[Bioc-devel] Build error due to TensorFlow installation

Pages, Herve hp@ge@ @end|ng |rom |redhutch@org
Wed Sep 4 16:53:37 CEST 2019

Hi Simon,

On 9/3/19 09:11, Simon Dirmeier wrote:

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.

As Lori mentioned at the end of her email (see below), we can't make the tensorflow Python module available on our Windows builders at the moment because we need to update Python to Python 3 on these machines first (AFAIK tensorflow is only available for Python 3 on Windows). This is something that we are currently working on.

As for the Mac builders, we have tensorflow there but unfortunately it's an old version because recent versions of are broken on El Capitan (this is the Mac OS version that, for various reasons, we are stuck with at the moment). This prevents us from installing the tensorflow_probability module which requires a recent version of tensorflow.

The tensorflow and tensorflow_probability modules are available on our Linux builders.

All this means that if you replace some old C++ code with TensorFlow then we will need to mark your package as unavailable on Windows and Mac, at least for now. Sorry. I wonder if there was something wrong with this old C++ code. I would recommend that you stick to it if you can.



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><mailto:bioc-devel-bounces using r-project.org> on behalf of
Simon Dirmeier <simon.dirmeier using web.de><mailto:simon.dirmeier using web.de>
*Sent:* Monday, September 2, 2019 6:08:45 AM
*To:* bioc-devel using r-project.org<mailto:bioc-devel using r-project.org> <bioc-devel using r-project.org><mailto: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/)


Does anyone know how I can fix this or did anyone use TF with
Bioconductor so far?

Many thanks in advance.



������� [[alternative HTML version deleted]]

Bioc-devel using r-project.org<mailto:Bioc-devel using r-project.org> mailing list

This email message may contain legally privileged and/or confidential
information. If you are not the intended recipient(s), or the employee
or agent responsible for the delivery of this message to the intended
recipient(s), you are hereby notified that any disclosure, copying,
distribution, or use of this email message is prohibited. If you have
received this message in error, please notify the sender immediately
by e-mail and delete this email message from your computer. Thank you.

        [[alternative HTML version deleted]]

Bioc-devel using r-project.org<mailto:Bioc-devel using r-project.org> mailing list

Hervé Pagès

Program in Computational Biology
Division of Public Health Sciences
Fred Hutchinson Cancer Research Center
1100 Fairview Ave. N, M1-B514
P.O. Box 19024
Seattle, WA 98109-1024

E-mail: hpages using fredhutch.org<mailto:hpages using fredhutch.org>
Phone:  (206) 667-5791
Fax:    (206) 667-1319

	[[alternative HTML version deleted]]

More information about the Bioc-devel mailing list