On Sun, Aug 23, 2015 at 08:01:08AM +0200, Mark van der Loo wrote:
Afaik, openmp is available on windows. According to writing R
extensions:
There is nothing to say what version of OpenMP is supported: version
3.0 (May 2008) is supported by recent versions of the Linux, _Windows_
I did some poking around with GDB and confirmed that the advice of
setting R_CStackLimit after init, which is echoed in the threading
issues section of the R-exts help document, isn't entirely useful
because init apparently loads the main package which trips over the
broken stack checking.
Stack
On 24 August 2015 at 11:02, Joshua N Pritikin wrote:
| Currently, we have a configure script for package OpenMx that only
| enables openmp if gcc is the compiler (OS X only). Nice to hear that
| openmp is supported on Windows.
Interesting that you opt to ignore OpenMP support on the platform
This initially came to my attention with this question on StackOverflow (
http://stackoverflow.com/questions/32139378/travis-ci-failing-to-install-bioconductor?noredirect=1#comment52184421_32139378).
I have noticed that my own bioconductor package has continued to fail over
the past several days
On 24 August 2015 at 09:14, Joshua N Pritikin wrote:
| On Sun, Aug 23, 2015 at 08:01:08AM +0200, Mark van der Loo wrote:
| Afaik, openmp is available on windows. According to writing R
| extensions:
|
| There is nothing to say what version of OpenMP is supported: version
| 3.0
On Mon, Aug 24, 2015 at 09:29:34AM -0500, Dirk Eddelbuettel wrote:
On 24 August 2015 at 09:14, Joshua N Pritikin wrote:
| So I take that answer as, No, CRAN cannot possibly enable openmp for
| binary builds. Is that correct?
The CRAN maintainers are not withholding OpenMP from you because
On Mon, Aug 24, 2015 at 10:14:10AM -0500, Dirk Eddelbuettel wrote:
On 24 August 2015 at 11:02, Joshua N Pritikin wrote:
| Currently, we have a configure script for package OpenMx that only
| enables openmp if gcc is the compiler (OS X only). Nice to hear that
| openmp is supported on
On 08/24/2015 07:37 AM, Charles Determan wrote:
This initially came to my attention with this question on StackOverflow (
http://stackoverflow.com/questions/32139378/travis-ci-failing-to-install-bioconductor?noredirect=1#comment52184421_32139378).
I have noticed that my own bioconductor package
Dirk, I pick one of the packages you suggested and asked my colleague to
test it on MacOS X. As you can see, it did not use more than 1 CPU. I
inspected the Makevars and found that it relied on
SHLIB_OPENMP_CXXFLAGS. This variable is set to -fopenmp on my laptop.
Does CRAN add -fopenmp to
The way several packages have implemented OpenMP is to wrap it in pre-compiler
statements i.e.:
// Include openMP if the compiler supports it
#ifdef _OPENMP
#include omp.h
#endif
This way, all compilers can build the code and those that have OpenMP (even
modified versions of clang:
On Mon, Aug 24, 2015 at 11:29 AM, Bjørn-Helge Mevik
b.h.me...@usit.uio.no wrote:
arnaud gaboury arnaud.gabo...@gmail.com writes:
- Intel MKL: this is part of Intel Parallel Studio and is a paid
software. Now, there is the MKL package distributed by
Revolutionanalytics, but I am not certain
I want to deploy some R web apps with a clean separate of concerns: R
code // applications.
My choice for the R part is to use one of these two tools:
- deployR[1]
- OpenCPU[2]
and JavaScript for web apps.
OS is Fedora 22 and web server Nginx.
I have been reading documentation about these two
On 24 August 2015 at 11:43, arnaud gaboury wrote:
| On Mon, Aug 24, 2015 at 11:29 AM, Bjørn-Helge Mevik
| b.h.me...@usit.uio.no wrote:
| arnaud gaboury arnaud.gabo...@gmail.com writes:
|
| - Intel MKL: this is part of Intel Parallel Studio and is a paid
| software. Now, there is the MKL
On Mon, Aug 24, 2015 at 1:42 PM, Dirk Eddelbuettel e...@debian.org wrote:
On 24 August 2015 at 11:43, arnaud gaboury wrote:
| On Mon, Aug 24, 2015 at 11:29 AM, Bjørn-Helge Mevik
| b.h.me...@usit.uio.no wrote:
| arnaud gaboury arnaud.gabo...@gmail.com writes:
|
| - Intel MKL: this is part
On 24 August 2015 at 13:46, arnaud gaboury wrote:
| On Mon, Aug 24, 2015 at 1:42 PM, Dirk Eddelbuettel e...@debian.org wrote:
|
| You may be able to switch at will _after_ R has been built and installed.
|
| something like:
| # update-alternatives --config
| ?
| Reference to this blog[0]
Another comment resulting from my testing of pqR on Windows...
With the Rtools implementation of OpenMP, threads started with an
OpenMP parallel construct have the state of the FPU reset so that
long double arithmetic is actually done only to double precision.
The problem can be seen with the
One thing I forgot in my previous message about problems with
psignal.c on Rtools for Windows...
One also needs to change src/gnuwin32/fixed/h/psignal.h
At a minimum, one needs the following changes:
@@ -122,8 +129,8 @@ typedef struct
/* Prototype stuff
Hi Martin,
Don't know the reason for this limitation. Here is a possible workaound:
## Work around the only 100 arguments are allowed error
## in base::sprintf(). Only works with 'fmt' of length 1.
sprintf2 - function(fmt, ...)
{
MAX_NVAL - 99L
args - list(...)
if (length(args) =
Ryan,
if you read the piece you quoted from more carefully, you'll notice it says
Rf_initialize_R - which is quite critical in this matter.
Cheers,
Simon
On Aug 24, 2015, at 9:18 AM, Ryan C Metzger metzger...@gmail.com wrote:
I did some poking around with GDB and confirmed that the advice
On Aug 24, 2015, at 4:28 AM, arnaud gaboury arnaud.gabo...@gmail.com wrote:
I want to deploy some R web apps with a clean separate of concerns: R
code // applications.
My choice for the R part is to use one of these two tools:
- deployR[1]
- OpenCPU[2]
and JavaScript for web apps.
OS
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