Mercurial > repos > galaxyp > cardinal_single_ion_segmentation
comparison test-data/out4.imzml @ 0:4cb6c83d3777 draft
"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/cardinal commit badc51fcd74ba0c14cd1ae64d5f524291fa11441"
author | galaxyp |
---|---|
date | Tue, 22 Feb 2022 20:51:09 +0000 |
parents | |
children |
comparison
equal
deleted
inserted
replaced
-1:000000000000 | 0:4cb6c83d3777 |
---|---|
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="37f3f75a-82c4-47c5-b78e-28fb8697e59b" /> | |
13 <cvParam cvRef="IMS" accession="IMS:1000091" name="ibd SHA-1" value="1746fd2ec8a12707330a78ff5a0ff98cb53dca42" /> | |
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 </referenceableParamGroup> | |
26 <referenceableParamGroup id="mzArray"> | |
27 <cvParam cvRef="MS" accession="MS:1000576" name="no compression" value="" /> | |
28 <cvParam cvRef="MS" accession="MS:1000514" name="m/z array" value="" unitCvRef="MS" unitAccession="MS:1000040" unitName="m/z" /> | |
29 <cvParam cvRef="IMS" accession="IMS:1000101" name="external data" value="true" /> | |
30 <cvParam cvRef="MS" accession="MS:1000521" name="32-bit float" value="" /> | |
31 </referenceableParamGroup> | |
32 <referenceableParamGroup id="intensityArray"> | |
33 <cvParam cvRef="MS" accession="MS:1000576" name="no compression" value="" /> | |
34 <cvParam cvRef="MS" accession="MS:1000515" name="intensity array" value="" unitCvRef="MS" unitAccession="MS:1000131" unitName="number of counts" /> | |
35 <cvParam cvRef="IMS" accession="IMS:1000101" name="external data" value="true" /> | |
36 <cvParam cvRef="MS" accession="MS:1000521" name="32-bit float" value="" /> | |
37 </referenceableParamGroup> | |
38 </referenceableParamGroupList> | |
39 <sampleList count="1"> | |
40 <sample id="sample1" name="Sample1"> | |
41 <cvParam cvRef="MS" accession="MS:1000001" name="sample number" value="1" /> | |
42 </sample> | |
43 </sampleList> | |
44 <softwareList count="1"> | |
45 <software id="Cardinal" version="2.6.0"> | |
46 <cvParam cvRef="MS" accession="MS:1000799" name="custom unreleased software tool" value="" /> | |
47 </software> | |
48 </softwareList> | |
49 <scanSettingsList count="1"> | |
50 <scanSettings id="scansettings1"> | |
51 <cvParam cvRef="IMS" accession="IMS:1000042" name="max count of pixel x" value="2" /> | |
52 <cvParam cvRef="IMS" accession="IMS:1000043" name="max count of pixel y" value="3" /> | |
53 <cvParam cvRef="IMS" accession="IMS:1000044" name="max dimension x" value="3" /> | |
54 <cvParam cvRef="IMS" accession="IMS:1000045" name="max dimension y" value="3" /> | |
55 <cvParam cvRef="IMS" accession="IMS:1000046" name="pixel size x" value="2.000000" /> | |
56 <cvParam cvRef="IMS" accession="IMS:1000047" name="pixel size y" value="1.000000" /> | |
57 </scanSettings> | |
58 </scanSettingsList> | |
59 <instrumentConfigurationList count="1"> | |
60 <instrumentConfiguration id="IC1"> | |
61 <cvParam cvRef="MS" accession="MS:1000031" name="instrument model" /> | |
62 </instrumentConfiguration> | |
63 </instrumentConfigurationList> | |
64 <dataProcessingList count="1"> | |
65 <dataProcessing id="CardinalWriteImzML"> | |
66 <processingMethod order="1" softwareRef="Cardinal"> | |
67 <cvParam cvRef="MS" accession="MS:1000544" name="Conversion to mzML" value="" /> | |
68 </processingMethod> | |
69 </dataProcessing> | |
70 </dataProcessingList> | |
71 <run defaultInstrumentConfigurationRef="IC1" id="Experiment01" sampleRef="sample1"> | |
72 <spectrumList count="5" defaultDataProcessingRef="CardinalWriteImzML"> | |
73 <spectrum id="Spectrum=1" defaultArrayLength="0" index="1"> | |
74 <referenceableParamGroupRef ref="spectrum1" /> | |
75 <scanList count="1"> | |
76 <cvParam cvRef="MS" accession="MS:1000795" name="no combination" value="" /> | |
77 <scan instrumentConfigurationRef="IC1"> | |
78 <referenceableParamGroupRef ref="scan1" /> | |
79 <cvParam cvRef="IMS" accession="IMS:1000050" name="position x" value="1" /> | |
80 <cvParam cvRef="IMS" accession="IMS:1000051" name="position y" value="1" /> | |
81 <userParam name="3DPositionX" value="1.000000" /> | |
82 <userParam name="3DPositionY" value="1.000000" /> | |
83 </scan> | |
84 </scanList> | |
85 <binaryDataArrayList count="2"> | |
86 <binaryDataArray encodedLength="0"> | |
87 <referenceableParamGroupRef ref="mzArray" /> | |
88 <cvParam cvRef="IMS" accession="IMS:1000102" name="external offset" value="16" /> | |
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 <binaryDataArray encodedLength="0"> | |
94 <referenceableParamGroupRef ref="intensityArray" /> | |
95 <cvParam cvRef="IMS" accession="IMS:1000102" name="external offset" value="4812" /> | |
96 <cvParam cvRef="IMS" accession="IMS:1000103" name="external array length" value="1199" /> | |
97 <cvParam cvRef="IMS" accession="IMS:1000104" name="external encoded length" value="4796" /> | |
98 <binary /> | |
99 </binaryDataArray> | |
100 </binaryDataArrayList> | |
101 </spectrum> | |
102 <spectrum id="Spectrum=2" defaultArrayLength="0" index="2"> | |
103 <referenceableParamGroupRef ref="spectrum1" /> | |
104 <scanList count="1"> | |
105 <cvParam cvRef="MS" accession="MS:1000795" name="no combination" value="" /> | |
106 <scan instrumentConfigurationRef="IC1"> | |
107 <referenceableParamGroupRef ref="scan1" /> | |
108 <cvParam cvRef="IMS" accession="IMS:1000050" name="position x" value="3" /> | |
109 <cvParam cvRef="IMS" accession="IMS:1000051" name="position y" value="1" /> | |
110 <userParam name="3DPositionX" value="3.000000" /> | |
111 <userParam name="3DPositionY" value="1.000000" /> | |
112 </scan> | |
113 </scanList> | |
114 <binaryDataArrayList count="2"> | |
115 <binaryDataArray encodedLength="0"> | |
116 <referenceableParamGroupRef ref="mzArray" /> | |
117 <cvParam cvRef="IMS" accession="IMS:1000102" name="external offset" value="16" /> | |
118 <cvParam cvRef="IMS" accession="IMS:1000103" name="external array length" value="1199" /> | |
119 <cvParam cvRef="IMS" accession="IMS:1000104" name="external encoded length" value="4796" /> | |
120 <binary /> | |
121 </binaryDataArray> | |
122 <binaryDataArray encodedLength="0"> | |
123 <referenceableParamGroupRef ref="intensityArray" /> | |
124 <cvParam cvRef="IMS" accession="IMS:1000102" name="external offset" value="9608" /> | |
125 <cvParam cvRef="IMS" accession="IMS:1000103" name="external array length" value="1199" /> | |
126 <cvParam cvRef="IMS" accession="IMS:1000104" name="external encoded length" value="4796" /> | |
127 <binary /> | |
128 </binaryDataArray> | |
129 </binaryDataArrayList> | |
130 </spectrum> | |
131 <spectrum id="Spectrum=3" defaultArrayLength="0" index="3"> | |
132 <referenceableParamGroupRef ref="spectrum1" /> | |
133 <scanList count="1"> | |
134 <cvParam cvRef="MS" accession="MS:1000795" name="no combination" value="" /> | |
135 <scan instrumentConfigurationRef="IC1"> | |
136 <referenceableParamGroupRef ref="scan1" /> | |
137 <cvParam cvRef="IMS" accession="IMS:1000050" name="position x" value="1" /> | |
138 <cvParam cvRef="IMS" accession="IMS:1000051" name="position y" value="2" /> | |
139 <userParam name="3DPositionX" value="1.000000" /> | |
140 <userParam name="3DPositionY" value="2.000000" /> | |
141 </scan> | |
142 </scanList> | |
143 <binaryDataArrayList count="2"> | |
144 <binaryDataArray encodedLength="0"> | |
145 <referenceableParamGroupRef ref="mzArray" /> | |
146 <cvParam cvRef="IMS" accession="IMS:1000102" name="external offset" value="16" /> | |
147 <cvParam cvRef="IMS" accession="IMS:1000103" name="external array length" value="1199" /> | |
148 <cvParam cvRef="IMS" accession="IMS:1000104" name="external encoded length" value="4796" /> | |
149 <binary /> | |
150 </binaryDataArray> | |
151 <binaryDataArray encodedLength="0"> | |
152 <referenceableParamGroupRef ref="intensityArray" /> | |
153 <cvParam cvRef="IMS" accession="IMS:1000102" name="external offset" value="14404" /> | |
154 <cvParam cvRef="IMS" accession="IMS:1000103" name="external array length" value="1199" /> | |
155 <cvParam cvRef="IMS" accession="IMS:1000104" name="external encoded length" value="4796" /> | |
156 <binary /> | |
157 </binaryDataArray> | |
158 </binaryDataArrayList> | |
159 </spectrum> | |
160 <spectrum id="Spectrum=4" defaultArrayLength="0" index="4"> | |
161 <referenceableParamGroupRef ref="spectrum1" /> | |
162 <scanList count="1"> | |
163 <cvParam cvRef="MS" accession="MS:1000795" name="no combination" value="" /> | |
164 <scan instrumentConfigurationRef="IC1"> | |
165 <referenceableParamGroupRef ref="scan1" /> | |
166 <cvParam cvRef="IMS" accession="IMS:1000050" name="position x" value="3" /> | |
167 <cvParam cvRef="IMS" accession="IMS:1000051" name="position y" value="2" /> | |
168 <userParam name="3DPositionX" value="3.000000" /> | |
169 <userParam name="3DPositionY" value="2.000000" /> | |
170 </scan> | |
171 </scanList> | |
172 <binaryDataArrayList count="2"> | |
173 <binaryDataArray encodedLength="0"> | |
174 <referenceableParamGroupRef ref="mzArray" /> | |
175 <cvParam cvRef="IMS" accession="IMS:1000102" name="external offset" value="16" /> | |
176 <cvParam cvRef="IMS" accession="IMS:1000103" name="external array length" value="1199" /> | |
177 <cvParam cvRef="IMS" accession="IMS:1000104" name="external encoded length" value="4796" /> | |
178 <binary /> | |
179 </binaryDataArray> | |
180 <binaryDataArray encodedLength="0"> | |
181 <referenceableParamGroupRef ref="intensityArray" /> | |
182 <cvParam cvRef="IMS" accession="IMS:1000102" name="external offset" value="19200" /> | |
183 <cvParam cvRef="IMS" accession="IMS:1000103" name="external array length" value="1199" /> | |
184 <cvParam cvRef="IMS" accession="IMS:1000104" name="external encoded length" value="4796" /> | |
185 <binary /> | |
186 </binaryDataArray> | |
187 </binaryDataArrayList> | |
188 </spectrum> | |
189 <spectrum id="Spectrum=5" defaultArrayLength="0" index="5"> | |
190 <referenceableParamGroupRef ref="spectrum1" /> | |
191 <scanList count="1"> | |
192 <cvParam cvRef="MS" accession="MS:1000795" name="no combination" value="" /> | |
193 <scan instrumentConfigurationRef="IC1"> | |
194 <referenceableParamGroupRef ref="scan1" /> | |
195 <cvParam cvRef="IMS" accession="IMS:1000050" name="position x" value="1" /> | |
196 <cvParam cvRef="IMS" accession="IMS:1000051" name="position y" value="3" /> | |
197 <userParam name="3DPositionX" value="1.000000" /> | |
198 <userParam name="3DPositionY" value="3.000000" /> | |
199 </scan> | |
200 </scanList> | |
201 <binaryDataArrayList count="2"> | |
202 <binaryDataArray encodedLength="0"> | |
203 <referenceableParamGroupRef ref="mzArray" /> | |
204 <cvParam cvRef="IMS" accession="IMS:1000102" name="external offset" value="16" /> | |
205 <cvParam cvRef="IMS" accession="IMS:1000103" name="external array length" value="1199" /> | |
206 <cvParam cvRef="IMS" accession="IMS:1000104" name="external encoded length" value="4796" /> | |
207 <binary /> | |
208 </binaryDataArray> | |
209 <binaryDataArray encodedLength="0"> | |
210 <referenceableParamGroupRef ref="intensityArray" /> | |
211 <cvParam cvRef="IMS" accession="IMS:1000102" name="external offset" value="23996" /> | |
212 <cvParam cvRef="IMS" accession="IMS:1000103" name="external array length" value="1199" /> | |
213 <cvParam cvRef="IMS" accession="IMS:1000104" name="external encoded length" value="4796" /> | |
214 <binary /> | |
215 </binaryDataArray> | |
216 </binaryDataArrayList> | |
217 </spectrum> | |
218 </spectrumList> | |
219 </run> | |
220 </mzML> |