'Re: [Bioc-devel] rsvg on mac'

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List:       bioc-devel
Subject:    Re: [Bioc-devel] rsvg on mac
From:       "Obenchain, Valerie" <Valerie.Obenchain () RoswellPark ! org>
Date:       2018-05-16 2:45:10
Message-ID: BY2PR12MB000816CBD49126613554B7EFFF920 () BY2PR12MB0008 ! namprd12 ! prod ! outlook ! com
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Yes, when a new version appears on CRAN it is automatically picked up by the build \
machines.

Valerie

 On 05/14/2018 05:04 AM, Kevin Horan wrote:

Valerie,

    Sorry, I think my memory of what the actual problem was was wrong. I have spoken \
to the rsvg author and he has now fixed the build of rsvg in CRAN for OS X. So will \
that then just get automatically put on your machines, or else, would it now be \
possible to manually put it on? Sorry for all the confusion, and thanks for you help.

    ChemmineR is green now because I removed the functions requiring rsvg to get it \
through the release. They were new functions anyway.

Kevin

On 05/09/2018 03:25 PM, Obenchain, Valerie wrote:
Kevin,

I feel like we're not on the same page. We've had this discussion and both Herve and \
I tried to explain the situation:

  https://stat.ethz.ch/pipermail/bioc-devel/2018-February/012812.html

We do not build CRAN packages from source on the Windows and Mac build machines. If a \
CRAN binary is not available for one of your dependencies, e.g., rsvg, the best thing \
for you to do is contact the maintainer or post on the r-sig-mac mailing list:

  https://stat.ethz.ch/mailman/listinfo/r-sig-mac

However, ChemmineR is green on both release and devel build reports. I'm not sure why \
you are asking us (again) to install the rsvg system dependency on the Mac builders. \
Did I misunderstand what you wanted?

Valerie

On 05/09/2018 07:41 AM, Kevin Horan wrote:

    Now that this past bioc release is done, and R 3.5 is stable, would it be \
possible to install the "rsvg" package on your build machines? Thanks.

Kevin

On 02/19/2018 02:01 PM, Alexey Sergushichev wrote:
Valerie, thanks. Will try to ask there.

However, after looking through the mailing list it looks like R-devel builds for OS X \
aren't trivial and aren't part of CRAN...

--
Alexey

On Mon, Feb 19, 2018 at 9:05 PM, Obenchain, Valerie \
<Valerie.Obenchain@roswellpark.org<mailto:Valerie.Obenchain@roswellpark.org>> wrote: \
Hi,

There has been some discussion of the devel Mac binaries on the R-SIG-Mac mailing \
list. That list would be the best place to ask this question.

https://stat.ethz.ch/pipermail/r-sig-mac/2018-January/thread.html

Valerie

On 02/19/2018 08:32 AM, Alexey Sergushichev wrote:
Valerie,

Are there any estimates on how often CRAN OS X builds happen? There are still no \
builds for rsvg and other packages...

Thanks,
Alexey

On Wed, Feb 7, 2018 at 8:09 PM, Obenchain, Valerie \
<Valerie.Obenchain@roswellpark.org<mailto:Valerie.Obenchain@roswellpark.org>> wrote: \
Hi Kevin,

CRAN binaries for El Capitan in devel aren't available. You can see this on the rsvg \
landing page:

https://cran.r-project.org/web/packages/rsvg/index.html

Nothing we can do until CRAN makes them available.

Valerie

On 02/07/2018 08:29 AM, Kevin Horan wrote:

The ChemmineR build is failing on the mac due to a new dependency not
being available, the package "rsvg". Would it be possible to install
that on the mac build machine? Thanks.

http://bioconductor.org/checkResults/devel/bioc-LATEST/ChemmineR/merida2-install.html

Kevin

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