[R] Re: unix R CMD check problem

[Tim Hoar]

Doh!

turns out I was using a newer feature of S-PLUS that is not supported in R,
or at least was generating the parse error.

replace all

a = b

with

a <- b

(except in arguments, naturally ...)

Sorry to bother anyone ... smooth sailing ahead.


> Date: Mon, 4 Jun 2001 10:03:56 -0600 (MDT)
> From: Tim Hoar <thoar at cgd.ucar.edu>
> Reply-To: Tim Hoar <thoar at ucar.edu>
> To: r-help at lists.R-project.org
> Subject: unix R CMD check problem
>
> I am just getting familiar with R and am running into a problem.
>
> I have several S functions I would like to port to R and _almost_ have
> it. I am running on Solaris 5.6 Generic_105181-17 sun4u sparc SUNW,Ultra-60
> with the Sun performance compilers (which are not the problem):
>
> I am starting out small and am having problems with "undocumented objects"
> in the following code structure (I am including the structure first, then
> the result of "R CMD check"):
>
> 0[218]0 nightingale:~/Snackbar > ls -R
> .:
> DESCRIPTION  R            man          src
>
> ./R:
> unix
>
> ./R/unix:
> direct.read.R   flat.read.R     getncvar.R      zzz.R
> direct.write.R  flat.write.R    strpos.R
>
> ./man:
> direct.read.Rd   flat.read.Rd     getncvar.Rd
> direct.write.Rd  flat.write.Rd    strpos.Rd
>
>  ./src:
> Makevars        dflatread.f     flatread.f      iflatread.f     strpos.f
> Snackbar.so     dflatwrite.f    flatwrite.f     iflatwrite.f
> ddirectread.f   directread.f    idirectread.f   inpoly.f
> ddirectwrite.f  directwrite.f   idirectwrite.f  ncgetvar.f
> 0[224]0 nightingale:~/Snackbar >
>
> The R code has logical sections to call several of the Fortran sources.
> Each Fortran source has exactly one routine.
>
> ------------ results of R CMD check ----------------------
>
> 1[204]0 nightingale:~ > R CMD check Snackbar
> * checking for working latex ... OK
> * using log directory /home/thoar/Snackbar.Rcheck
>
> Installing source package `Snackbar' ...
>  libs
> /opt/SUNWspro/bin/f90  -O3 -I/opt/local/include -PIC  -O3 -c ddirectread.f -o
> ddirectread.o
> /opt/SUNWspro/bin/f90  -O3 -I/opt/local/include -PIC  -O3 -c ddirectwrite.f -o
> ddirectwrite.o
> /opt/SUNWspro/bin/f90  -O3 -I/opt/local/include -PIC  -O3 -c dflatread.f -o
> dflatread.o
> /opt/SUNWspro/bin/f90  -O3 -I/opt/local/include -PIC  -O3 -c dflatwrite.f -o
> dflatwrite.o
> /opt/SUNWspro/bin/f90  -O3 -I/opt/local/include -PIC  -O3 -c directread.f -o
> directread.o
> /opt/SUNWspro/bin/f90  -O3 -I/opt/local/include -PIC  -O3 -c directwrite.f -o
> directwrite.o
> /opt/SUNWspro/bin/f90  -O3 -I/opt/local/include -PIC  -O3 -c flatread.f -o
> flatread.o
> /opt/SUNWspro/bin/f90  -O3 -I/opt/local/include -PIC  -O3 -c flatwrite.f -o
> flatwrite.o
> /opt/SUNWspro/bin/f90  -O3 -I/opt/local/include -PIC  -O3 -c idirectread.f -o
> idirectread.o
> /opt/SUNWspro/bin/f90  -O3 -I/opt/local/include -PIC  -O3 -c idirectwrite.f -o
> idirectwrite.o
> /opt/SUNWspro/bin/f90  -O3 -I/opt/local/include -PIC  -O3 -c iflatread.f -o
> iflatread.o
> /opt/SUNWspro/bin/f90  -O3 -I/opt/local/include -PIC  -O3 -c iflatwrite.f -o
> iflatwrite.o
> /opt/SUNWspro/bin/f90  -O3 -I/opt/local/include -PIC  -O3 -c inpoly.f -o
> inpoly.o
> /opt/SUNWspro/bin/f90  -O3 -I/opt/local/include -PIC  -O3 -c ncgetvar.f -o
> ncgetvar.o
> /opt/SUNWspro/bin/f90  -O3 -I/opt/local/include -PIC  -O3 -c strpos.f -o
> strpos.o
> /opt/SUNWspro/bin/cc -G  -o Snackbar.so ddirectread.o ddirectwrite.o
> dflatread.o dflatwrite.o directread.o directwrite.o flatread.o flatwrite.o
> idirectread.o idirectwrite.o iflatread.o iflatwrite.o inpoly.o ncgetvar.o
> strpos.o -L/usr/local/lib -L/opt/local/lib -lnetcdf  -R/opt/SUNWspro/lib
> -L/opt/SUNWspro/lib -L/opt/SUNWspro/WS6U1/lib -L/usr/ccs/lib -L/usr/lib -lfui
> -lfai -lfai2 -lfsumai -lfprodai -lfminlai -lfmaxlai -lfminvai -lfmaxvai -lfsu
> -lsunmath -lm
>  R
>  help
>  >>> Building/Updating help pages for package `Snackbar'
>      Formats: text html latex example
>   direct.read                       text    html    latex
>   direct.write                      text    html    latex
>   flat.read                         text    html    latex
>   flat.write                        text    html    latex
>   getncvar                          text    html    latex
>   strpos                            text    html    latex
>  DONE (Snackbar)
>
> DONE (INSTALL)
>
> * checking for file `Snackbar/DESCRIPTION' ... OK
> * checking package directory ... OK
> * checking DESCRIPTION Package field ... OK
> * checking DESCRIPTION Version field ... OK
> * checking DESCRIPTION Title field ... OK
> * checking DESCRIPTION License field ... OK
> * checking DESCRIPTION Author field ... OK
> * checking DESCRIPTION Maintainer field ... OK
> * checking Rd files ... OK
> * checking for undocumented objects ... ERROR
> *   in parse(file, n, text, prompt) : syntax error on line 28
>
> ------------ question ----------------------
>
> Looks like the help files are OK ... and the compiles are OK ...
> but something somewhere is going astray. Any help?
>
> I have included a TAR file of the pertinent parts ... just in case someone
> wants to see _exactly_ ...
>
> Any help would be appreciated.
>
> Tim
>
>
>
> ## Tim Hoar, Associate Scientist              email: thoar at ucar.edu     ##
> ## Geophysical Statistics Project             phone: 303-497-1708       ##
> ## National Center for Atmospheric Research   FAX  : 303-497-1333       ##
> ## Boulder, CO  80307                    http://www.cgd.ucar.edu/~thoar ##
>

## Tim Hoar, Associate Scientist              email: thoar at ucar.edu     ##
## Geophysical Statistics Project             phone: 303-497-1708       ##
## National Center for Atmospheric Research   FAX  : 303-497-1333       ##
## Boulder, CO  80307                    http://www.cgd.ucar.edu/~thoar ##

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