Bugfix: Replace removed sun.misc Base64 classes with java.util.Base64

toolbox/io/import_label.m

@@ -24,8 +24,6 @@
 %
 % Authors: Francois Tadel, 2012-2022
 
-import sun.misc.BASE64Decoder;
-
 
 %% ===== GET FILES =====
 sAllAtlas = repmat(db_template('Atlas'), 0);

toolbox/io/in_gii.m

@@ -21,8 +21,6 @@
 %
 % Authors: Francois Tadel, 2017
 
-import sun.misc.BASE64Decoder;
-
 % Read XML file
 sXml = in_xml(GiiFile);
 
@@ -56,8 +54,7 @@
 
         case {'Base64Binary', 'GZipBase64Binary'}
             % Base64 decoding
-            decoder = BASE64Decoder();
-            Values{iArray} = decoder.decodeBuffer(sXml.GIFTI.DataArray(iArray).Data.text);
+            Values{iArray} = bst_base64('decode', sXml.GIFTI.DataArray(iArray).Data.text);
             % Unpack gzipped stream
             if strcmpi(sXml.GIFTI.DataArray(iArray).Encoding, 'GZipBase64Binary')
                 Values{iArray} = dunzip(Values{iArray});

toolbox/io/in_tess_gii.m

@@ -30,8 +30,6 @@
 %
 % Authors: Francois Tadel, 2012-2017
 
-import sun.misc.BASE64Decoder;
-
 % Read GII file
 [sXml, Values] = in_gii(TessFile);
 % Initialize matrices

toolbox/io/out_tess_gii.m

@@ -61,19 +61,14 @@ function out_tess_gii( TessMat, OutputFile, isSPM )
 end
 
 % ===== ENCODE DATA =====
-import sun.misc.BASE64Encoder;
-% Initialize Base64 encoder
-encoder = BASE64Encoder();
 % Encode vertices: millimeters
 Vertices = single(TessMat.Vertices' .* 1000);
 Vertices = typecast(Vertices(:), 'uint8');
-Vertices = char(encoder.encodeBuffer(Vertices));
-Vertices((Vertices == 10) | (Vertices == 13)) = [];
+Vertices = bst_base64('encode', Vertices);
 % Encode faces: 0-based array
 Faces = int32(TessMat.Faces' - 1);
 Faces = typecast(Faces(:), 'uint8');
-Faces = char(encoder.encodeBuffer(Faces));
-Faces((Faces == 10) | (Faces == 13)) = [];
+Faces = bst_base64('encode', Faces);
 
 % ===== CREATE XML STRING =====   
 % Create XML file from a template

toolbox/misc/bst_base64.m

@@ -0,0 +1,84 @@
+function y = bst_base64(action, x)
+% BST_BASE64: Encode or decode Base64 data, independently from the Java version.
+%
+% USAGE:  bytes = bst_base64('decode', str)    % str  : char array (line breaks allowed)
+%                                              % bytes: int8 vector
+%           str = bst_base64('encode', bytes)  % bytes: int8/uint8 vector (or Java byte[])
+%                                              % str  : char array (no line breaks)
+%
+% DESCRIPTION:
+%     The classes sun.misc.BASE64Decoder and sun.misc.BASE64Encoder used previously were
+%     internal JDK classes, removed in Java 9. Recent versions of Matlab ship with a newer
+%     JDK, in which they are not available anymore ("Unable to find or import
+%     'sun.misc.BASE64Decoder'"). This function uses java.util.Base64 instead (Java >= 8),
+%     with fallbacks for older environments.
+
+% @=============================================================================
+% This function is part of the Brainstorm software:
+% https://neuroimage.usc.edu/brainstorm
+% 
+% Copyright (c) University of Southern California & McGill University
+% This software is distributed under the terms of the GNU General Public License
+% as published by the Free Software Foundation. Further details on the GPLv3
+% license can be found at http://www.gnu.org/copyleft/gpl.html.
+% 
+% FOR RESEARCH PURPOSES ONLY. THE SOFTWARE IS PROVIDED "AS IS," AND THE
+% UNIVERSITY OF SOUTHERN CALIFORNIA AND ITS COLLABORATORS DO NOT MAKE ANY
+% WARRANTY, EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO WARRANTIES OF
+% MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE, NOR DO THEY ASSUME ANY
+% LIABILITY OR RESPONSIBILITY FOR THE USE OF THIS SOFTWARE.
+%
+% For more information type "brainstorm license" at command prompt.
+% =============================================================================@
+%
+% Authors: Bhushan Thombre, 2026
+
+switch lower(action)
+    % ===== DECODE =====
+    case 'decode'
+        % Convert to a simple char row, remove all the white spaces and line breaks
+        x = char(x);
+        x = x(:)';
+        x(x <= 32) = [];
+        if isempty(x)
+            y = zeros(0, 1, 'int8');
+            return;
+        end
+        try
+            % Java >= 8
+            y = java.util.Base64.getMimeDecoder().decode(java.lang.String(x));
+        catch
+            try
+                % Matlab >= R2016b, no Java needed
+                y = typecast(matlab.net.base64decode(x), 'int8');
+            catch
+                % Java <= 8
+                decoder = sun.misc.BASE64Decoder();
+                y = decoder.decodeBuffer(x);
+            end
+        end
+        y = y(:);
+
+    % ===== ENCODE =====
+    case 'encode'
+        x = typecast(x(:), 'int8');
+        try
+            % Java >= 8
+            y = char(java.util.Base64.getEncoder().encodeToString(x));
+        catch
+            try
+                % Matlab >= R2016b, no Java needed
+                y = char(matlab.net.base64encode(typecast(x, 'uint8')));
+            catch
+                % Java <= 8
+                encoder = sun.misc.BASE64Encoder();
+                y = char(encoder.encode(x));
+            end
+        end
+        % Remove the line breaks possibly added by the encoder
+        y = y(:)';
+        y((y == 10) | (y == 13)) = [];
+
+    otherwise
+        error(['Unsupported action: ' action]);
+end

toolbox/process/bst_report.m

@@ -1040,8 +1040,6 @@ function Info(sProcess, sInputs, strMsg)
         % ===== IMAGES =====
         if ~isempty(iImages)
             html = [html '<H2>Snapshots</H2>' 10];
-            % Create Base64 encoder
-            encoder = sun.misc.BASE64Encoder();
             % Loop on all the images
             for i = 1:length(iImages)
                 iMsg      = iImages(i);
@@ -1063,15 +1061,15 @@ function Info(sProcess, sInputs, strMsg)
                 jByteStream = java.io.ByteArrayOutputStream();
                 javax.imageio.ImageIO.write(jImage, 'png', jByteStream);
                 % Encode PNG image in Base64
-                jStringImage = encoder.encode(jByteStream.toByteArray());
+                strImage = bst_base64('encode', jByteStream.toByteArray());
                 % Display image in HTML
                 html = [html, Comment];
                 if ~isempty(FileNames)
                     html = [html, '  --  ' 10, PrintFilesList(FileNames, ProtocolInfo, 1)];
                 else
                     html = [html, '<BR>'];
                 end
-                html = [html, '<IMG src="data:image/png;base64,' char(jStringImage) '" /><BR><BR>'];
+                html = [html, '<IMG src="data:image/png;base64,' strImage '" /><BR><BR>'];
             end
         end