Unable to install RBGL in Bioconductor 3.10 release
1
1
Entering edit mode
@mjsteinbaugh
Last seen 13 months ago
Cambridge, MA

Hi all,

I'm hitting an RBGL installation issue on RHEL 7 for Bioconductor 3.10, in case anybody else see this. I filed a related issue over on GitHub: https://github.com/Bioconductor/RBGL/issues/2

BiocManager::install("RBGL")
Bioconductor version 3.10 (BiocManager 1.30.9), R 3.6.1 (2019-07-05)
Installing package(s) 'RBGL'
trying URL 'https://bioconductor.org/packages/3.10/bioc/src/contrib/RBGL_1.61.0.tar.gz'
Content type 'application/x-gzip' length 2303478 bytes (2.2 MB)
==================================================
downloaded 2.2 MB

* installing *source* package ‘RBGL’ ...
** using staged installation
checking R package BH ... no
configure: error: R package BH not found.
ERROR: configuration failed for package ‘RBGL’
* removing ‘/data00/R/site-library/3.6/RBGL’
* restoring previous ‘/data00/R/site-library/3.6/RBGL’
Warning in install.packages(...) :
  installation of package ‘RBGL’ had non-zero exit status
rbgl bh • 1.1k views
ADD COMMENT
0
Entering edit mode

OK I posted a temporary fix on GitHub, but the automatic configuration needs to be updated to support RHEL 7.

ADD REPLY
0
Entering edit mode
@martin-morgan-1513
Last seen 5 months ago
United States

This is being addressed in the github issue https://github.com/Bioconductor/RBGL/issues/2 and an updated version should be available later today.

ADD COMMENT

Login before adding your answer.

Traffic: 543 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6