Mercurial > repos > galaxyp > cardinal_mz_images

diff test-data/preprocessing_results2.imzml @ 6:25b83cbd596a draft

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"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/cardinal commit 15e24b1f0143679647906bc427654f66b417a45c"
author galaxyp
date Wed, 25 Mar 2020 05:31:15 -0400
parents 773a24b240e1
children a69865da6f80
line wrap: on
line diff
--- a/test-data/preprocessing_results2.imzml	Fri Dec 13 13:51:29 2019 -0500
+++ b/test-data/preprocessing_results2.imzml	Wed Mar 25 05:31:15 2020 -0400
@@ -9,8 +9,8 @@
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@@ -22,19 +22,18 @@
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 			<cvParam cvRef="MS" accession="MS:1000093" name="increasing m/z scan" value="" />
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 			<cvParam cvRef="MS" accession="MS:1000576" name="no compression" value="" />
 			<cvParam cvRef="MS" accession="MS:1000514" name="m/z array" value="" unitCvRef="MS" unitAccession="MS:1000040" unitName="m/z" />
 			<cvParam cvRef="IMS" accession="IMS:1000101" name="external data" value="true" />
-			<cvParam cvRef="MS" accession="MS:1000521" name="32-bit float" value="32-bit float" />
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-			<cvParam cvRef="MS" accession="MS:1000521" name="32-bit float" value="32-bit float" />
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@@ -43,18 +42,24 @@
 		</sample>
 	</sampleList>
 	<softwareList count="1">
-		<software id="Cardinal" version="1.12.1">
+		<software id="Cardinal" version="2.4.0">
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 		</software>
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 	</scanSettingsList>
 	<instrumentConfigurationList count="1">
-		<instrumentConfiguration id="IC1" />
+		<instrumentConfiguration id="IC1">
+			<cvParam cvRef="MS" accession="MS:1000031" name="instrument model" />
+		</instrumentConfiguration>
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 	<dataProcessingList count="1">
 		<dataProcessing id="CardinalWriteImzML">
@@ -73,21 +78,23 @@
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@@ -127,21 +136,23 @@
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 						<cvParam cvRef="IMS" accession="IMS:1000051" name="position y" value="3" />
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 						<cvParam cvRef="IMS" accession="IMS:1000051" name="position y" value="1" />
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 						<cvParam cvRef="IMS" accession="IMS:1000051" name="position y" value="1" />
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@@ -208,21 +223,23 @@
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 						<cvParam cvRef="IMS" accession="IMS:1000051" name="position y" value="2" />
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@@ -235,21 +252,23 @@
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 						<cvParam cvRef="IMS" accession="IMS:1000051" name="position y" value="2" />
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 						<cvParam cvRef="IMS" accession="IMS:1000051" name="position y" value="3" />
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+						<cvParam cvRef="IMS" accession="IMS:1000104" name="external encoded length" value="2876" />
 						<binary />
 					</binaryDataArray>
 				</binaryDataArrayList>
@@ -343,21 +368,23 @@
 						<referenceableParamGroupRef ref="scan1" />
 						<cvParam cvRef="IMS" accession="IMS:1000050" name="position x" value="9" />
 						<cvParam cvRef="IMS" accession="IMS:1000051" name="position y" value="2" />
+						<userParam name="3DPositionX" value="9.000000" />
+						<userParam name="3DPositionY" value="2.000000" />
 					</scan>
 				</scanList>
 				<binaryDataArrayList count="2">
 					<binaryDataArray encodedLength="0">
 						<referenceableParamGroupRef ref="mzArray" />
 						<cvParam cvRef="IMS" accession="IMS:1000102" name="external offset" value="16" />
-						<cvParam cvRef="IMS" accession="IMS:1000103" name="external array length" value="1052" />
-						<cvParam cvRef="IMS" accession="IMS:1000104" name="external encoded length" value="4208" />
+						<cvParam cvRef="IMS" accession="IMS:1000103" name="external array length" value="719" />
+						<cvParam cvRef="IMS" accession="IMS:1000104" name="external encoded length" value="2876" />
 						<binary />
 					</binaryDataArray>
 					<binaryDataArray encodedLength="0">
 						<referenceableParamGroupRef ref="intensityArray" />
-						<cvParam cvRef="IMS" accession="IMS:1000102" name="external offset" value="46304" />
-						<cvParam cvRef="IMS" accession="IMS:1000103" name="external array length" value="1052" />
-						<cvParam cvRef="IMS" accession="IMS:1000104" name="external encoded length" value="4208" />
+						<cvParam cvRef="IMS" accession="IMS:1000102" name="external offset" value="31652" />
+						<cvParam cvRef="IMS" accession="IMS:1000103" name="external array length" value="719" />
+						<cvParam cvRef="IMS" accession="IMS:1000104" name="external encoded length" value="2876" />
 						<binary />
 					</binaryDataArray>
 				</binaryDataArrayList>
@@ -370,21 +397,23 @@
 						<referenceableParamGroupRef ref="scan1" />
 						<cvParam cvRef="IMS" accession="IMS:1000050" name="position x" value="9" />
 						<cvParam cvRef="IMS" accession="IMS:1000051" name="position y" value="3" />
+						<userParam name="3DPositionX" value="9.000000" />
+						<userParam name="3DPositionY" value="3.000000" />
 					</scan>
 				</scanList>
 				<binaryDataArrayList count="2">
 					<binaryDataArray encodedLength="0">
 						<referenceableParamGroupRef ref="mzArray" />
 						<cvParam cvRef="IMS" accession="IMS:1000102" name="external offset" value="16" />
-						<cvParam cvRef="IMS" accession="IMS:1000103" name="external array length" value="1052" />
-						<cvParam cvRef="IMS" accession="IMS:1000104" name="external encoded length" value="4208" />
+						<cvParam cvRef="IMS" accession="IMS:1000103" name="external array length" value="719" />
+						<cvParam cvRef="IMS" accession="IMS:1000104" name="external encoded length" value="2876" />
 						<binary />
 					</binaryDataArray>
 					<binaryDataArray encodedLength="0">
 						<referenceableParamGroupRef ref="intensityArray" />
-						<cvParam cvRef="IMS" accession="IMS:1000102" name="external offset" value="50512" />
-						<cvParam cvRef="IMS" accession="IMS:1000103" name="external array length" value="1052" />
-						<cvParam cvRef="IMS" accession="IMS:1000104" name="external encoded length" value="4208" />
+						<cvParam cvRef="IMS" accession="IMS:1000102" name="external offset" value="34528" />
+						<cvParam cvRef="IMS" accession="IMS:1000103" name="external array length" value="719" />
+						<cvParam cvRef="IMS" accession="IMS:1000104" name="external encoded length" value="2876" />
 						<binary />
 					</binaryDataArray>
 				</binaryDataArrayList>