Installation problems with R using GBiC

[Susanne Kandolf]

Dear team,

I am encountering a problem when trying to install the genome browser
(GBiC) on RHEL10,. Epel10 and codeready builder are bother there, but it
seems that R is the problem. Even though it can be found here:
https://dl.fedoraproject.org/pub/epel/10/Everything/x86_64/Packages/r/R-4.5.1-1.el10_1.x86_64.rpm
it won't find a match for any R when trying to install.
Here would be the error message from running the browserSetup.sh script:

Updating Subscription Management repositories.
Last metadata expiration check: 1:01:30 ago on Thu Oct 30 08:59:56 2025.
Package ghostscript-10.02.1-16.el10_0.x86_64 is already installed.
Package rsync-3.4.1-2.el10.x86_64 is already installed.
No match for argument: R-core
Package curl-8.9.1-5.el10.x86_64 is already installed.
Error: Unable to find a match: R-core
Exit error 1 occurred on line 1
The UCSC Genome Browser installation script exited with an error.

I tried several versions to install it, but no match can be found...

I hope you can help.
If you need more info please let me know.

Thanks already in advance!

Best,
Susanne Kandolf

[Maximilian Haeussler]

Hi Susanne,

Yes, on commercial linuxes, the repos are totally different to add and R is only in these special repos. The script should have output a warning message, that you have to add EPEL yourself. We don't have a commercial RHEL or similar license, so it's hard for us to test this.

But this has come up a few times on the mailing list now, so I tried now to come up with a generic way to do this, and activate all the special Redhat commercial package repos with a few commands (in the new function "enableRhelRepos" in the script). Can you try to download the updated script from here and let us know if this works for you?

https://hgwdev.gi.ucsc.edu/~max/susanneKandolf/browserSetup.sh

best

Max

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