bc4b |
comparison
equal
deleted
inserted
replaced
1:ae9ffc7ba261 | 2:d4803c1e5e19 |
---|---|
1 <?xml version="1.0"?> | |
2 <mzML version="1.1" xmlns="http://psi.hupo.org/ms/mzml" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://psi.hupo.org/ms/mzml http://psidev.info/files/ms/mzML/xsd/mzML1.1.0_idx.xsd"> | |
3 <cvList count="3"> | |
4 <cv id="MS" fullName="Proteomics Standards Initiative Mass Spectrometry Ontology" version="1.3.1" URI="http://psidev.info/ms/mzML/psi-ms.obo" /> | |
5 <cv id="UO" fullName="Unit Ontology" version="1.15" URI="http://obo.cvs.sourceforge.net/obo/obo/ontology/phenotype/unit.obo" /> | |
6 <cv id="IMS" fullName="Imaging MS Ontology" version="0.9.1" URI="http://www.maldi-msi.org/download/imzml/imagingMS.obo" /> | |
7 </cvList> | |
8 <fileDescription> | |
9 <fileContent> | |
10 <cvParam cvRef="MS" accession="MS:1000579" name="MS1 spectrum" value="" /> | |
11 <cvParam cvRef="MS" accession="MS:1000128" name="profile spectrum" value="" /> | |
12 <cvParam cvRef="IMS" accession="IMS:1000080" name="universally unique identifier" value="{2567A8C4-D2AF-4C81-874C-82E9134A080C}" /> | |
13 <cvParam cvRef="IMS" accession="IMS:1000091" name="ibd SHA-1" value="EA722C9CF5A229ACF6AEAD177908D73A1C8CB44E" /> | |
14 <cvParam cvRef="IMS" accession="IMS:1000030" name="continuous" value="" /> | |
15 </fileContent> | |
16 </fileDescription> | |
17 <referenceableParamGroupList count="4"> | |
18 <referenceableParamGroup id="spectrum1"> | |
19 <cvParam cvRef="MS" accession="MS:1000579" name="MS1 spectrum" value="" /> | |
20 <cvParam cvRef="MS" accession="MS:1000511" name="ms level" value="0" /> | |
21 <cvParam cvRef="MS" accession="MS:1000128" name="profile spectrum" value="" /> | |
22 </referenceableParamGroup> | |
23 <referenceableParamGroup id="scan1"> | |
24 <cvParam cvRef="MS" accession="MS:1000093" name="increasing m/z scan" value="" /> | |
25 <cvParam cvRef="MS" accession="MS:1000095" name="linear" value="" /> | |
26 </referenceableParamGroup> | |
27 <referenceableParamGroup id="mzArray"> | |
28 <cvParam cvRef="MS" accession="MS:1000576" name="no compression" value="" /> | |
29 <cvParam cvRef="MS" accession="MS:1000514" name="m/z array" value="" unitCvRef="MS" unitAccession="MS:1000040" unitName="m/z" /> | |
30 <cvParam cvRef="IMS" accession="IMS:1000101" name="external data" value="true" /> | |
31 <cvParam cvRef="MS" accession="MS:1000521" name="32-bit float" value="32-bit float" /> | |
32 </referenceableParamGroup> | |
33 <referenceableParamGroup id="intensityArray"> | |
34 <cvParam cvRef="MS" accession="MS:1000576" name="no compression" value="" /> | |
35 <cvParam cvRef="MS" accession="MS:1000515" name="intensity array" value="" unitCvRef="MS" unitAccession="MS:1000131" unitName="number of counts" /> | |
36 <cvParam cvRef="IMS" accession="IMS:1000101" name="external data" value="true" /> | |
37 <cvParam cvRef="MS" accession="MS:1000521" name="32-bit float" value="32-bit float" /> | |
38 </referenceableParamGroup> | |
39 </referenceableParamGroupList> | |
40 <sampleList count="1"> | |
41 <sample id="sample1" name="Sample1"> | |
42 <cvParam cvRef="MS" accession="MS:1000001" name="sample number" value="1" /> | |
43 </sample> | |
44 </sampleList> | |
45 <softwareList count="1"> | |
46 <software id="Cardinal" version="1.12.1"> | |
47 <cvParam cvRef="MS" accession="MS:1000799" name="custom unreleased software tool" value="" /> | |
48 </software> | |
49 </softwareList> | |
50 <scanSettingsList count="1"> | |
51 <scanSettings id="scansettings1"> | |
52 <cvParam cvRef="IMS" accession="IMS:1000042" name="max count of pixel x" value="3" /> | |
53 <cvParam cvRef="IMS" accession="IMS:1000043" name="max count of pixel y" value="3" /> | |
54 </scanSettings> | |
55 </scanSettingsList> | |
56 <instrumentConfigurationList count="1"> | |
57 <instrumentConfiguration id="IC1" /> | |
58 </instrumentConfigurationList> | |
59 <dataProcessingList count="1"> | |
60 <dataProcessing id="CardinalWriteImzML"> | |
61 <processingMethod order="1" softwareRef="Cardinal"> | |
62 <cvParam cvRef="MS" accession="MS:1000544" name="Conversion to mzML" value="" /> | |
63 </processingMethod> | |
64 </dataProcessing> | |
65 </dataProcessingList> | |
66 <run defaultInstrumentConfigurationRef="IC1" id="Experiment01" sampleRef="sample1"> | |
67 <spectrumList count="5" defaultDataProcessingRef="CardinalWriteImzML"> | |
68 <spectrum id="Spectrum=1" defaultArrayLength="0" index="1"> | |
69 <referenceableParamGroupRef ref="spectrum1" /> | |
70 <scanList count="1"> | |
71 <cvParam cvRef="MS" accession="MS:1000795" name="no combination" value="" /> | |
72 <scan instrumentConfigurationRef="IC1"> | |
73 <referenceableParamGroupRef ref="scan1" /> | |
74 <cvParam cvRef="IMS" accession="IMS:1000050" name="position x" value="1" /> | |
75 <cvParam cvRef="IMS" accession="IMS:1000051" name="position y" value="1" /> | |
76 </scan> | |
77 </scanList> | |
78 <binaryDataArrayList count="2"> | |
79 <binaryDataArray encodedLength="0"> | |
80 <referenceableParamGroupRef ref="mzArray" /> | |
81 <cvParam cvRef="IMS" accession="IMS:1000102" name="external offset" value="16" /> | |
82 <cvParam cvRef="IMS" accession="IMS:1000103" name="external array length" value="1199" /> | |
83 <cvParam cvRef="IMS" accession="IMS:1000104" name="external encoded length" value="4796" /> | |
84 <binary /> | |
85 </binaryDataArray> | |
86 <binaryDataArray encodedLength="0"> | |
87 <referenceableParamGroupRef ref="intensityArray" /> | |
88 <cvParam cvRef="IMS" accession="IMS:1000102" name="external offset" value="4812" /> | |
89 <cvParam cvRef="IMS" accession="IMS:1000103" name="external array length" value="1199" /> | |
90 <cvParam cvRef="IMS" accession="IMS:1000104" name="external encoded length" value="4796" /> | |
91 <binary /> | |
92 </binaryDataArray> | |
93 </binaryDataArrayList> | |
94 </spectrum> | |
95 <spectrum id="Spectrum=2" defaultArrayLength="0" index="2"> | |
96 <referenceableParamGroupRef ref="spectrum1" /> | |
97 <scanList count="1"> | |
98 <cvParam cvRef="MS" accession="MS:1000795" name="no combination" value="" /> | |
99 <scan instrumentConfigurationRef="IC1"> | |
100 <referenceableParamGroupRef ref="scan1" /> | |
101 <cvParam cvRef="IMS" accession="IMS:1000050" name="position x" value="3" /> | |
102 <cvParam cvRef="IMS" accession="IMS:1000051" name="position y" value="1" /> | |
103 </scan> | |
104 </scanList> | |
105 <binaryDataArrayList count="2"> | |
106 <binaryDataArray encodedLength="0"> | |
107 <referenceableParamGroupRef ref="mzArray" /> | |
108 <cvParam cvRef="IMS" accession="IMS:1000102" name="external offset" value="16" /> | |
109 <cvParam cvRef="IMS" accession="IMS:1000103" name="external array length" value="1199" /> | |
110 <cvParam cvRef="IMS" accession="IMS:1000104" name="external encoded length" value="4796" /> | |
111 <binary /> | |
112 </binaryDataArray> | |
113 <binaryDataArray encodedLength="0"> | |
114 <referenceableParamGroupRef ref="intensityArray" /> | |
115 <cvParam cvRef="IMS" accession="IMS:1000102" name="external offset" value="9608" /> | |
116 <cvParam cvRef="IMS" accession="IMS:1000103" name="external array length" value="1199" /> | |
117 <cvParam cvRef="IMS" accession="IMS:1000104" name="external encoded length" value="4796" /> | |
118 <binary /> | |
119 </binaryDataArray> | |
120 </binaryDataArrayList> | |
121 </spectrum> | |
122 <spectrum id="Spectrum=3" defaultArrayLength="0" index="3"> | |
123 <referenceableParamGroupRef ref="spectrum1" /> | |
124 <scanList count="1"> | |
125 <cvParam cvRef="MS" accession="MS:1000795" name="no combination" value="" /> | |
126 <scan instrumentConfigurationRef="IC1"> | |
127 <referenceableParamGroupRef ref="scan1" /> | |
128 <cvParam cvRef="IMS" accession="IMS:1000050" name="position x" value="1" /> | |
129 <cvParam cvRef="IMS" accession="IMS:1000051" name="position y" value="2" /> | |
130 </scan> | |
131 </scanList> | |
132 <binaryDataArrayList count="2"> | |
133 <binaryDataArray encodedLength="0"> | |
134 <referenceableParamGroupRef ref="mzArray" /> | |
135 <cvParam cvRef="IMS" accession="IMS:1000102" name="external offset" value="16" /> | |
136 <cvParam cvRef="IMS" accession="IMS:1000103" name="external array length" value="1199" /> | |
137 <cvParam cvRef="IMS" accession="IMS:1000104" name="external encoded length" value="4796" /> | |
138 <binary /> | |
139 </binaryDataArray> | |
140 <binaryDataArray encodedLength="0"> | |
141 <referenceableParamGroupRef ref="intensityArray" /> | |
142 <cvParam cvRef="IMS" accession="IMS:1000102" name="external offset" value="14404" /> | |
143 <cvParam cvRef="IMS" accession="IMS:1000103" name="external array length" value="1199" /> | |
144 <cvParam cvRef="IMS" accession="IMS:1000104" name="external encoded length" value="4796" /> | |
145 <binary /> | |
146 </binaryDataArray> | |
147 </binaryDataArrayList> | |
148 </spectrum> | |
149 <spectrum id="Spectrum=4" defaultArrayLength="0" index="4"> | |
150 <referenceableParamGroupRef ref="spectrum1" /> | |
151 <scanList count="1"> | |
152 <cvParam cvRef="MS" accession="MS:1000795" name="no combination" value="" /> | |
153 <scan instrumentConfigurationRef="IC1"> | |
154 <referenceableParamGroupRef ref="scan1" /> | |
155 <cvParam cvRef="IMS" accession="IMS:1000050" name="position x" value="3" /> | |
156 <cvParam cvRef="IMS" accession="IMS:1000051" name="position y" value="2" /> | |
157 </scan> | |
158 </scanList> | |
159 <binaryDataArrayList count="2"> | |
160 <binaryDataArray encodedLength="0"> | |
161 <referenceableParamGroupRef ref="mzArray" /> | |
162 <cvParam cvRef="IMS" accession="IMS:1000102" name="external offset" value="16" /> | |
163 <cvParam cvRef="IMS" accession="IMS:1000103" name="external array length" value="1199" /> | |
164 <cvParam cvRef="IMS" accession="IMS:1000104" name="external encoded length" value="4796" /> | |
165 <binary /> | |
166 </binaryDataArray> | |
167 <binaryDataArray encodedLength="0"> | |
168 <referenceableParamGroupRef ref="intensityArray" /> | |
169 <cvParam cvRef="IMS" accession="IMS:1000102" name="external offset" value="19200" /> | |
170 <cvParam cvRef="IMS" accession="IMS:1000103" name="external array length" value="1199" /> | |
171 <cvParam cvRef="IMS" accession="IMS:1000104" name="external encoded length" value="4796" /> | |
172 <binary /> | |
173 </binaryDataArray> | |
174 </binaryDataArrayList> | |
175 </spectrum> | |
176 <spectrum id="Spectrum=5" defaultArrayLength="0" index="5"> | |
177 <referenceableParamGroupRef ref="spectrum1" /> | |
178 <scanList count="1"> | |
179 <cvParam cvRef="MS" accession="MS:1000795" name="no combination" value="" /> | |
180 <scan instrumentConfigurationRef="IC1"> | |
181 <referenceableParamGroupRef ref="scan1" /> | |
182 <cvParam cvRef="IMS" accession="IMS:1000050" name="position x" value="1" /> | |
183 <cvParam cvRef="IMS" accession="IMS:1000051" name="position y" value="3" /> | |
184 </scan> | |
185 </scanList> | |
186 <binaryDataArrayList count="2"> | |
187 <binaryDataArray encodedLength="0"> | |
188 <referenceableParamGroupRef ref="mzArray" /> | |
189 <cvParam cvRef="IMS" accession="IMS:1000102" name="external offset" value="16" /> | |
190 <cvParam cvRef="IMS" accession="IMS:1000103" name="external array length" value="1199" /> | |
191 <cvParam cvRef="IMS" accession="IMS:1000104" name="external encoded length" value="4796" /> | |
192 <binary /> | |
193 </binaryDataArray> | |
194 <binaryDataArray encodedLength="0"> | |
195 <referenceableParamGroupRef ref="intensityArray" /> | |
196 <cvParam cvRef="IMS" accession="IMS:1000102" name="external offset" value="23996" /> | |
197 <cvParam cvRef="IMS" accession="IMS:1000103" name="external array length" value="1199" /> | |
198 <cvParam cvRef="IMS" accession="IMS:1000104" name="external encoded length" value="4796" /> | |
199 <binary /> | |
200 </binaryDataArray> | |
201 </binaryDataArrayList> | |
202 </spectrum> | |
203 </spectrumList> | |
204 </run> | |
205 </mzML> |