This is my first time posting, so I'm sorry for any mistakes in formating or exposing the problem. I am also a Linux beginner.

I am trying to run a bioinformatics program called Caver Analyst. Whenever I call it on the terminal, I get the following output:

dgesto@jarvis ~: caver_analyst

Jul 24, 2019 5:24:39 PM cz.caver.Main main
INFO: Using default userdir: /home/dgesto/.caver_analyst/2.0b2
WARNING: An illegal reflective access operation has occurred
WARNING: Illegal reflective access by org.netbeans.ProxyURLStreamHandlerFactory (file:/usr/local/lib/caver_analyst2/platform/lib/boot.jar) to field java.net.URL.handler
WARNING: Please consider reporting this to the maintainers of org.netbeans.ProxyURLStreamHandlerFactory
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
Inconsistency detected by ld.so: dl-lookup.c: 111: check_match: Assertion `version->filename == NULL || ! _dl_name_match_p (version->filename, map)' failed!

I'm running Linux Mint 19.1 (Tessa) with OpenJDK version 11.0.3. I thought it might have somethig to do with java, and tried downgrading to version 8 with no luck.

If you need anymore information about my system please let me know.

  • Hi, not sure this will be of help, but here's a related Launchpad bug report with the same problem with another Java app.
    – undercat
    Jul 25, 2019 at 9:57

2 Answers 2


Solved it, it really was a problem with some java update. I purged OpenJDK 11 following these instructions and installed OpenJDK 8. It seems to be working fine now.


I don't want to purge OpenJDK from my box, so you can download Oracle JDK 8 from Oracle and run the following command:

$ PATH=<oracle_jdk_path>/bin:$PATH JDK_HOME=<oracle_jdk_path> ./caver_analyst

Your Answer

By clicking “Post Your Answer”, you agree to our terms of service, privacy policy and cookie policy

Not the answer you're looking for? Browse other questions tagged or ask your own question.