RE: [R] installing problems repeated.tgz linux

From: Liaw, Andy <andy_liaw_at_merck.com>
Date: Tue 27 Jul 2004 - 05:16:45 EST


I downloaded repeated.tgz and tried it myself on one of our AMD Opterons running SLES8, and it worked (R-1.9.1 compiled as 64-bit). Notice that I do get a couple of warnings from gcc about labels, and from g77 about the use of `sum' function.

Andy

[andy@leo:lindsey]% R CMD INSTALL -l ~/rlibs repeated * Installing *source* package 'repeated' ... ** libs
g77 -fPIC -O2 -m64 -msse2 -march=k8 -mcpu=k8 -g -c chidden.f -o chidden.o g77 -fPIC -O2 -m64 -msse2 -march=k8 -mcpu=k8 -g -c cphidden.f -o cphidden.o
gcc -I/usr/local/lib/R/include -I/usr/local/include -fPIC -O7 -m64 -msse2 -march=k8 -mcpu=k8 -g -c cutil.c -o cutil.o gcc -I/usr/local/lib/R/include -I/usr/local/include -fPIC -O7 -m64 -msse2 -march=k8 -mcpu=k8 -g -c dist.c -o dist.o gcc -I/usr/local/lib/R/include -I/usr/local/include -fPIC -O7 -m64 -msse2 -march=k8 -mcpu=k8 -g -c gar.c -o gar.o g77 -fPIC -O2 -m64 -msse2 -march=k8 -mcpu=k8 -g -c hidden.f -o hidden.o gcc -I/usr/local/lib/R/include -I/usr/local/include -fPIC -O7 -m64 -msse2 -march=k8 -mcpu=k8 -g -c kcountb.c -o kcountb.o

kcountb.c: In function `kcountb':
kcountb.c:263: warning: deprecated use of label at end of compound statement
kcountb.c:270: warning: deprecated use of label at end of compound statement
gcc -I/usr/local/lib/R/include -I/usr/local/include -fPIC -O7 -m64 -msse2 -march=k8 -mcpu=k8 -g -c kserieb.c -o kserieb.o g77 -fPIC -O2 -m64 -msse2 -march=k8 -mcpu=k8 -g -c logitord.f -o logitord.o
g77 -fPIC -O2 -m64 -msse2 -march=k8 -mcpu=k8 -g -c binnest.f -o binnest.o binnest.f: In subroutine `calcbn':
binnest.f:537: warning:
                    J_Prod = J_Prod * Sum(H2,uph2) ! Calculate the product
of J
                                      ^

Reference to unimplemented intrinsic `SUM' at (^) (assumed EXTERNAL) binnest.f: In subroutine `calcbn2':
binnest.f:1255: warning:
                    J_Prod = J_Prod * Sum(H2,uph2) ! Calculate the product
of J
                                      ^

Reference to unimplemented intrinsic `SUM' at (^) (assumed EXTERNAL) g77 -fPIC -O2 -m64 -msse2 -march=k8 -mcpu=k8 -g -c gausscop.f -o gausscop.o
gcc -I/usr/local/lib/R/include -I/usr/local/include -fPIC -O7 -m64 -msse2 -march=k8 -mcpu=k8 -g -c gaps.c -o gaps.o gcc -I/usr/local/lib/R/include -I/usr/local/include -fPIC -O7 -m64 -msse2 -march=k8 -mcpu=k8 -g -c calcs.c -o calcs.o gcc -I/usr/local/lib/R/include -I/usr/local/include -fPIC -O7 -m64 -msse2 -march=k8 -mcpu=k8 -g -c calcs1.c -o calcs1.o gcc -I/usr/local/lib/R/include -I/usr/local/include -fPIC -O7 -m64 -msse2 -march=k8 -mcpu=k8 -g -c calcs2.c -o calcs2.o gcc -I/usr/local/lib/R/include -I/usr/local/include -fPIC -O7 -m64 -msse2 -march=k8 -mcpu=k8 -g -c calcs3.c -o calcs3.o gcc -I/usr/local/lib/R/include -I/usr/local/include -fPIC -O7 -m64 -msse2 -march=k8 -mcpu=k8 -g -c calcs4.c -o calcs4.o gcc -shared -o repeated.so chidden.o cphidden.o cutil.o dist.o gar.o hidden.o kcountb.o kserieb.o logitord.o binnest.o gausscop.o gaps.o calcs.o calcs1.o calcs2.o calcs3.o calcs4.o -L/usr/local/lib
-L/opt/gcc33/lib64/gcc-lib/x86_64-suse-linux/3.3
-L/opt/gcc33/lib64/gcc-lib/x86_64-suse-linux/3.3/../../../../lib64
-L/opt/gcc33/lib64/gcc-lib/x86_64-suse-linux/3.3/../../.. -L/lib/../lib64
-L/usr/lib/../lib64 -lfrtbegin -lg2c -lm -lgcc_s
** R
** help
 >>> Building/Updating help pages for package 'repeated'

     Formats: text html latex example
[snipped. I think you get the idea...]

> From: Liaw, Andy
>
> Sorry, Christian. I have no idea what those error messages
> in German say.
>
> Andy
>
> > From: ozric@web.de
> >
> > Hello,
> >
> > thanks for your and Marc's hint, but it seems not the probleme!?
> > Is there any probleme with my make?
> >
> > many thanks and regards,
> > christian
> >
> >
> > chris@linux:/usr/lib/R> R CMD INSTALL
> > -l /usr/lib/R/library /space/downs/repeated.tgz
> > * Installing *source* package 'repeated' ...
> > ** libs
> > /usr/lib/R/share/make/shlib.mk:5: *** Target-Muster enthält
> > kein »%«.
> > Schluss.
> > ERROR: compilation failed for package 'repeated'
> > ** Removing '/usr/lib/R/library/repeated'
> >
> > chris@linux:/usr/lib/R> R CMD INSTALL
> > -l /usr/lib/R/library /space/downs/repeated
> > * Installing *source* package 'repeated' ...
> > ** libs
> > /usr/lib/R/share/make/shlib.mk:5: *** Target-Muster enthält
> > kein »%«.
> > Schluss.
> > ERROR: compilation failed for package 'repeated'
> > ** Removing '/usr/lib/R/library/repeated'
> >
> > ...with your great RandomForest and other packages
> > it works!
> >
> > chris@linux:/usr/lib/R> R CMD INSTALL
> > -l /usr/lib/R/library /space/downs/randomForest*.tar.gz
> > * Installing *source* package 'randomForest' ...
> > ** libs
> > gcc -I/usr/lib/R/include -I/usr/local/include -I/opt/gnome/include
> > -D__NO_MATH_INLINES -mieee-fp -fPIC -c regrf.c -o regrf.o
> > g77 -mieee-fp -fPIC -c regrfsub.f -o regrfsub.o
> > gcc -I/usr/lib/R/include -I/usr/local/include -I/opt/gnome/include
> > -D__NO_MATH_INLINES -mieee-fp -fPIC -c rf.c -o rf.o
> > g77 -mieee-fp -fPIC -c rfsub.f -o rfsub.o
> > gcc -shared -L/usr/local/lib -L/opt/gnome/lib -o
> > randomForest.so regrf.o
> > regrfsub.o rf.o rfsub.o -L/usr/local/lib -L/opt/gnome/lib
> > -L/usr/lib/gcc-lib/i586-suse-linux/3.3.1
> > -L/usr/lib/gcc-lib/i586-suse-linux/3.3.1/../../../../i586-suse
> > -linux/lib
> > -L/usr/lib/gcc-lib/i586-suse-linux/3.3.1/../../.. -lfrtbegin
> > -lg2c -lm
> > -lgcc_s -L/usr/lib/R/bin -lR
> > ** R
> > ** inst
> > ** help
> > >>> Building/Updating help pages for package 'randomForest'
> > Formats: text html latex example
> > MDSplot text html latex example
> > combine text html latex example
> > getTree text html latex example
> > grow text html latex example
> > importance text html latex
> > margin text html latex example
> > na.roughfix text html latex example
> > partialPlot text html latex example
> > plot.randomForest text html latex example
> > predict.randomForest text html latex example
> > randomForest text html latex example
> > rfImpute text html latex example
> > treesize text html latex example
> > tuneRF text html latex example
> > varImpPlot text html latex example
> > varUsed text html latex example
> > * DONE (randomForest)
> >
> >
> >
> >
> >
> >
> > Am Montag, 26. Juli 2004 18:56 schrieb Liaw, Andy:
> > > > From: Christian Schulz
> > > >
> > > > Hi,
> > > >
> > > > i try several possibilities adn looking in the archive,
> > > > but didn't getting success to install j.lindsey's
> > usefuel "library
> > > > repeated" on my linux (suse9.0 with kernel 2.6.7,R.1.9.1)
> > > >
> > > > P.S. Windows, works fine
> > > >
> > > > Many thanks for help
> > > > Christian
> > > >
> > > > > R CMD INSTALL - l /usr/lib/R/library repeated
> > >
> > > ^
> > > Try again without that space.
> > >
> > > Andy
> > >
> > >
> > >
> > >
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https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html Received on Tue Jul 27 05:32:04 2004

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