Merge pull request #99 from PRIDE-Archive/MzTabReferenceRawFile

Mz tab reference raw file
PRIDE-Archive · Aug 5, 2020 · cd8433a · cd8433a
2 parents 3df74bc + 9af25f0
commit cd8433a
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Showing 3 changed files with 6 additions and 6 deletions.
diff --git a/README.md b/README.md
@@ -5,7 +5,7 @@ PX Submission Tool is a desktop application to submit the data to proteomeXchang
 
 # Quick Download 
 
-[<img src="https://raw.githubusercontent.com/PRIDE-Toolsuite/pride-inspector/master/wiki/download.png">](https://github.com/PRIDE-Archive/px-submission-tool/releases/download/2.4.17/px-submission-tool-2.4.17.zip)
+[<img src="https://raw.githubusercontent.com/PRIDE-Toolsuite/pride-inspector/master/wiki/download.png">](https://github.com/PRIDE-Archive/px-submission-tool/releases/download/2.4.18/px-submission-tool-2.4.18.zip)
 
 Please unzip and run `px-submission-tool-<version number>.jar` file!
 

diff --git a/pom.xml b/pom.xml
@@ -4,7 +4,7 @@
     <groupId>uk.ac.ebi.pride.px</groupId>
     <artifactId>px-submission-tool</artifactId>
     <packaging>jar</packaging>
-    <version>2.4.17</version>
+    <version>2.4.18</version>
     <name>px-submission-tool</name>
     <url>https://github.com/proteomexchange/px-submission-tool</url>
 

diff --git a/src/main/java/uk/ac/ebi/pride/gui/task/FileScanAndValidationTask.java b/src/main/java/uk/ac/ebi/pride/gui/task/FileScanAndValidationTask.java
@@ -341,17 +341,17 @@ private Map<DataFile, Set<String>> checkMzTabFileReferences(List<DataFile> mzTab
                         errorEntry = mzTabFile.getMzTabDocument().getMetaData().getMsRunEntry(msRunIndex).getLocation().toString();
                     } else {
                         // The file is in the list of files part of the current submission process
-                        // Check that the referenced file is a Peak List file
-                        if (dataFiles.get(referencedFile).getFileType() != ProjectFileType.PEAK) {
+                        // Check that the referenced file is a Raw file
+                        if (dataFiles.get(referencedFile.toLowerCase()).getFileType() != ProjectFileType.RAW) {
                             // Flag the error
                             errorFlagged = true;
                             // Log the error
                             errorLogMsg = "mzTab file '" + mzTabFile.getFilePath()
-                                    + "' references NON-Peak List file '"
+                                    + "' references NON-RAW file '"
                                     + referencedFile
                                     + "', which is NOT ALLOWED";
                             // Report the error
-                            errorEntry = "NON-Peak List referenced file '"
+                            errorEntry = "NON-RAW file '"
                                     + referencedFile
                                     + "', is NOT ALLOWED";
                         }