From 1b153ad41860ba599ed434e9a6c7298a3f1b91a1 Mon Sep 17 00:00:00 2001
From: selva <selva@ebi.ac.uk>
Date: Wed, 5 Aug 2020 16:11:19 +0100
Subject: [PATCH 1/2] mzTab reference RAW file

---
 .../ac/ebi/pride/gui/task/FileScanAndValidationTask.java  | 8 ++++----
 1 file changed, 4 insertions(+), 4 deletions(-)

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
index 46eca419..f9765d5a 100755
--- 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";
                         }

From 9af25f0cb503adc5e82e2bf1476d54c3a9cfee56 Mon Sep 17 00:00:00 2001
From: selva <selva@ebi.ac.uk>
Date: Wed, 5 Aug 2020 16:29:11 +0100
Subject: [PATCH 2/2] 2.4.18

---
 README.md | 2 +-
 pom.xml   | 2 +-
 2 files changed, 2 insertions(+), 2 deletions(-)

diff --git a/README.md b/README.md
index 9e67a257..7159b5c0 100644
--- 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
index 702f39c3..e0e8ba45 100644
--- 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>