repeated - R package

Thompson's Manual to Accompany Agresti's book refers to a package named
"repeated". It's not on CRAN from what I can see. I have seen rpm's for
it. Where is the best place to download this package?

On Wed, 10 Aug 2005 rab45+ at pitt.edu wrote:

Thompson's Manual to Accompany Agresti's book refers to a package named
"repeated". It's not on CRAN from what I can see. I have seen rpm's for
it. Where is the best place to download this package?

See the FAQ, Q5.1.5.  As to the `best' place, it is hard to say as the URI
keeps changing: currently it seems to be
http://popgen.unimaas.nl/~jlindsey/rcode.html.

On Wed, 10 Aug 2005 rab45+ at pitt.edu wrote:

Thompson's Manual to Accompany Agresti's book refers to a package named
"repeated". It's not on CRAN from what I can see. I have seen rpm's for
it. Where is the best place to download this package?

See the FAQ, Q5.1.5.  As to the `best' place, it is hard to say as the URI
keeps changing: currently it seems to be
http://popgen.unimaas.nl/~jlindsey/rcode.html.

--
Brian D. Ripley,                  ripley at stats.ox.ac.uk
Professor of Applied Statistics,  http://www.stats.ox.ac.uk/~ripley/
University of Oxford,             Tel:  +44 1865 272861 (self)
1 South Parks Road,                     +44 1865 272866 (PA)
Oxford OX1 3TG, UK                Fax:  +44 1865 272595

On Wed, 10 Aug 2005 rab45+ at pitt.edu wrote:

Thompson's Manual to Accompany Agresti's book refers to a package named
"repeated". It's not on CRAN from what I can see. I have seen rpm's for
it. Where is the best place to download this package?

See the FAQ, Q5.1.5.  As to the `best' place, it is hard to say as the
URI
keeps changing: currently it seems to be
http://popgen.unimaas.nl/~jlindsey/rcode.html.

--
Brian D. Ripley,                  ripley at stats.ox.ac.uk
Professor of Applied Statistics,  http://www.stats.ox.ac.uk/~ripley/
University of Oxford,             Tel:  +44 1865 272861 (self)
1 South Parks Road,                     +44 1865 272866 (PA)
Oxford OX1 3TG, UK                Fax:  +44 1865 272595

I downloaded from the site you suggested but I get an error when
installing:

drwxr-xr-x  5 root   root     4096 Apr 25  2003 repeated
-rw-rw-r--  1 chippy chippy 176563 Aug 10 17:05 repeated.tgz
[root at ophth-bilora R]# man R
[root at ophth-bilora R]# R CMD INSTALL repeated
* Installing *source* package 'repeated' ...
** libs
gfortran   -fPIC  -O2 -g -pipe -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -m32
-march=i386 -mtune=pentium4 -fasynchronous-unwind-tables -c chidden.f -o
chidden.o
gfortran   -fPIC  -O2 -g -pipe -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -m32
-march=i386 -mtune=pentium4 -fasynchronous-unwind-tables -c cphidden.f -o
cphidden.o
gcc -I/usr/lib/R/include  -I/usr/local/include   -fPIC  -O2 -g -pipe
-Wp,-D_FORTIFY_SOURCE=2 -fexceptions -m32 -march=i386 -mtune=pentium4
-fasynchronous-unwind-tables -c cutil.c -o cutil.o
gcc -I/usr/lib/R/include  -I/usr/local/include   -fPIC  -O2 -g -pipe
-Wp,-D_FORTIFY_SOURCE=2 -fexceptions -m32 -march=i386 -mtune=pentium4
-fasynchronous-unwind-tables -c dist.c -o dist.o
gcc -I/usr/lib/R/include  -I/usr/local/include   -fPIC  -O2 -g -pipe
-Wp,-D_FORTIFY_SOURCE=2 -fexceptions -m32 -march=i386 -mtune=pentium4
-fasynchronous-unwind-tables -c gar.c -o gar.o
gfortran   -fPIC  -O2 -g -pipe -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -m32
-march=i386 -mtune=pentium4 -fasynchronous-unwind-tables -c hidden.f -o
hidden.o
gcc -I/usr/lib/R/include  -I/usr/local/include   -fPIC  -O2 -g -pipe
-Wp,-D_FORTIFY_SOURCE=2 -fexceptions -m32 -march=i386 -mtune=pentium4
-fasynchronous-unwind-tables -c kcountb.c -o kcountb.o
gcc -I/usr/lib/R/include  -I/usr/local/include   -fPIC  -O2 -g -pipe
-Wp,-D_FORTIFY_SOURCE=2 -fexceptions -m32 -march=i386 -mtune=pentium4
-fasynchronous-unwind-tables -c kserieb.c -o kserieb.o
gfortran   -fPIC  -O2 -g -pipe -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -m32
-march=i386 -mtune=pentium4 -fasynchronous-unwind-tables -c logitord.f -o
logitord.o
gfortran   -fPIC  -O2 -g -pipe -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -m32
-march=i386 -mtune=pentium4 -fasynchronous-unwind-tables -c binnest.f -o
binnest.o
 In file binnest.f:638

             Gradient(t1+t2+kk) = Gradient(t1+t2+kk) + (D1_Sig2(kk) / Li
                                                                       1
Error: Expected a right parenthesis in expression at (1)
make: *** [binnest.o] Error 1
ERROR: compilation failed for package 'repeated'

I guess I can go in and fix this and try re-compiling.

Rick B.

When I go into binnest.f, here is what I see:

C       Calculate First Derivative
	   Do kk = 1, t1
	      Gradient(kk) = Gradient(kk) + (D1_beta(kk) / Li)
	   End do
	   Do kk = 1, t2
	      Gradient(t1+kk) = Gradient(t1+kk) + (D1_Sig1(kk) / Li)
	   End do
	   Do kk = 1, t3
line 638 ->Gradient(t1+t2+kk) = Gradient(t1+t2+kk) + (D1_Sig2(kk) / Li)
	   End do

As you can see, line 638 looks just fine.

Why do I get a compilation error?

Rick B.

When I go into binnest.f, here is what I see:

C       Calculate First Derivative
	   Do kk = 1, t1
	      Gradient(kk) = Gradient(kk) + (D1_beta(kk) / Li)
	   End do
	   Do kk = 1, t2
	      Gradient(t1+kk) = Gradient(t1+kk) + (D1_Sig1(kk) / Li)
	   End do
	   Do kk = 1, t3
line 638 ->Gradient(t1+t2+kk) = Gradient(t1+t2+kk) + (D1_Sig2(kk) / Li)
	   End do

As you can see, line 638 looks just fine.

Why do I get a compilation error?

Rick B.

I used a text editor to remove two blanks from the front of line 638 and
it compiled without errors. Now I have to find the "rmutil" package and
install it to get repeated working.

Rick B.

In my quest to install the repeated package, I have also to install the
"rmutil" package. (BTW, I'm running Fedora Core 4 and R 2.1.1.) But I now
get several compilation errors for rmutil and I'm afraid to try to fix
them:

[root at ophth-bilora R]# R CMD INSTALL rmutil
* Installing *source* package 'rmutil' ...
** libs
gcc -I/usr/lib/R/include  -I/usr/local/include   -fPIC  -O2 -g -pipe
-Wp,-D_FORTIFY_SOURCE=2 -fexceptions -m32 -march=i386 -mtune=pentium4
-fasynchronous-unwind-tables -c cutil.c -o cutil.o
gcc -I/usr/lib/R/include  -I/usr/local/include   -fPIC  -O2 -g -pipe
-Wp,-D_FORTIFY_SOURCE=2 -fexceptions -m32 -march=i386 -mtune=pentium4
-fasynchronous-unwind-tables -c dist.c -o dist.o
gfortran   -fPIC  -O2 -g -pipe -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -m32
-march=i386 -mtune=pentium4 -fasynchronous-unwind-tables -c gettvc.f -o
gettvc.o
 In file gettvc.f:55

            tvcov2(n,i)=-1e301
                             1
Error: Real constant overflows its kind at (1)
 In file gettvc.f:79

               recx=1e301
                        1
Error: Real constant overflows its kind at (1)
 In file gettvc.f:84

               reck=1e301
                        1
Error: Real constant overflows its kind at (1)
 In file gettvc.f:86

            if((recx.ge.1e300).and.(reck.ge.1e300)) ldone=.true.
                            1
Error: Real constant overflows its kind at (1)
make: *** [gettvc.o] Error 1
ERROR: compilation failed for package 'rmutil'

I downloaded both repeated and rmutil (for R > 2.0) from:

http://popgen.unimaas.nl/~jlindsey/rcode.html

Rick B.

Please note that you are using gfortran rather than g77 - they are not the
same, and very possibly differ in how they react to code. The 1e301
constants do overflow the maximum real value (of the order of 3e+38), but
1d301 is less than the maximum double value of the order of 1.7e+308. So
the variable declarations in the code do not seem to match the constants
being used, which probably ought to have been written as "d" rather than
"e" anyway. It doesn't look as though you'll be able to compile this code
with your chosen compiler, could you rather try g77? There seems to be
useful advice on the Fedora lists.

Rick B.

--
Roger Bivand
Economic Geography Section, Department of Economics, Norwegian School of
Economics and Business Administration, Helleveien 30, N-5045 Bergen,
Norway. voice: +47 55 95 93 55; fax +47 55 95 95 43
e-mail: Roger.Bivand at nhh.no