[Bioc-devel] Build error due to TensorFlow installation

Simon Dirmeier @|mon@d|rme|er @end|ng |rom web@de
Tue Sep 3 18:11:42 CEST 2019

Hi Lori,

thanks for the reply.

> In general we never recommended automatically installing anything on a
> users system without them knowing (ie.� You shouldn't be installing
> modules and packages in the onLoad and this should be removed) It
> should be included in the README and as an�INSTALL file included
> in�the package top level directory.

I see, thanks! I agree it's kinda dodgy but I didn't know a better way
to pass the BioC checks. I changed it accordingly.

> Any needed module or system dependency should be assumed to be
> installed correctly on a users system�and if you need the builders to
> have something installed a request made via this mailing list (Please
> let us know if you think something is missing and needs to be
> installed on the daily builders�- we would generally then look for the
> INSTALL file on the git repository for installation instructions if it
> was justifiable)

Do you think it would be possible to install TensorFlow and
TensorFlow-Probability on the builders? I'd assume that many would
profit from that.

Best regards,


> Right now tensorflow is unavailable on our windows server (tokay1)�as
> we have not updated to python 3 (but will be in the near future)� The
> windows error can be ignored for now.
> 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 using r-project.org> on behalf of
> Simon Dirmeier <simon.dirmeier using web.de>
> *Sent:* Monday, September 2, 2019 6:08:45 AM
> *To:* bioc-devel using r-project.org <bioc-devel using r-project.org>
> *Subject:* [Bioc-devel] Build error due to TensorFlow installation
> Dear all,
> since I replaced some old C++ code with TensorFlow I am getting some
> build errors on merida1 and tokay1 regarding installation (even though I
> install TF and TF Probability during /.onLoad/)
> http://bioconductor.org/checkResults/devel/bioc-LATEST/netReg/merida1-buildsrc.html
> Does anyone know how I can fix this or did anyone use TF with
> Bioconductor so far?
> Many thanks in advance.
> Best,
> Simon
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