The packages eiR and ChemmineOB are failing to build because nebbiolo1
is missing the packages RUnit and RSQLite. Could those be installed
please? Thank you.
https://master.bioconductor.org/checkResults/3.17/bioc-LATEST/eiR/nebbiolo1-checksrc.html
a script to run the unit tests run_tests.R then something like
R -d valgrind -f run_tests.R
may be productive. valgrind is slow so it pays to narrow the problem
down
as much as possible.
Maartin
On 2/8/21, 12:43 PM, "Bioc-devel on behalf of Kevin Horan" <
bioc-devel-boun...@
I have a package which randomly segfaults when running my unit
tests only on windows i386, but never on x64, or any other OS. I can't
imagine there are many out there still running i386 systems are there?
Is it possible to just disable the i386 build on bioconductor so that
the tests
.
Kevin
On 4/23/20 12:52 PM, Hervé Pagès wrote:
On 4/23/20 12:45, Hervé Pagès wrote:
On 4/23/20 10:45, Kevin Horan wrote:
Bioc,
The build of ChemmineOB is failing on windows, which is also causing
3 other packages to fail (ChemmineR, eiR, and fmcsR). I was able to
build the package on my own
Bioc,
The build of ChemmineOB is failing on windows, which is also causing 3
other packages to fail (ChemmineR, eiR, and fmcsR). I was able to build
the package on my own windows machine (Windows Server 2012 R2 Standard)
without any error. I used R devel. The content of this package has not
.
Kevin Horan
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My package, ChemmineR, is failing to build because of a missing
package, rsvg. This package was there during the last release cycle, and
is still present on the release build machines. I'm just wondering if
this package is going to return or not? It's been about a week since the
build
> 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 i
>> 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
>> <https://cran.r-project.org/web/
/instabilities when installing
new components. Given that our resources are limited, it wouldn't
make much sense that we do this for those CRAN packages for which
the binaries are only temporarily unavailable.
Cheers,
H.
On 02/13/2018 12:56 PM, Kevin Horan wrote:
Valerie,
Ok, I understand
and really only serves a purpose in
> this window of time where binaries are not available for devel.
>
> cc'ing Herve in case he has more to add.
>
>
> Valerie
>
>
>
>
> On 02/12/2018 12:25 PM, Kevin Horan wrote:
>> Valerie,
>> I'm not sure I und
reporting the problem. It is not clear to me why do you
> need a Makefile to build your vignette in first place, could you maybe
> explain the motivation behind it?
>
> Cheers,
> Andrzej
>
>
> On Wed, Feb 7, 2018 at 5:37 PM, Kevin Horan
> <kho...@globalrecordings.net <
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 depende
The release version of ChemmineR is failing on windows. It seems to be a
build script issue though, possibly something on your side. The package
was building fine a few weeks ago and I have not modified it. Can you
please have a look? Thanks.
"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/bin/Rscript" -e
The release version of ChemmineR is failing on windows. It seems to be a
build script issue though, possibly something on your side. The package
was building fine a few weeks ago and I have not modified it. Can you
please have a look? Thanks.
"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/bin/Rscript" -e
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
The release version of ChemmineR is failing on windows. It seems to be a
build script issue though, possibly something on your side. The package
was building fine a few weeks ago and I have not modified it. Can you
please have a look? Thanks.
"C:/Users/BIOCBU˜1/BBS-3˜1.6-B/R/bin/Rscript" -e
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
be fixed. Please re-clone your repository.
Best,
Nitesh
On Jan 8, 2018, at 8:39 PM, Kevin Horan <kho...@cs.ucr.edu> wrote:
Nitesh,
Sorry, just saw your email now. You can go ahead and make those changes.
Thanks for all your help.
Kevin
On 01/07/2018 11:22 AM, Turaga, Nitesh wrot
RELEASE_3_6 branch
commit e3a8d2122a65305c478276e538faace277ea9ed6
Author: Kevin Horan <kho...@cs.ucr.edu>
Date: Fri Jun 30 20:12:52 2017 +
Merge branch 'master' into devel
git-svn-id:
file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/ChemmineR@130816
bc3
ea9ed6.
Please check. You will need to overlay all the commits including the new
release on top of this (RELEASE_3_6).
If you have any questions further on this, please ask before pushing to
Bioconductor.
Best,
Nitesh
On Jan 3, 2018, at 7:10 PM, Kevin Horan <kho...@cs.ucr.edu> wr
row and send you an email.
Best,
Nitesh
On Jan 3, 2018, at 4:28 PM, Kevin Horan <kho...@cs.ucr.edu> wrote:
Nitesh,
I tried to re-construct the repo starting from what is left in the SVN
repository, but I couldn't get all the branches to come over and it just
generally looks t
that it’s public and other
maintainers/users know that there is an issue with your package.
Best,
Nitesh
On Jan 3, 2018, at 2:31 PM, Kevin Horan <kho...@globalrecordings.net> wrote:
Nitesh,
I am one of the maintainers for the ChemmineR package on bioconductor. I
have a bad duplicate
The package ChemmineOB depends on the external library OpenBabel. There
is now a new version of it, version 2.4.1. Could you please install this
on all three operating systems (just for devel )? You can find general
OpenBabel build instructions here
Can you please disable the windows build for eiR in the development
branch? Thanks.
Kevin Horan
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:
dlopen(lib_name.c_str(), RTLD_LAZY | RTLD_GLOBAL)
Kevin
On 03/26/2013 06:54 AM, Dirk Eddelbuettel wrote:
On 25 March 2013 at 12:50, Kevin Horan wrote:
| I posted this in openbabel-devel but didn't get much help, so hopefully
| someone here can help. I don't think its too openbabel
with it. Because of this, 2.3.2 failed in the same way as 2.2.3 (the
version actually installed), but for a different reason (It couldn't
find the modules directory ). Actually installing 2.3.2 fixed the problem.
Kevin
On 03/27/2013 11:20 AM, Simon Urbanek wrote:
On Mar 27, 2013, at 1:02 PM, Kevin Horan
I posted this in openbabel-devel but didn't get much help, so hopefully
someone here can help. I don't think its too openbabel specific.
I would like to make use of open babel from within the R language.
Initially I just need to do some format conversions, but may expand the
usage to other
I am developing an R package, eiR, which depends on another C library,
GNU scientific library (GSL). In order to make life easier for the user,
it would be nice to not have this as an external dependency, thus I
would like to wrap this library in another R package, say GSLR for
example.
and easiest way,
but I just wanted to see if there was any way to make it easier for the
user. So, any other suggestions about how this could be accomplished?
Thanks.
Kevin
On 03/12/2013 05:26 AM, Simon Urbanek wrote:
Kevin,
On Mar 11, 2013, at 5:20 PM, Kevin Horan wrote:
I am developing an R
On 03/12/2013 09:55 AM, Simon Urbanek wrote:
On Mar 12, 2013, at 12:30 PM, Kevin Horan wrote:
Thanks for your input. To clarify, I don't need to use any part of GSL in
my R code, nor do I wish to make any part of it accessible to users of eiR. I
need it to compile other C/C++ code (LSH
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