[Bioc-devel] Unit tests pass locally but fail on Bioconductor machines

Christian Holland cho||@nd2408 @end|ng |rom gm@||@com
Tue Apr 7 13:22:33 CEST 2020

Hi there,

the unit tests (implemented with testthat) of my package (https://github.com/saezlab/dorothea <https://github.com/saezlab/dorothea>) run smoothly on local machines (tested for Linux, Windows and macOS). However, on the Bioconductor machines (both Linux and Window) a particular test fails. The feature that distinguish this particular test from all other (that passed without any problems) is the use of the ExpressionSet class from the Biobase package. Locally I am using the Biobase version 2.46.0.

You can see the build output from Bioconductor here: http://bioconductor.org/spb_reports/dorothea_buildreport_20200407063358.html <http://bioconductor.org/spb_reports/dorothea_buildreport_20200407063358.html>

Is it possible that this error is somehow related to the used R Version? Locally I am still using 3.6.2 but if I understand correctly the package is build and checked on Bioconductor machines with R version 4.0. So far I refrained from installing the development version of R4.0 as it crashed RStudio for a colleague of mine.

Many thanks for your support.


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