[Bioc-devel] edgeR crashes when xlsxjars is loaded

Steve Lianoglou lianoglou.steve at gene.com
Mon Dec 16 23:18:41 CET 2013


On Mon, Dec 16, 2013 at 2:03 PM, Ryan <rct at thompsonclan.org> wrote:
> I'm quite sure that it is an interaction between something that xlsxjars
> does and edgeR's C code. The example I gave is a reduction from my actual
> script, and I finally figured out that loading the xlsxjars package is what
> triggers the crash. If I comment out the line that loads xlsxjars, then
> everything runs just fine for me.
> My current solution is to use the parallel package to load and use the xlsx
> package only in subprocesses, so the main R process never uses java.

Out of curiosity, are you saying that if you simply load rJava instead
of xlsxjars in the same place (or perhaps load another package that
depends on rJava), is the crash avoided, too?


Steve Lianoglou
Computational Biologist

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