[Rpy] load R-library via rpy2
Hi, I am sorry about this trivial question, but what is the obvious way to import a library in R in via rpy2? If I do the following in R: > library(epiR) Package epiR 0.9-14 is loaded Type help(epi.about) for summary information > What is the equivalent in rpy2? Windows XP Python 2.5 rpy2 2.0.0 R 2.8.0 Thanks for you help! Cheers Oliver-- Check out the new SourceForge.net Marketplace. It is the best place to buy or sell services for just about anything Open Source. http://p.sf.net/sfu/Xq1LFB___ rpy-list mailing list rpy-list@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/rpy-list
Re: [Rpy] load R-library via rpy2
I forgot to mention that I tried the following with rpy2, but without success: >>> import rpy2.robjects as robjects >>> robjects.r['library(epiR)'] Traceback (most recent call last): File "", line 1, in robjects.r['library(epiR)'] File "C:\Python25\Lib\site-packages\rpy2\robjects\__init__.py", line 503, in __getitem__ res = rinterface.globalEnv.get(item) LookupError: 'library(epiR)' not found Cheers Oliver Oliver Tomic wrote on 07.01.2009 10:18:28: > Hi, > > I am sorry about this trivial question, but what is the obvious way > to import a library in R in via rpy2? > > If I do the following in R: > > > library(epiR) > Package epiR 0.9-14 is loaded > Type help(epi.about) for summary information > > > > > What is the equivalent in rpy2? > > > Windows XP > Python 2.5 > rpy2 2.0.0 > R 2.8.0 > > Thanks for you help! > > Cheers > Oliver > -- > Check out the new SourceForge.net Marketplace. > It is the best place to buy or sell services for > just about anything Open Source. > http://p.sf.net/sfu/Xq1LFB___ > rpy-list mailing list > rpy-list@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/rpy-list-- Check out the new SourceForge.net Marketplace. It is the best place to buy or sell services for just about anything Open Source. http://p.sf.net/sfu/Xq1LFB___ rpy-list mailing list rpy-list@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/rpy-list
Re: [Rpy] load R-library via rpy2
Hi Oliver,
'(' is not '['.
Check
http://rpy.sourceforge.net/rpy2/doc/html/introduction.html#calling-r-functions
then
http://rpy.sourceforge.net/rpy2/doc/html/robjects.html?highlight=evaluate#strings-as-r-code
and eventually
http://rpy.sourceforge.net/rpy2/doc/html/robjects.html?highlight=evaluate#r-the-instance-of-r
L.
Oliver Tomic wrote:
> I forgot to mention that I tried the following with rpy2, but without
> success:
>
> >>> import rpy2.robjects as robjects
> >>> robjects.r['library(epiR)']
>
> Traceback (most recent call last):
> File "", line 1, in
> robjects.r['library(epiR)']
> File "C:\Python25\Lib\site-packages\rpy2\robjects\__init__.py", line
> 503, in __getitem__
> res = rinterface.globalEnv.get(item)
> LookupError: 'library(epiR)' not found
>
> Cheers
> Oliver
>
>
> Oliver Tomic wrote on 07.01.2009 10:18:28:
>
> > Hi,
> >
> > I am sorry about this trivial question, but what is the obvious way
> > to import a library in R in via rpy2?
> >
> > If I do the following in R:
> >
> > > library(epiR)
> > Package epiR 0.9-14 is loaded
> > Type help(epi.about) for summary information
> > >
> >
> >
> > What is the equivalent in rpy2?
> >
> >
> > Windows XP
> > Python 2.5
> > rpy2 2.0.0
> > R 2.8.0
> >
> > Thanks for you help!
> >
> > Cheers
> > Oliver
> >
> --
> > Check out the new SourceForge.net Marketplace.
> > It is the best place to buy or sell services for
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> > rpy-list mailing list
> > rpy-list@lists.sourceforge.net
> > https://lists.sourceforge.net/lists/listinfo/rpy-list
>
>
>
>
> --
> Check out the new SourceForge.net Marketplace.
> It is the best place to buy or sell services for
> just about anything Open Source.
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>
>
>
>
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Re: [Rpy] load R-library via rpy2
Thank you Laurent! This did it, now it works!
Cheers Oliver
Laurent Gautier wrote on 07.01.2009 11:08:39:
> Hi Oliver,
>
> '(' is not '['.
>
> Check
>
http://rpy.sourceforge.net/rpy2/doc/html/introduction.html#calling-r-functions
> then
> http://rpy.sourceforge.net/rpy2/doc/html/robjects.html?
> highlight=evaluate#strings-as-r-code
> and eventually
> http://rpy.sourceforge.net/rpy2/doc/html/robjects.html?
> highlight=evaluate#r-the-instance-of-r
>
>
> L.
>
>
>
> Oliver Tomic wrote:
> > I forgot to mention that I tried the following with rpy2, but without
> > success:
> >
> > >>> import rpy2.robjects as robjects
> > >>> robjects.r['library(epiR)']
> >
> > Traceback (most recent call last):
> > File "", line 1, in
> > robjects.r['library(epiR)']
> > File "C:\Python25\Lib\site-packages\rpy2\robjects\__init__.py", line
> > 503, in __getitem__
> > res = rinterface.globalEnv.get(item)
> > LookupError: 'library(epiR)' not found
> >
> > Cheers
> > Oliver
> >
> >
> > Oliver Tomic wrote on 07.01.2009 10:18:28:
> >
> > > Hi,
> > >
> > > I am sorry about this trivial question, but what is the obvious way
> > > to import a library in R in via rpy2?
> > >
> > > If I do the following in R:
> > >
> > > > library(epiR)
> > > Package epiR 0.9-14 is loaded
> > > Type help(epi.about) for summary information
> > > >
> > >
> > >
> > > What is the equivalent in rpy2?
> > >
> > >
> > > Windows XP
> > > Python 2.5
> > > rpy2 2.0.0
> > > R 2.8.0
> > >
> > > Thanks for you help!
> > >
> > > Cheers
> > > Oliver
> > >
> >
>
--
> > > Check out the new SourceForge.net Marketplace.
> > > It is the best place to buy or sell services for
> > > just about anything Open Source.
> > >
http://p.sf.net/sfu/Xq1LFB___
> > > rpy-list mailing list
> > > rpy-list@lists.sourceforge.net
> > > https://lists.sourceforge.net/lists/listinfo/rpy-list
> >
> >
> >
> >
> >
>
--
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> >
> >
> >
> >
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>
>
>
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[Rpy] calling R-functions
Hi again,
I am reading the documentation but I must be missing something. When I try
this from the documentation everything works fine:
import rpy2.robjects as robjects
rsum = robjects.r['sum']
res = rsum(robjects.IntVector([1,2,3]))
Here, however I get an syntax error:
import rpy2.robjects as robjects
robjects.r('library(epiR)')
epiccc = robjects.r['epi.ccc']
tmp = epiccc(robjects.IntVector([1,2,3]), robjects.IntVector([1,2,3]), ci =
"z-transform", conf.level = 0.95)
SyntaxError: keyword can't be an expression
Here is the corresponding R-code that works:
library(epiR)
data <- read.table("C:/Work/PanelCheck/CONCORDANCE/Gele_FF_hardness.txt",
header=TRUE)
L1 <- data$B2
L2 <- data$B3
tmp <- epi.ccc(L1, L2, ci = "z-transform", conf.level = 0.95)
I guess this must be something trivial again, but just can't see where it
is going wrong.
Thanks for your help!
Cheers
Oliver
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Re: [Rpy] calling R-functions
Oliver Tomic wrote:
> Hi again,
>
> I am reading the documentation but I must be missing something. When I
> try this from the documentation everything works fine:
>
> import rpy2.robjects as robjects
> rsum = robjects.r['sum']
> res = rsum(robjects.IntVector([1,2,3]))
>
>
>
> Here, however I get an syntax error:
>
>
> import rpy2.robjects as robjects
> robjects.r('library(epiR)')
> epiccc = robjects.r['epi.ccc']
> tmp = epiccc(robjects.IntVector([1,2,3]), robjects.IntVector([1,2,3]),
> ci = "z-transform", conf.level = 0.95)
conf.level means "the attribute 'level' in the object 'conf'".
> SyntaxError: keyword can't be an expression
>
>
> Here is the corresponding R-code that works:
>
> library(epiR)
> data <-
> read.table("C:/Work/PanelCheck/CONCORDANCE/Gele_FF_hardness.txt",
> header=TRUE)
> L1 <- data$B2
> L2 <- data$B3
> tmp <- epi.ccc(L1, L2, ci = "z-transform", conf.level = 0.95)
>
>
> I guess this must be something trivial again, but just can't see where
> it is going wrong.
>
> Thanks for your help!
>
> Cheers
> Oliver
>
>
>
>
>
>
> --
> Check out the new SourceForge.net Marketplace.
> It is the best place to buy or sell services for
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>
>
>
>
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Re: [Rpy] load R-library via rpy2
Scrive Oliver Tomic :
> I forgot to mention that I tried the following with rpy2, but without
> success:
>
> >>> import rpy2.robjects as robjects
> >>> robjects.r['library(epiR)']
Hello Oliver,
try this:
[code]
import rpy2.robjects as robjects
robjects.r.library("epiR")
[/code]
or, more like the code you wrote:
robjects.r['library']("epiR")
hope this helps,
cheers
Anne
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Re: [Rpy] calling R-functions
Thanks again, Laurent and Anne!
This should have been obvious to me. I guess my brain doesn't function
propoerly today. Maybe it is time to go home.
Thanks again!
Cheers
Oliver
Laurent Gautier wrote on 07.01.2009 14:34:19:
> Oliver Tomic wrote:
> > Hi again,
> >
> > I am reading the documentation but I must be missing something. When I
> > try this from the documentation everything works fine:
> >
> > import rpy2.robjects as robjects
> > rsum = robjects.r['sum']
> > res = rsum(robjects.IntVector([1,2,3]))
> >
> >
> >
> > Here, however I get an syntax error:
> >
> >
> > import rpy2.robjects as robjects
> > robjects.r('library(epiR)')
> > epiccc = robjects.r['epi.ccc']
> > tmp = epiccc(robjects.IntVector([1,2,3]), robjects.IntVector([1,2,3]),
> > ci = "z-transform", conf.level = 0.95)
>
> conf.level means "the attribute 'level' in the object 'conf'".
>
>
>
> > SyntaxError: keyword can't be an expression
> >
> >
> > Here is the corresponding R-code that works:
> >
> > library(epiR)
> > data <-
> > read.table("C:/Work/PanelCheck/CONCORDANCE/Gele_FF_hardness.txt",
> > header=TRUE)
> > L1 <- data$B2
> > L2 <- data$B3
> > tmp <- epi.ccc(L1, L2, ci = "z-transform", conf.level = 0.95)
> >
> >
> > I guess this must be something trivial again, but just can't see where
> > it is going wrong.
> >
> > Thanks for your help!
> >
> > Cheers
> > Oliver
> >
> >
> >
> >
> >
> >
> >
>
--
> > Check out the new SourceForge.net Marketplace.
> > It is the best place to buy or sell services for
> > just about anything Open Source.
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> >
> >
> >
> >
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>
>
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[Rpy] is rpy2 the default supported python module now
Hey guys should i use rpy or rpy2 i m learning r language and rpy simultaneously thanks a lot for pointers -- Check out the new SourceForge.net Marketplace. It is the best place to buy or sell services for just about anything Open Source. http://p.sf.net/sfu/Xq1LFB___ rpy-list mailing list rpy-list@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/rpy-list
Re: [Rpy] is rpy2 the default supported python module now
http://www.bitbucket.org/lgautier/rpy2/ Where can i hg pull rpy2 ? the above site is down On 1/7/09, paul jobs wrote: > > Hey guys > should i use rpy or rpy2 > i m learning r language and rpy simultaneously > > thanks a lot for pointers > -- Check out the new SourceForge.net Marketplace. It is the best place to buy or sell services for just about anything Open Source. http://p.sf.net/sfu/Xq1LFB___ rpy-list mailing list rpy-list@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/rpy-list
[Rpy] rpy on Windows
I installed rpy using the most recent Windows installers. Testing the installation produces 7 failures (not the 2 suggested in the documentation). Access to robjects does not match the documentation at: http://rpy.sourceforge.net/rpy2/doc/html/introduction.html#the-r-instance Example below. Alan Isaac Python 2.5.2 (r252:60911, Feb 21 2008, 13:11:45) [MSC v.1310 32 bit (Intel)] on win32 Type "help", "copyright", "credits" or "license" for more information. >>> import rpy2 >>> rpy2.__version__ '2.0.0' >>> from rpy2 import robjects >>> robjects.r['pi'] >>> print robjects.r['pi'] [1] 3.141593 >>> -- Check out the new SourceForge.net Marketplace. It is the best place to buy or sell services for just about anything Open Source. http://p.sf.net/sfu/Xq1LFB ___ rpy-list mailing list rpy-list@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/rpy-list
Re: [Rpy] rpy on Windows
On 1/7/2009 5:13 PM Alan G Isaac apparently wrote: > Access to robjects > does not match the documentation Badly put: I should have said that *representation* of robjects does not match the documentation. (And is therefore much less useful.) Alan Isaac -- Check out the new SourceForge.net Marketplace. It is the best place to buy or sell services for just about anything Open Source. http://p.sf.net/sfu/Xq1LFB ___ rpy-list mailing list rpy-list@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/rpy-list
