[Bioc-devel] Issue with a package dependent on rJava

DR J Aravind J@Ar@v|nd @end|ng |rom |c@r@gov@|n
Mon Oct 10 00:32:48 CEST 2022

Dear Bioconductor Developers,

My package  `rmelting` is failing to build on release (3.15) and devel (3.16) versions for the following systems.

Bioconductor 3.15
- palomino3 (Windows Server 2022 Datacenter / x64)

Bioconductor 3.15
- palomino4 (Windows Server 2022 Datacenter / x64)
- lconway (macOS 12.5.1 Monterey / x86_64)

The error message is as follows.

* creating vignettes ... ERROR
--- re-building 'Tutorial.Rmd' using rmarkdown_notangle

Quitting from lines 195-197 (Tutorial.Rmd)

Error: processing vignette 'Tutorial.Rmd' failed with diagnostics:

java.lang.IllegalAccessException: class RJavaTools cannot access a member of class java.util.HashMap$KeySet (in module java.base) with modifiers "public final"

--- failed re-building 'Tutorial.Rmd'

SUMMARY: processing the following file failed:


I am unable to replicate the same on my end.

It seems to be an issue with java. The package is a low level interface to a software written in Java 1.5 using `rJava`. I have tried with different java versions upto 1.8.

Any pointers or suggestions to fix the same will be appreciated.

Best Regards,

J. Aravind

ICAR-National Bureau of Plant Genetic Resources
New Delhi, India

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