[R] Was there a change to R ver. 3.5.2 so that it now treats warnings during installs as errors?

[Peter Waltman]

I'm trying to install a devel package called gGnome (
https://github.com/mskilab/gGnome). One of its dependencies is another
package from the same group, called gTrack, which causes several warning
messages to be generated because it overloads a couple of functions that
are part of other packages that gTrack is dependent upon.  The specific
warnings are provided below.  During the lazy-loading step of gGnome's
install, gTrack is loaded, and when these warnings come up, they are
converted to errors, causing the install to fail. This behavior is new to
version 3.5.2, as I've been able to successfully install these packages
with R versions 3.5.0 and 3.5.1. Is there a workaround for this for version
3.5.2?

Thanks!

Error message during gGnome install:

> install_github('mskilab/gGnome')
Downloading GitHub repo mskilab/gGnome using master
Skipping 3 packages not available: GenomicRanges, rtracklayer,
VariantAnnotation
✔  checking for file
‘/tmp/Rtmp4hnMMO/remotes7fb938cd0553/mskilab-gGnome-81f661e/DESCRIPTION’ ...
─  preparing ‘gGnome’:
✔  checking DESCRIPTION meta-information ...
─  checking for LF line-endings in source and make files and shell scripts
─  checking for empty or unneeded directories
   Removed empty directory ‘gGnome/inst/extdata/gTrack.js’
─  building ‘gGnome_0.1.tar.gz’

* installing *source* package ‘gGnome’ ...
** R
** inst
** byte-compile and prepare package for lazy loading
Error: package or namespace load failed for ‘gTrack’:
* (converted from warning)* multiple methods tables found for ‘seqinfo<-’
Error : package ‘gTrack’ could not be loaded
ERROR: lazy loading failed for package ‘gGnome’
* removing ‘/home/waltman/bin/R/3.5.2/lib/R/library/gGnome’
Error in i.p(...) :
  (converted from warning) installation of package
‘/tmp/Rtmp4hnMMO/file7fb929638ed8/gGnome_0.1.tar.gz’ had non-zero exit
status


warning from gTrack when it is loaded:

Attaching package: ‘gTrack’

The following object is masked from ‘package:GenomicRanges’:

    seqinfo<-

The following object is masked from ‘package:GenomeInfoDb’:

    seqinfo<-

Warning message:
multiple methods tables found for ‘seqinfo<-’

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