search for: robjects

...te 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 >>> f = robjects.r('''function(x) return(deparse(substitute(x)))''') >>> tuple(f(robjects.FloatVector(range(17)))) ('c(0, 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16)',) # length 1 >>> tuple(f(robjects.FloatVector...

...([%s],[%s]) )PivotTable ) a order by dlyprice_date" %(cds,bm,cds,bm)): d1.append(str(row[0])) v1.append(row[1]) v2.append(row[2]) t4=datetime.now() t1=datetime.now() print "Calculating" d1.pop(0) d1vec = robjects.StrVector(d1) v1vec = robjects.FloatVector(v1) v2vec = robjects.FloatVector(v2) r1 = r('Return.calculate(%s)' %v1vec.r_repr()) r2 = r('Return.calculate(%s)' %v2vec.r_repr()) tl = robjects.rlc.TaggedList([r1,r2],tags=('Geo','Nifty...

I am running into a wall getting my system to work with rcpp and inline. Following Dirk's advice on stackoverflow, I hope someone is able to help me. My steps were to install MinGW 32 bit first, then installing Rtools, I disabled MinGW's entry in the PATH. I am trying to get the following code to work: library(Rcpp) library(inline) body <- ' NumericVector xx(x); return wrap(

Hola, necesito compilar un programa de tipo source (Rstan) con c++ La propia web del programa indica como hacerlo con Rcpp. Sin embargo no consigo que funcione Rcpp ni con un ejemplo básico. He seguido las instrucciones que vienen en http://tonybreyal.wordpress.com/2011/12/07/installing-rcpp-on-windows-7-for-r-and-c-integration/ Tengo instalado Rtools y los paths correspondientes, pero no

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) s = robjects.r['fisher.test'](m) return s * Here the value of a=0,b=1,c=0 and d=1. so the matrix m should be like this [,1] [,2] [1,] 0 0 [2,] 1 1 But I am getting an error...

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...not). | > | > Are you linkingR against a system-wide LAPACK ? | > | > | > | > E............................................................................................. | > ====================================================================== | > ERROR: testEigen (rpy2.robjects.tests.testArray.MatrixTestCase) | > ---------------------------------------------------------------------- | > Traceback (most recent call last): | > File | > "/usr/local/lib/python2.6/dist-packages/rpy2-2.1.7_20101019-py2.6-linux-i686.egg/rpy2/robjects/tests/testArray.py",...

Dear all, When running function 'testQAReport()', which uses function 'buildVignettes()' to create a pdf-file I get the following error: > source("testQAReport.R") > testQAReport() Error in .get_package_metadata(pkgdir) : Files 'DESCRIPTION' and 'DESCRIPTION.in' are missing. Since I did not get this error in earlier versions of R, could you

...tched is used. The following problem occurs (user report): ----------------------- > Python 2.7 (r27:82500, Aug 07 2010, 16:54:59) [GCC] on linux2 > Type "help", "copyright", "credits" or "license" for more information. > >>> import rpy2.robjects as robjects > Traceback (most recent call last): > File "<stdin>", line 1, in <module> > File "/usr/local/lib64/python2.7/site-packages/rpy2/robjects/__init__.py", > line 12, in <module> import rpy2.rinterface as rinterface > File > "/u...

Duncan - (but sent to R-devel, for any other thoughts?) How do you envision RSPerl being used? Without having seen the details, I can think of playing with strings; is there a preferred incantation for stringification of R objects (serialization)? (actually, the main problem I'm having is that I know how I want to code something like: Robject <-

In Python, it is literally this easy: import rpy2.robjects as robjects robjects.r(""" source("C:/ YOUR R FILE GOES HERE ") """) Type the name of your R source code into this script and save it as a Python script (add the suffix .py), and then you can run by double-clicking. If you want to see the r...

...o 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({'pathways':Robjects.StrVector(Pathways), occurrences' : Robjects.FloatVector(Occurrences) }) pie = ggplot2.ggplot(dataf)+ \ ggplot2.aes_string(x='',fill='pathways',weight="amounts&quo...

...ce 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, > > > >...

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...t; /> Graph Function <input type="text" name="func1" <br /> <input type="submit" value="Select Subject" /> </form> Now the radio4.py file: # Import modules for CGI handling import cgi, cgitb from sympy import * import sys from rpy2.robjects.packages import SignatureTranslatedAnonymousPackage as STAP with open("bz2.R","r") as f: string=''.join(f.readlines()) etest = STAP(string,"etest") etest.etest(500) # Create instance of FieldStorage form = cgi.FieldStorage() # Get data from fields if for...

...OME path to my R-2.9 library build explicitly to RPy2's setup.py by means of an environment variable that is checked by the script. This resulted in an RPy2 installation properly linked to my R-2.9. However, on starting RPy2 in Python, I got this strange error: >>> from rpy2 import robjects Error in grep("(_US|_CA)", lcpaper) : 8 arguments passed to .Internal(grep) which requires 9 [...] RPy2 started up nevertheless, but failed to load the base packages, so that all standard functions were missing. Changing the "R" symlink in my search path to point to th...

...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 > > ``` > > I don't know rPython at all, but surely this is an rPython bug. When > the package is loaded by "library('rPython')", R is obviously > initialized. You don't need to query it to ask that. > > Th...

Hi all, I'm new to R and Rcpp, and I'm trying to learn Rcpp with the simplest code possible. My goal is to be able to call R functions from C++. The code I'm trying to run is: #include #include #include #include int main(int argc, char* argv[]) { Rcpp::NumericVector v(1); return 0; } It compiles and links fine. However, as soon as I run it, it segfaults. The following is

[Disclaimer: what is below reflects my understanding from reading the R source, others will correct where deemed necessary] On 1/2/10 12:00 PM, r-devel-request at r-project.org wrote: > > Hello, > > We are currently making lots of changes to Rcpp (see the open Rcpp > mailing list if interested [1] in the details). > > We are now using [2] R_PreserveObject and R_ReleaseObject

Hi again, following my previous post on RCurl, I cannot install Rcpp either: g++ -m32 -I/home/renaud/bin/R/2.15/lib64/R/include -I/home/renaud/bin/R/2.15/lib64/R/include/i386 -DNDEBUG -I../inst/include/ -I/usr/local/include -fpic -g -O2 -c r_cast.cpp -o r_cast.o g++ -m32 -shared -L/usr/local/lib64 -o Rcpp.so Date.o DateVector.o Datetime.o DatetimeVector.o Dimension.o DottedPair.o