From b57f7f74d0195f5dc024d09654068892b33a13e0 Mon Sep 17 00:00:00 2001
From: Cristian Goina <goinac@hhmi.org>
Date: Mon, 20 May 2024 16:41:43 -0400
Subject: [PATCH] use realpath when creating filedata from components

---
 .../java/org/janelia/colormipsearch/model/FileData.java   | 8 +++++++-
 1 file changed, 7 insertions(+), 1 deletion(-)

diff --git a/colormipsearch-api/src/main/java/org/janelia/colormipsearch/model/FileData.java b/colormipsearch-api/src/main/java/org/janelia/colormipsearch/model/FileData.java
index 7628645c..118fa3b6 100644
--- a/colormipsearch-api/src/main/java/org/janelia/colormipsearch/model/FileData.java
+++ b/colormipsearch-api/src/main/java/org/janelia/colormipsearch/model/FileData.java
@@ -1,5 +1,6 @@
 package org.janelia.colormipsearch.model;
 
+import java.io.IOException;
 import java.nio.file.Path;
 import java.nio.file.Paths;
 
@@ -34,7 +35,12 @@ public static FileData fromString(String fn) {
     }
 
     public static FileData fromComponents(FileDataType fileDataType, String parent, String name, boolean normalize) {
-        Path parentFilePath = Paths.get(parent).toAbsolutePath().normalize();
+        Path parentFilePath;
+        try {
+            parentFilePath = Paths.get(parent).toRealPath();
+        } catch (IOException e) {
+            parentFilePath = Paths.get(parent).toAbsolutePath().normalize();
+        }
         if (fileDataType == FileDataType.zipEntry) {
             FileData fd = new FileData();
             fd.setDataType(FileDataType.zipEntry);