[Bioc-devel] Accepted packages can't find each other and fail build

Shepherd, Lori Lori.Shepherd at RoswellPark.org
Thu Oct 26 13:26:30 CEST 2017

We have already taken care of this on our end and you shouldn't need to do anything else.  As always changes reflected may take a few days to reflect in the build reports.

The solution is to add a .BBSoptions file with ForceInstall: TRUE to the software package.  Since there is a circular dependency this will force install the software package even though there will be ERRORs because of the missing data package.  On the next build of the data packages, the data package will then successfully build finding the software package. Then following, the software package will also build finding the data package.


Lori Shepherd

Bioconductor Core Team

Roswell Park Cancer Institute

Department of Biostatistics & Bioinformatics

Elm & Carlton Streets

Buffalo, New York 14263

From: Bioc-devel <bioc-devel-bounces at r-project.org> on behalf of Sokratis Kariotis <s.kariotis at sheffield.ac.uk>
Sent: Thursday, October 26, 2017 4:02:53 AM
To: bioc-devel
Subject: [Bioc-devel] Accepted packages can't find each other and fail build

Hey all,

I created 2 packages that got accepted (pcxn and pcxnData) where pcxn
depends on the data coming from pcxnData. However, in the vignettes of
pcxnData I am using library(pcxn) to demonstrate what can you do with the
data. As a result both packages fail building in BioC 3.6 as they can't
find each other. In a previous pair of packages I am maintaining (pathprint
and pathprintGEOData) I could use the first library in the data package
vignette and building was fine. Is it necessary to remove library(pcxn)
from pcxnData to get them build? Thanks in advance!

Sokratis Kariotis
Scientific Programmer
Sheffield Institute for Translational Neuroscience
385a Glossop Rd, Sheffield, S10 2HQ

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