Problem compiling R-Patched

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Problem compiling R-Patched

Kevin E. Thorpe
I downloaded R-Patched today (to see if another problem I want to
ask about is still present or if its just me - as per the posting
guide).  I ran "tools/rsync-recommended" successfully.  I then ran
"configure --enable-R-shlib" successfully.  Then make stops with the
following error.

gcc -shared -L/usr/local/lib -o tools.so text.o init.o Rmd5.o md5.o
-L../../../../lib -lR
mkdir -p -- ../../../../library/tools/libs
make[5]: Leaving directory `/home/src/R-patched/src/library/tools/src'
make[4]: Leaving directory `/home/src/R-patched/src/library/tools/src'
Error in file(datafile, "wb") : unable to open connection
In addition: Warning message:
cannot open file '/usr/local/lib/R/library/tools/R/tools.rdb', reason
'Permission denied'
Execution halted
make[3]: *** [all] Error 1
make[3]: Leaving directory `/home/src/R-patched/src/library/tools'
make[2]: *** [R] Error 1
make[2]: Leaving directory `/home/src/R-patched/src/library'
make[1]: *** [R] Error 1
make[1]: Leaving directory `/home/src/R-patched/src'
make: *** [R] Error 1

The tools.rdb file is on my system from a previous build

-rw-r--r--  1 root root 90486 2005-08-04 18:54 /usr/local/.../tools.rdb

As you can see from the output above, I am not trying to build in
/usr/local/... at all so I am puzzled as to why anything is being done
in /usr/local/ before the "make install".  Can anyone suggest what I
should try?  I am compiling on SuSE Linux version 9.2.

Thank you.

Kevin

--
Kevin E. Thorpe
Biostatistician/Trialist, Knowledge Translation Program
Assistant Professor, Department of Public Health Sciences
Faculty of Medicine, University of Toronto
email: [hidden email]  Tel: 416.946.8081  Fax: 416.946.3297

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Re: Problem compiling R-Patched

Liaw, Andy
Could it be that you have the environment variable R_HOME (or something like
that) defined somewhere?  Just a wild guess...

Andy

From: Kevin E. Thorpe

>
> I downloaded R-Patched today (to see if another problem I
> want to ask about is still present or if its just me - as per
> the posting guide).  I ran "tools/rsync-recommended"
> successfully.  I then ran "configure --enable-R-shlib"
> successfully.  Then make stops with the following error.
>
> gcc -shared -L/usr/local/lib -o tools.so text.o init.o Rmd5.o md5.o
> -L../../../../lib -lR
> mkdir -p -- ../../../../library/tools/libs
> make[5]: Leaving directory `/home/src/R-patched/src/library/tools/src'
> make[4]: Leaving directory `/home/src/R-patched/src/library/tools/src'
> Error in file(datafile, "wb") : unable to open connection
> In addition: Warning message:
> cannot open file '/usr/local/lib/R/library/tools/R/tools.rdb', reason
> 'Permission denied'
> Execution halted
> make[3]: *** [all] Error 1
> make[3]: Leaving directory `/home/src/R-patched/src/library/tools'
> make[2]: *** [R] Error 1
> make[2]: Leaving directory `/home/src/R-patched/src/library'
> make[1]: *** [R] Error 1
> make[1]: Leaving directory `/home/src/R-patched/src'
> make: *** [R] Error 1
>
> The tools.rdb file is on my system from a previous build
>
> -rw-r--r--  1 root root 90486 2005-08-04 18:54
> /usr/local/.../tools.rdb
>
> As you can see from the output above, I am not trying to build in
> /usr/local/... at all so I am puzzled as to why anything is
> being done in /usr/local/ before the "make install".  Can
> anyone suggest what I
> should try?  I am compiling on SuSE Linux version 9.2.
>
> Thank you.
>
> Kevin
>
> --
> Kevin E. Thorpe
> Biostatistician/Trialist, Knowledge Translation Program
> Assistant Professor, Department of Public Health Sciences
> Faculty of Medicine, University of Toronto
> email: [hidden email]  Tel: 416.946.8081  Fax: 416.946.3297
>
> ______________________________________________
> [hidden email] mailing list
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide!
> http://www.R-project.org/posting-guide.html
>
>

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Re: Problem compiling R-Patched

Kevin E. Thorpe
Liaw, Andy wrote:
> Could it be that you have the environment variable R_HOME (or something like
> that) defined somewhere?  Just a wild guess...

No, R_HOME is not defined in the shell I was compiling in, but R_LIBS
was!  Brilliant "wild guess."

Thanks,

Kevin

> Andy
>
> From: Kevin E. Thorpe
>
>>I downloaded R-Patched today (to see if another problem I
>>want to ask about is still present or if its just me - as per
>>the posting guide).  I ran "tools/rsync-recommended"
>>successfully.  I then ran "configure --enable-R-shlib"
>>successfully.  Then make stops with the following error.
>>
>>gcc -shared -L/usr/local/lib -o tools.so text.o init.o Rmd5.o md5.o
>>-L../../../../lib -lR
>>mkdir -p -- ../../../../library/tools/libs
>>make[5]: Leaving directory `/home/src/R-patched/src/library/tools/src'
>>make[4]: Leaving directory `/home/src/R-patched/src/library/tools/src'
>>Error in file(datafile, "wb") : unable to open connection
>>In addition: Warning message:
>>cannot open file '/usr/local/lib/R/library/tools/R/tools.rdb', reason
>>'Permission denied'
>>Execution halted
>>make[3]: *** [all] Error 1
>>make[3]: Leaving directory `/home/src/R-patched/src/library/tools'
>>make[2]: *** [R] Error 1
>>make[2]: Leaving directory `/home/src/R-patched/src/library'
>>make[1]: *** [R] Error 1
>>make[1]: Leaving directory `/home/src/R-patched/src'
>>make: *** [R] Error 1
>>
>>The tools.rdb file is on my system from a previous build
>>
>>-rw-r--r--  1 root root 90486 2005-08-04 18:54
>>/usr/local/.../tools.rdb
>>
>>As you can see from the output above, I am not trying to build in
>>/usr/local/... at all so I am puzzled as to why anything is
>>being done in /usr/local/ before the "make install".  Can
>>anyone suggest what I
>>should try?  I am compiling on SuSE Linux version 9.2.
>>
>>Thank you.
>>
>>Kevin


--
Kevin E. Thorpe
Biostatistician/Trialist, Knowledge Translation Program
Assistant Professor, Department of Public Health Sciences
Faculty of Medicine, University of Toronto
email: [hidden email]  Tel: 416.946.8081  Fax: 416.946.3297

______________________________________________
[hidden email] mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html