diffplug / jmatio Goto Github PK

Are figures supported? I am getting the following exception when trying to parse .fig files with JMatIO through Apache Tika:

Exception in thread "main" org.apache.tika.exception.TikaException: Error parsing Matlab file with MatParser
    at org.apache.tika.parser.mat.MatParser.parse(MatParser.java:128)
    at org.apache.tika.parser.CompositeParser.parse(CompositeParser.java:256)
    at org.apache.tika.parser.CompositeParser.parse(CompositeParser.java:256)
    at org.apache.tika.parser.AutoDetectParser.parse(AutoDetectParser.java:120)
    at org.apache.tika.cli.TikaCLI$OutputType.process(TikaCLI.java:146)
    at org.apache.tika.cli.TikaCLI.process(TikaCLI.java:440)
    at org.apache.tika.cli.TikaCLI.main(TikaCLI.java:116)
Caused by: com.jmatio.io.MatlabIOException: Incorrect matlab array class: function_handle
    at com.jmatio.io.MatFileReader.readMatrix(MatFileReader.java:929)
    at com.jmatio.io.MatFileReader.readMatrix(MatFileReader.java:639)
    at com.jmatio.io.MatFileReader.readMatrix(MatFileReader.java:620)
    at com.jmatio.io.MatFileReader.readMatrix(MatFileReader.java:620)
    at com.jmatio.io.MatFileReader.readMatrix(MatFileReader.java:620)
    at com.jmatio.io.MatFileReader.readMatrix(MatFileReader.java:620)
    at com.jmatio.io.MatFileReader.readData(MatFileReader.java:515)
    at com.jmatio.io.MatFileReader.readData(MatFileReader.java:498)
    at com.jmatio.io.MatFileReader.read(MatFileReader.java:298)
    at com.jmatio.io.MatFileReader.<init>(MatFileReader.java:154)
    at com.jmatio.io.MatFileReader.<init>(MatFileReader.java:130)
    at org.apache.tika.parser.mat.MatParser.parse(MatParser.java:66)
    ... 6 more

The line in master that's throwing the exception is https://github.com/codemercenary/JMatIO/blob/master/src/main/java/ca/mjdsystems/jmatio/io/MatFileReader.java#L1287. You can grab a sample fig file from this zip file. Here is the relevant Tika JIRA issue.

jmatio-1.0

Exception in thread "main" java.lang.IllegalArgumentException: Negative size
at sun.nio.ch.FileChannelImpl.map(FileChannelImpl.java:865)
at com.jmatio.io.MatFileReader.read(MatFileReader.java:287)
at com.jmatio.io.MatFileReader.(MatFileReader.java:154)
at com.jmatio.io.MatFileReader.(MatFileReader.java:102)
at com.hw.parse.prob.tocassandra.Test.main(Test.java:23)

prob_20200913_12.mat file size is 3.11GB

How can I solve this problem? Thank you

Hi,
I have been using JMatIO successfully with Java 8, however I recently attempted to transition to Java 11 and am now getting this error

WARNING: An illegal reflective access operation has occurred
WARNING: Illegal reflective access by com.jmatio.io.MatFileReader$1 (file: /.m2/repository/com/diffplug/matsim/matfilerw/3.0.1/matfilerw-3.0.1.jar) to method java.nio.DirectByteBuffer.cleaner()
WARNING: Please consider reporting this to the maintainers of com.jmatio.io.MatFileReader$1
WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations
WARNING: All illegal access operations will be denied in a future release
Exception in thread "main" java.lang.NoClassDefFoundError: sun/misc/Cleaner
at com.jmatio.io.MatFileReader$1.run(MatFileReader.java:691)
at java.base/java.security.AccessController.doPrivileged(Native Method)
at com.jmatio.io.MatFileReader.clean(MatFileReader.java:684)
at com.jmatio.io.MatFileReader.read(MatFileReader.java:389)
at com.jmatio.io.MatFileReader.read(MatFileReader.java:313)
at com.jmatio.io.MatFileReader.(MatFileReader.java:174)
at com.jmatio.io.MatFileReader.(MatFileReader.java:150)

I didn't know if anyone else has looked into this. Thanks