[R] Failure to execute R CMD SHLIB successfully

[Fisher Dennis]

R 3.1.2
Windows 7

Colleagues

I am working with c code that reads sas7bdat files into R.  I have been successful in compiling and running the code in both OS X and Windows.  Recently, the author of the c code added code that calls iconv.h (in order to convert encodings).  Using the new version of the c code, I can run compile and run the code in OS X without problems.  However, when I run the code in Windows, I encounter a series of warnings, followed by what appear to be errors — and the code is not compiled.  

I have installed the latest version of Rtools and I have set the path as follows:
	set PATH=c:\Rtools\bin;c:\Rtools\gcc-4.6.3\bin;c:\program files (c86)\gnuwin32\bin;c:\MiKTeX\miktex\bin;%R32%;c:\windows;c:\windows\system32
where R32 is the path to the 32-but version of R

The command that I execute is:
	R CMD SHLIB -o ../compiled/Windows32.so ConvertSAS.c CKHashTable.c readstat_convert.c readstat_bits.c readstat_io.c readstat_sas.c)

I get a series of warnings:
> gcc -m32 -I"C:/PROGRA~1/R/R-31~1.2/include" -DNDEBUG     -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c ConvertSAS.c -o ConvertSAS.o
> gcc -m32 -I"C:/PROGRA~1/R/R-31~1.2/include" -DNDEBUG     -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c CKHashTable.c -o CKHashTable.o
> gcc -m32 -I"C:/PROGRA~1/R/R-31~1.2/include" -DNDEBUG     -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c readstat_convert.c -o readstat_convert.o
> readstat_convert.c: In function 'readstat_convert':
> readstat_convert.c:23:9: warning: passing argument 2 of 'libiconv' from incompatible pointer type [enabled by default]
> iconv.h:92:37: note: expected 'const char **' but argument is of type 'char **'
> gcc -m32 -I"C:/PROGRA~1/R/R-31~1.2/include" -DNDEBUG     -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c readstat_bits.c -o readstat_bits.o
> readstat_bits.c: In function 'byteswap_float':
> readstat_bits.c:59:5: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
> readstat_bits.c:60:5: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
> readstat_bits.c: In function 'byteswap_double':
> readstat_bits.c:64:5: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
> readstat_bits.c:65:5: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
> gcc -m32 -I"C:/PROGRA~1/R/R-31~1.2/include" -DNDEBUG     -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c readstat_io.c -o readstat_io.o
> gcc -m32 -I"C:/PROGRA~1/R/R-31~1.2/include" -DNDEBUG     -I"d:/RCompile/CRANpkg/extralibs64/local/include"     -O3 -Wall  -std=gnu99 -mtune=core2 -c readstat_sas.c -o readstat_sas.o
> readstat_sas.c: In function 'sas_read_header':
> readstat_sas.c:204:20: warning: variable 'a2' set but not used [-Wunused-but-set-variable]
> readstat_sas.c: In function 'sas_parse_page_pass1':
> readstat_sas.c:788:23: warning: variable 'subheader_type' set but not used [-Wunused-but-set-variable]
> readstat_sas.c:770:14: warning: variable 'page_type' set but not used [-Wunused-but-set-variable]
> readstat_sas.c: In function 'sas_parse_page_pass2':
> readstat_sas.c:861:27: warning: variable 'subheader_type' set but not used [-Wunused-but-set-variable]
> readstat_sas.c: In function 'parse_sas7bdat':
> readstat_sas.c:1029:9: warning: implicit declaration of function 'dprintf' [-Wimplicit-function-declaration]
> 
followed by a series of errors:
> gcc -m32 -shared -s -static-libgcc -o ../compiled/Windows32.so tmp.def ConvertSAS.o CKHashTable.o readstat_convert.o readstat_bits.o readstat_io.o readstat_sas.o -Ld:/RCompile/CRANpkg/extralibs64/local/lib/i386 -Ld:/RCompile/CRANpkg/extralibs64/local/lib -LC:/PROGRA~1/R/R-31~1.2/bin/i386 -lR
> readstat_convert.o:readstat_convert.c:(.text+0x42): undefined reference to `_imp__libiconv'
> readstat_sas.o:readstat_sas.c:(.text+0x10b5): undefined reference to `_imp__libiconv_close'
> readstat_sas.o:readstat_sas.c:(.text+0x1126): undefined reference to `_imp__libiconv_open'
> readstat_sas.o:readstat_sas.c:(.text+0x1808): undefined reference to `dprintf'
> readstat_sas.o:readstat_sas.c:(.text+0x1da1): undefined reference to `_imp__libiconv_open'
> readstat_sas.o:readstat_sas.c:(.text+0x1de4): undefined reference to `_imp__libiconv_close'
> collect2: ld returned 1 exit status
> 
The errors all reference libiconv.   Note that the first line in the errors references extralibs64.  I don’t understand where this is coming from since the gcc command is created by R CMD SHLIB using the 32-fit version of R.  I replaced both instance of extralibs64 with extralibs32 but the identical error messages appear.  

Does anyone have an idea as to the problem here? 

Any help would be much appreciated.

Dennis

Dennis
Dennis Fisher MD
P < (The "P Less Than" Company)
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