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[Bioc-devel] new package submission (pcxn) Abnormal build result

3 messages · Sokratis Kariotis, Shepherd, Lori

#
Hi all,

Today I submitted a new package called "pcxn" in bioconductor and I got the
following Abnormal built result:

Warning in fun(libname, pkgname) :
  no display name and no $DISPLAY environment variable

Error: processing vignette 'usingPCxNdb.Rnw' failed with diagnostics:
 chunk 4 (label = pcxn.network)
Error in structure(.External(.C_dotTclObjv, objv), class = "tclObj") :
  [tcl] invalid command name "font".

The pcxn.network function uses igraph::tkplot to return a network, which
works every time on several local machines. After searching for a while it
seems that whenever this problem arises its because of the igraph package
installation. How can I deal with this? Thanks in advance.

With Regards,
Sokratis
2 days later
#
Yes, this seems to be a problem on our side. We are looking into it. For now you can ignore this ERROR.

There was a similar post here:

https://stat.ethz.ch/pipermail/bioc-devel/2017-September/011773.html


Lori Shepherd

Bioconductor Core Team

Roswell Park Cancer Institute

Department of Biostatistics & Bioinformatics

Elm & Carlton Streets

Buffalo, New York 14263
#
Thanks for the reply!

For now I have commented out the problematic lines (# network <-
pcxn.network(df) , in man files and vignette) and the package builds OK.

Cheers,
Sokratis

On 5 October 2017 at 12:56, Shepherd, Lori <Lori.Shepherd at roswellpark.org>
wrote: