[Bioc-devel] vignette problems

Martin Morgan martin.morgan at roswellpark.org
Wed Mar 28 01:08:42 CEST 2018

When I try and install the version on the master branch of the 
Bioconductor git repository I get

STAN master$ Rdev --vanilla CMD INSTALL .
* installing to library ‘/home/mtmorgan/R/x86_64-pc-linux-gnu-library
** testing if installed package can be loaded
Error: package or namespace load failed for 'STAN' in 
namespaceExport(ns, exports):
  undefined exports: viterbi2Gviz

This comes about in a rather interesting way because the body of 
plotViterbi is not defined

plotViterbi <- function(viterbi, regions, gen, chrom, from, to, 
statecols, col)


Can you please commit a version of the package that installs?


On 03/27/2018 06:42 PM, campos wrote:
> Dear bioc-devel team,
> I am developing the STAN packages and I am running into problems when 
> trying to build my package. The problem is the following:
> Error in vignette_type(Outfile) :
>    Vignette product 'STAN.tex' does not have a known filename extension 
> ('NA')
> ERROR: installing vignettes failed
> * removing '/tmp/Rtmp925Iru/Rinst63471ff1efdc/STAN'
> I tried to build the package in old versions (which they used to work) 
> and I run in other problems but in this case is:
> Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet,  :
>    Running 'texi2dvi' on 'STAN.tex' failed.
> LaTeX errors:
> ! LaTeX Error: File `beramono.sty' not found.
> Type X to quit or <RETURN> to proceed,
> or enter new name. (Default extension: sty)
> Could you help me with this problem?
> Thank you very much,
> Rafael
> _______________________________________________
> Bioc-devel at r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/bioc-devel

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