diff --git a/initCobraToolbox.m b/initCobraToolbox.m
index 653202f4d0..832bd3d0de 100644
--- a/initCobraToolbox.m
+++ b/initCobraToolbox.m
@@ -206,7 +206,7 @@ function initCobraToolbox()
     end
 
     %get the current content of the init Folder
-    dirContent = getFilesInDir('gitFileType','ignored');    
+    dirContent = getFilesInDir('gitTypeFlag','ignored');    
 
     % add the folders of The COBRA Toolbox
     folders = {'tutorials', 'papers', 'binary', 'deprecated', 'src', 'test', '.tmp'};
diff --git a/src/base/install/removeGitIgnoredNewFiles.m b/src/base/install/removeGitIgnoredNewFiles.m
index 40ba2bb83a..653adc2865 100644
--- a/src/base/install/removeGitIgnoredNewFiles.m
+++ b/src/base/install/removeGitIgnoredNewFiles.m
@@ -14,7 +14,7 @@ function removeGitIgnoredNewFiles(directory, oldcontent)
 currentDir = cd(directory);
 
 % get the new Content of the folder.
-newContent = getFilesInDir('gitFileType','ignored');
+newContent = getFilesInDir('gitTypeFlag','ignored');
 
 % get all .log files that were present only after initCobraToolbox was called.
 newIgnoredFiles = setdiff(newContent, oldcontent);