Closed AndreasSandJespersen closed 3 weeks ago
Amber and Cobalt uses RScript
on the PATH
to run R. Are you able to make sure the correct RScript
is on the PATH
variable?
Hi thanks for your quick reply
And thanks for the clarification. I had a second version of R loaded in a seperate module (gridss), which did not have copynumber installed. I.e. there were two Rscripts on the PATH variable.
Hi there,
I'm having some issues running amber and cobalt. This is an issue with my java installation. Although I have a copynumber available in my version of R, java is not using this version of R it seems. It is however loading some version as it is able to load the dplyr package. To be clear I'm working on an HPC where I load these tools individually, so there's not much reason to think that my version of R has much to do with my version of java. I've tried looking online for help with this, but haven't had much success. I understand this isn't really an issue with either of your tools, but I was wondering if you could point me in the right direction. The java version I'm using is jdk/21.0.1.
Thanks, Andreas