search for: rpy2

I need to install rpy2 on RHEL6. The version of R in the 6 repos is 3.0, and rpy2 does not work with that version. I installed R 3.3.3 following the directions here: https://oguya.ch/posts/2017-03-18-building-R-on-rhel-6/. But even with 3.3.3 it's still failing. Using pip it fails with: /usr/local/lib64/R/lib/libR.a...

Dear list, there seems to be a problem with the standard location of R?s 64-bit libs at least under openSUSE. I had two user questions regarding the compilation of rpy2 for 64-bit systems. Personally I don`t know rpy2 but maybe someone on this list can decide if the mistake lies on R`s side or on rpy2?s side or in between. R-devel is installed in these cases, I asked. Latest R-base or R-patched is used. The following problem occurs (user report): --------------...

Hi - I am having trouble installing rpy2. I have already compiled R as a shared library, but I do not have admin privileges on so I am trying to install rpy2 with: pip install -user rpy2 but I am getting the following error: ======================================== ./rpy/rinterface/_rinterface.c:86:31: fatal error: readline/readline.h:...

> On Jul 20, 2017, at 7:53 AM, Larry Martell <larry.martell at gmail.com> wrote: > > I need to install rpy2 on RHEL6. The version of R in the 6 repos is > 3.0, and rpy2 does not work with that version. I installed R 3.3.3 > following the directions here: > https://oguya.ch/posts/2017-03-18-building-R-on-rhel-6/. But even with > 3.3.3 it's still failing. Using pip it fails with: > >...

Hi While installing RPy2, I had curious problems which, if I traced them back correctly, have their root in the way that libR.so find the R installation directory. I wonder if this might be a subtle bug that only causes problems when one has several versions of R on one system but then can be very annoying and cause very s...

Hello, I have a problem with package "python-rpy2" with Debian Wheezy repository. I use this repo : deb http://cran.r-project.org/bin/linux/debian wheezy-cran3/ This package depends on "python-singledispatch" but it doesn't exist in official Debian repo... Could you help me to fix this issue ? Thanks a lot,

...read about current (ie R 2.12.0) versions for all Ubuntu releases. This is based on builds from the package sources of my (always current) Debian packages. They work great -- I use them myself at work. I know that Vincent and Michael also provide builds of rpy; if you ask nicely they also rebuild rpy2 whenever I update it in Debian (which is essentially whenever Laurent releases). I'll CC the r-sig-debian list which both of them read. Cheers, Dirk | Thanks, | Aman | | On Tue, Oct 19, 2010 at 5:26 PM, Laurent Gautier <lgautier at gmail.com> wrote: | | > On 19/10/10 23:09, Am...

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Hi, I am trying to compile R with the command below in order to install rpy2. ./configure --prefix=/usr/local/R/R-2.9.2 --with-gnu-ld --with-cairo --with-x --enable-R-shlib However, error the I have gotten was: /usr/bin/ld: CConverters.o: relocation R_X86_64_32S against `R_FunTab' can not be used when making a shared object; recompile with -fPIC CConverters.o: could...

Hi all, I am new to python, R and rpy2. I having few errors when I am using 'fisher.test' function where I am struck now. Please help to fix these bugs. My code for fisher.test goes this way *from rpy2 import * import rpy2.robjects as robjects def fisherExact(a,b,c,d): v = [a,b,c,d] m = robjects.r['matrix'](v,2,2)...

(I asked an earlier question on the rpy2 installation to the rpy2 list, the solution there was to edit the setup.py script, but this looks beyond what I can do unless someone tells me exactly what to modify). I have R 2.8.1 on 2 machines running ubuntu 8.04 (packages R-base and R-base-dev, among others, installed using Synaptic) and whi...

Hi, I have some trouble to get the Python bindings RPy2 running with the latest release of R. I'm using Windows. The reason is, that RPy2 looks at certain places for R.dll, as $R_HOME/bin and $R_HOME/lib, but not at $R_HOME/bin/i386 where the dll is located on my machine. So I suspect that the directory structure has changed and the RPy2 team did...

rPython appears to provide an interface from R to Python by embedding Python and I'd think that it can safely assume that R has been initialized, but might not be the point here. The issue is that a Python package embedding itself R (here rpy2) appears to have no way to know that earlier in the life of the process R was initialized. 2015-05-03 19:48 GMT-04:00 Duncan Murdoch <murdoch.duncan at gmail.com>: > On 03/05/2015 7:02 PM, Laurent Gautier wrote: > > Beside the possible argumentation that with an API elegance and &g...

...the vector [2] and can be traced to the use of deparse(substitute(x)) and deparse(substitute(y)) in the R code. What seems to be happening is that the deparse(substitute(x)) call gives a character vector of length > 1 as soon as x is "not so small". To demonstrate this, I am using rpy2 (as the problem was found when using it http://sourceforge.net/mailarchive/forum.php?thread_name=4B043CA1.9050500%40salilab.org&forum_name=rpy-list ), but it will likely be present in other bridges to R as well. #using R-2.10 and rpy2-2.1.dev >>> import rpy2.robjects as robjects &...

...he instalation? I think then that, once I have the source, I just run: apt-get source r-base again and then: ./configure ./configure --enable-R-shlib (I already have X11 installed) Sound correct? Thanks a million! -- View this message in context: http://r.789695.n4.nabble.com/enable-shlib-for-RPy2-where-is-source-file-tp3395836p3395836.html Sent from the R help mailing list archive at Nabble.com.

...me taken by R:0:00:05.572084 Total time elapsed:0:00:05.596288 On Windows Time taken by DB:0:00:00.112000 Time taken by R:0:00:02.355000 Total time elapsed:0:00:02.467000 Why is there such a huge difference in the time taken by R on the two platforms? Am I doing something wrong? It's my first Rpy2 code so I guess it's badly written. I'm loading the following libraries: 'PerformanceAnalytics','timeSeries','fPortfolio','fPortfolioBacktest' I'm using Rpy2 2.1.0 and R 2.11 Regards Abhijit Bera [[alternative HTML version deleted]]

...f __intptr_t_defined typedef int intptr_t; # define __intptr_t_defined # endif typedef unsigned int uintptr_t; #endif ) Is this expected ? Shouldn't R rely on the definition in stdint.h rather than define its own ? (report for the issue: https://bitbucket.org/rpy2/rpy2/issues/389/failed-to-compile-with-python-360-on-32 ) Laurent [[alternative HTML version deleted]]

...enience might sometimes be superior to necessity, the suggested pattern ("every program, including R itself, keeping its own flag") does no work too well when the nested embedding of R is involved. A concrete example is: ``` $ R -q > library('rPython'); python.exec('import rpy2.robjects') R is already initialized ``` https://bitbucket.org/rpy2/rpy2/issue/278/r-in-python-via-rpy2-in-r-via-rpython#comment-17843761 2015-05-03 18:12 GMT-04:00 Duncan Murdoch <murdoch.duncan at gmail.com>: > On 03/05/2015 4:34 PM, Laurent Gautier wrote: > > Hi, > > &...

I am trying to create a pie chart using rpy2 of the following data Pathway Occurrences A 10% B 50% C 20% E 10% filename = './testing.png' grdevices = importr('grDevices') rdevices.png(file=filename, width=1200, height=800) dataf = Robjects.DataFrame({'pathwa...

..._to_common_lisp_translator/ > > I haven't found a binding for Haskell. Nor for Scheme. > > Do you know of any bindings of R to functional languages? It does not have to be a functional language. To see it in use within a some-language-to-R bridge, you can check the source in JRI, rpy2. I can mostly speak for rpy2, and the way it is done there relies on both R and Python's GC. Creating a anonymous R object presented to the Python world is first "R_preserved" (from garbage collection from R) then using Python's reference counting mechanism, calling an "R_...