BioC 3.3: CHECK report for affyio on linux2.bioconductor.org

Package: affyio

Version: 1.41.0

Command: /home/biocbuild/bbs-3.3-bioc/R/bin/R CMD check --no-vignettes --timings affyio_1.41.0.tar.gz

StartedAt: 2015-10-27 01:33:57 -0400 (Tue, 27 Oct 2015)

EndedAt: 2015-10-27 01:34:13 -0400 (Tue, 27 Oct 2015)

EllapsedTime: 16.0 seconds

RetCode: 0

Status:  OK

CheckDir: affyio.Rcheck

Warnings: 0

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###
### Running command:
###
###   /home/biocbuild/bbs-3.3-bioc/R/bin/R CMD check --no-vignettes --timings affyio_1.41.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.3-bioc/meat/affyio.Rcheck’
* using R Under development (unstable) (2015-09-09 r69333)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘affyio/DESCRIPTION’ ... OK
* this is package ‘affyio’ version ‘1.41.0’
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘affyio’ can be installed ... [7s/7s] OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... NOTE
Package has both ‘src/Makevars.in’ and ‘src/Makevars’.
Installation with --no-configure' is unlikely to work.  If you intended
‘src/Makevars’ to be used on Windows, rename it to ‘src/Makevars.win’
otherwise remove it.  If ‘configure’ created ‘src/Makevars’, you need a
‘cleanup’ script.
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking compiled code ... OK
* checking examples ... NONE
* checking PDF version of manual ... OK
* DONE

Status: 1 NOTE
See
  ‘/home/biocbuild/bbs-3.3-bioc/meat/affyio.Rcheck/00check.log’
for details.

* installing *source* package ‘affyio’ ...
checking for gcc... gcc
checking for C compiler default output file name... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables... 
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking how to run the C preprocessor... gcc -E
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking for main in -lz... yes
checking zlib.h usability... yes
checking zlib.h presence... yes
checking for zlib.h... yes
checking if zlib version >= 1.1.3... yes
checking for pthread_create in -lpthread... yes
checking if we can use pthreads... yes
checking if PTHREAD_STACK_MIN is defined... yes
configure: creating ./config.status
config.status: creating src/Makevars
** libs
gcc -std=gnu99 -I/home/biocbuild/bbs-3.3-bioc/R/include -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -I/usr/local/include   -g -O2   -fpic  -g -O2  -c fread_functions.c -o fread_functions.o
fread_functions.c: In function ‘gzread_int32’:
fread_functions.c:414:3: warning: passing argument 1 of ‘gzread’ from incompatible pointer type [enabled by default]
   result = gzread(instream,destination,sizeof(int)*n); 
   ^
In file included from fread_functions.h:12:0,
                 from fread_functions.c:10:
/usr/include/zlib.h:1313:21: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
                     ^
fread_functions.c: In function ‘gzread_uint32’:
fread_functions.c:439:3: warning: passing argument 1 of ‘gzread’ from incompatible pointer type [enabled by default]
   result = gzread(instream,destination,sizeof(unsigned int)*n); 
   ^
In file included from fread_functions.h:12:0,
                 from fread_functions.c:10:
/usr/include/zlib.h:1313:21: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
                     ^
fread_functions.c: In function ‘gzread_int16’:
fread_functions.c:458:4: warning: passing argument 1 of ‘gzread’ from incompatible pointer type [enabled by default]
    result = gzread(instream,destination,sizeof(short)*n);
    ^
In file included from fread_functions.h:12:0,
                 from fread_functions.c:10:
/usr/include/zlib.h:1313:21: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
                     ^
fread_functions.c: In function ‘gzread_uint16’:
fread_functions.c:476:4: warning: passing argument 1 of ‘gzread’ from incompatible pointer type [enabled by default]
    result = gzread(instream,destination,sizeof(unsigned short)*n);
    ^
In file included from fread_functions.h:12:0,
                 from fread_functions.c:10:
/usr/include/zlib.h:1313:21: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
                     ^
fread_functions.c: In function ‘gzread_float32’:
fread_functions.c:497:3: warning: passing argument 1 of ‘gzread’ from incompatible pointer type [enabled by default]
   result =  gzread(instream,destination,sizeof(float)*n); 
   ^
In file included from fread_functions.h:12:0,
                 from fread_functions.c:10:
/usr/include/zlib.h:1313:21: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
                     ^
fread_functions.c: In function ‘gzread_char’:
fread_functions.c:513:3: warning: passing argument 1 of ‘gzread’ from incompatible pointer type [enabled by default]
   result = gzread(instream,destination,sizeof(char)*n); 
   ^
In file included from fread_functions.h:12:0,
                 from fread_functions.c:10:
/usr/include/zlib.h:1313:21: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
                     ^
fread_functions.c: In function ‘gzread_uchar’:
fread_functions.c:529:3: warning: passing argument 1 of ‘gzread’ from incompatible pointer type [enabled by default]
   result = gzread(instream,destination,sizeof(unsigned char)*n); 
   ^
In file included from fread_functions.h:12:0,
                 from fread_functions.c:10:
/usr/include/zlib.h:1313:21: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
                     ^
fread_functions.c: In function ‘gzread_double64’:
fread_functions.c:547:3: warning: passing argument 1 of ‘gzread’ from incompatible pointer type [enabled by default]
   result = gzread(instream, destination,sizeof(double)*n);
   ^
In file included from fread_functions.h:12:0,
                 from fread_functions.c:10:
/usr/include/zlib.h:1313:21: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
                     ^
fread_functions.c: In function ‘gzread_be_int32’:
fread_functions.c:575:3: warning: passing argument 1 of ‘gzread’ from incompatible pointer type [enabled by default]
   result = gzread(instream,destination,sizeof(int)*n); 
   ^
In file included from fread_functions.h:12:0,
                 from fread_functions.c:10:
/usr/include/zlib.h:1313:21: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
                     ^
fread_functions.c: In function ‘gzread_be_uint32’:
fread_functions.c:600:3: warning: passing argument 1 of ‘gzread’ from incompatible pointer type [enabled by default]
   result = gzread(instream,destination,sizeof(unsigned int)*n); 
   ^
In file included from fread_functions.h:12:0,
                 from fread_functions.c:10:
/usr/include/zlib.h:1313:21: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
                     ^
fread_functions.c: In function ‘gzread_be_int16’:
fread_functions.c:620:4: warning: passing argument 1 of ‘gzread’ from incompatible pointer type [enabled by default]
    result = gzread(instream,destination,sizeof(short)*n);
    ^
In file included from fread_functions.h:12:0,
                 from fread_functions.c:10:
/usr/include/zlib.h:1313:21: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
                     ^
fread_functions.c: In function ‘gzread_be_uint16’:
fread_functions.c:636:4: warning: passing argument 1 of ‘gzread’ from incompatible pointer type [enabled by default]
    result = gzread(instream,destination,sizeof(unsigned short)*n);
    ^
In file included from fread_functions.h:12:0,
                 from fread_functions.c:10:
/usr/include/zlib.h:1313:21: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
                     ^
fread_functions.c: In function ‘gzread_be_float32’:
fread_functions.c:656:3: warning: passing argument 1 of ‘gzread’ from incompatible pointer type [enabled by default]
   result =  gzread(instream,destination,sizeof(float)*n); 
   ^
In file included from fread_functions.h:12:0,
                 from fread_functions.c:10:
/usr/include/zlib.h:1313:21: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
                     ^
fread_functions.c: In function ‘gzread_be_char’:
fread_functions.c:673:3: warning: passing argument 1 of ‘gzread’ from incompatible pointer type [enabled by default]
   result = gzread(instream,destination,sizeof(char)*n); 
   ^
In file included from fread_functions.h:12:0,
                 from fread_functions.c:10:
/usr/include/zlib.h:1313:21: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
                     ^
fread_functions.c: In function ‘gzread_be_uchar’:
fread_functions.c:690:3: warning: passing argument 1 of ‘gzread’ from incompatible pointer type [enabled by default]
   result = gzread(instream,destination,sizeof(unsigned char)*n); 
   ^
In file included from fread_functions.h:12:0,
                 from fread_functions.c:10:
/usr/include/zlib.h:1313:21: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
                     ^
fread_functions.c: In function ‘gzread_be_double64’:
fread_functions.c:706:3: warning: passing argument 1 of ‘gzread’ from incompatible pointer type [enabled by default]
   result = gzread(instream, destination,sizeof(double)*n);
   ^
In file included from fread_functions.h:12:0,
                 from fread_functions.c:10:
/usr/include/zlib.h:1313:21: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
                     ^
gcc -std=gnu99 -I/home/biocbuild/bbs-3.3-bioc/R/include -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -I/usr/local/include   -g -O2   -fpic  -g -O2  -c init_package.c -o init_package.o
gcc -std=gnu99 -I/home/biocbuild/bbs-3.3-bioc/R/include -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -I/usr/local/include   -g -O2   -fpic  -g -O2  -c read_abatch.c -o read_abatch.o
read_abatch.c: In function ‘gz_get_detailed_header_info’:
read_abatch.c:1989:15: warning: assignment from incompatible pointer type [enabled by default]
   currentFile = open_gz_cel_file(filename);
               ^
read_abatch.c:1991:3: warning: passing argument 1 of ‘gzAdvanceToSection’ from incompatible pointer type [enabled by default]
   gzAdvanceToSection(currentFile,"[HEADER]",buffer);
   ^
read_abatch.c:1439:13: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 static void gzAdvanceToSection(gzFile my_file,char *sectiontitle, char *buffer){
             ^
read_abatch.c:1993:3: warning: passing argument 1 of ‘gzfindStartsWith’ from incompatible pointer type [enabled by default]
   gzfindStartsWith(currentFile,"Cols",buffer);  
   ^
read_abatch.c:1416:14: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 static void  gzfindStartsWith(gzFile my_file,char *starts, char *buffer){
              ^
read_abatch.c:1998:3: warning: passing argument 1 of ‘gzfindStartsWith’ from incompatible pointer type [enabled by default]
   gzfindStartsWith(currentFile,"Rows",buffer);
   ^
read_abatch.c:1416:14: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 static void  gzfindStartsWith(gzFile my_file,char *starts, char *buffer){
              ^
read_abatch.c:2003:3: warning: passing argument 1 of ‘gzfindStartsWith’ from incompatible pointer type [enabled by default]
   gzfindStartsWith(currentFile,"GridCornerUL",buffer);
   ^
read_abatch.c:1416:14: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 static void  gzfindStartsWith(gzFile my_file,char *starts, char *buffer){
              ^
read_abatch.c:2009:3: warning: passing argument 1 of ‘gzfindStartsWith’ from incompatible pointer type [enabled by default]
   gzfindStartsWith(currentFile,"GridCornerUR",buffer);
   ^
read_abatch.c:1416:14: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 static void  gzfindStartsWith(gzFile my_file,char *starts, char *buffer){
              ^
read_abatch.c:2015:3: warning: passing argument 1 of ‘gzfindStartsWith’ from incompatible pointer type [enabled by default]
   gzfindStartsWith(currentFile,"GridCornerLR",buffer);
   ^
read_abatch.c:1416:14: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 static void  gzfindStartsWith(gzFile my_file,char *starts, char *buffer){
              ^
read_abatch.c:2021:3: warning: passing argument 1 of ‘gzfindStartsWith’ from incompatible pointer type [enabled by default]
   gzfindStartsWith(currentFile,"GridCornerLL",buffer);
   ^
read_abatch.c:1416:14: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 static void  gzfindStartsWith(gzFile my_file,char *starts, char *buffer){
              ^
read_abatch.c:2027:3: warning: passing argument 1 of ‘gzfindStartsWith’ from incompatible pointer type [enabled by default]
   gzfindStartsWith(currentFile,"DatHeader",buffer);
   ^
read_abatch.c:1416:14: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 static void  gzfindStartsWith(gzFile my_file,char *starts, char *buffer){
              ^
read_abatch.c:2059:3: warning: passing argument 1 of ‘gzfindStartsWith’ from incompatible pointer type [enabled by default]
   gzfindStartsWith(currentFile,"Algorithm",buffer);
   ^
read_abatch.c:1416:14: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 static void  gzfindStartsWith(gzFile my_file,char *starts, char *buffer){
              ^
read_abatch.c:2067:3: warning: passing argument 1 of ‘gzfindStartsWith’ from incompatible pointer type [enabled by default]
   gzfindStartsWith(currentFile,"AlgorithmParameters",buffer);
   ^
read_abatch.c:1416:14: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 static void  gzfindStartsWith(gzFile my_file,char *starts, char *buffer){
              ^
read_abatch.c:2072:3: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
   gzclose(currentFile);
   ^
In file included from fread_functions.h:12:0,
                 from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_abatch.c: In function ‘gz_get_masks_outliers’:
read_abatch.c:2100:15: warning: assignment from incompatible pointer type [enabled by default]
   currentFile = open_gz_cel_file(filename);
               ^
read_abatch.c:2104:3: warning: passing argument 1 of ‘gzAdvanceToSection’ from incompatible pointer type [enabled by default]
   gzAdvanceToSection(currentFile,"[MASKS]",buffer);
   ^
read_abatch.c:1439:13: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 static void gzAdvanceToSection(gzFile my_file,char *sectiontitle, char *buffer){
             ^
read_abatch.c:2105:3: warning: passing argument 1 of ‘gzfindStartsWith’ from incompatible pointer type [enabled by default]
   gzfindStartsWith(currentFile,"NumberCells=",buffer); 
   ^
read_abatch.c:1416:14: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 static void  gzfindStartsWith(gzFile my_file,char *starts, char *buffer){
              ^
read_abatch.c:2109:3: warning: passing argument 1 of ‘gzfindStartsWith’ from incompatible pointer type [enabled by default]
   gzfindStartsWith(currentFile,"CellHeader=",buffer); 
   ^
read_abatch.c:1416:14: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 static void  gzfindStartsWith(gzFile my_file,char *starts, char *buffer){
              ^
read_abatch.c:2118:5: warning: passing argument 3 of ‘ReadgzFileLine’ from incompatible pointer type [enabled by default]
     ReadgzFileLine(buffer, BUF_SIZE, currentFile);
     ^
read_abatch.c:1354:13: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 static void ReadgzFileLine(char *buffer, int buffersize, gzFile currentFile){
             ^
read_abatch.c:2133:3: warning: passing argument 1 of ‘gzAdvanceToSection’ from incompatible pointer type [enabled by default]
   gzAdvanceToSection(currentFile,"[OUTLIERS]",buffer);
   ^
read_abatch.c:1439:13: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 static void gzAdvanceToSection(gzFile my_file,char *sectiontitle, char *buffer){
             ^
read_abatch.c:2134:3: warning: passing argument 1 of ‘gzfindStartsWith’ from incompatible pointer type [enabled by default]
   gzfindStartsWith(currentFile,"NumberCells=",buffer);
   ^
read_abatch.c:1416:14: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 static void  gzfindStartsWith(gzFile my_file,char *starts, char *buffer){
              ^
read_abatch.c:2138:3: warning: passing argument 1 of ‘gzfindStartsWith’ from incompatible pointer type [enabled by default]
   gzfindStartsWith(currentFile,"CellHeader=",buffer); 
   ^
read_abatch.c:1416:14: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 static void  gzfindStartsWith(gzFile my_file,char *starts, char *buffer){
              ^
read_abatch.c:2146:5: warning: passing argument 3 of ‘ReadgzFileLine’ from incompatible pointer type [enabled by default]
     ReadgzFileLine(buffer, BUF_SIZE, currentFile);      
     ^
read_abatch.c:1354:13: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 static void ReadgzFileLine(char *buffer, int buffersize, gzFile currentFile){
             ^
read_abatch.c:2158:3: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
   gzclose(currentFile);
   ^
In file included from fread_functions.h:12:0,
                 from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_abatch.c: In function ‘isgzBinaryCelFile’:
read_abatch.c:3141:15: warning: assignment from incompatible pointer type [enabled by default]
   if ((infile = gzopen(filename, "rb")) == NULL)
               ^
read_abatch.c:3148:5: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
     gzclose(infile);
     ^
In file included from fread_functions.h:12:0,
                 from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_abatch.c:3153:5: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
     gzclose(infile);
     ^
In file included from fread_functions.h:12:0,
                 from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_abatch.c:3159:5: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
     gzclose(infile);
     ^
In file included from fread_functions.h:12:0,
                 from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_abatch.c:3164:5: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
     gzclose(infile);
     ^
In file included from fread_functions.h:12:0,
                 from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_abatch.c:3169:3: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
   gzclose(infile);
   ^
In file included from fread_functions.h:12:0,
                 from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_abatch.c: In function ‘gzread_binary_header’:
read_abatch.c:3192:15: warning: assignment from incompatible pointer type [enabled by default]
   if ((infile = gzopen(filename, "rb")) == NULL)
               ^
read_abatch.c:3247:3: warning: passing argument 1 of ‘gzread’ from incompatible pointer type [enabled by default]
   if (!gzread(infile,this_header->header,sizeof(char)*this_header->header_len)){
   ^
In file included from fread_functions.h:12:0,
                 from read_abatch.c:164:
/usr/include/zlib.h:1313:21: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT gzread OF((gzFile file, voidp buf, unsigned len));
                     ^
read_abatch.c:3289:5: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
     gzclose(infile);
     ^
In file included from fread_functions.h:12:0,
                 from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_abatch.c: In function ‘gzread_binarycel_file_intensities’:
read_abatch.c:3591:2: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
  gzclose(my_header->gzinfile);
  ^
In file included from fread_functions.h:12:0,
                 from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_abatch.c:3597:2: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
  gzclose(my_header->infile);
  ^
In file included from fread_functions.h:12:0,
                 from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct FILE *’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_abatch.c:3607:3: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
   gzclose(my_header->gzinfile);
   ^
In file included from fread_functions.h:12:0,
                 from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_abatch.c: In function ‘gzread_binarycel_file_stddev’:
read_abatch.c:3644:2: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
  gzclose(my_header->gzinfile);
  ^
In file included from fread_functions.h:12:0,
                 from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_abatch.c:3654:3: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
   gzclose(my_header->gzinfile);
   ^
In file included from fread_functions.h:12:0,
                 from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_abatch.c: In function ‘gzread_binarycel_file_npixels’:
read_abatch.c:3692:2: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
  gzclose(my_header->infile);
  ^
In file included from fread_functions.h:12:0,
                 from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct FILE *’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_abatch.c:3702:3: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
   gzclose(my_header->gzinfile);
   ^
In file included from fread_functions.h:12:0,
                 from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_abatch.c: In function ‘gz_binary_apply_masks’:
read_abatch.c:3735:3: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
   gzseek(my_header->infile,my_header->n_cells*sizeofrecords,SEEK_CUR);
   ^
In file included from fread_functions.h:12:0,
                 from read_abatch.c:164:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct FILE *’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_abatch.c:3748:5: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
     gzseek(my_header->gzinfile,my_header->n_masks*sizeof(cur_loc),SEEK_CUR);
     ^
In file included from fread_functions.h:12:0,
                 from read_abatch.c:164:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_abatch.c:3761:5: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
     gzseek(my_header->gzinfile,my_header->n_outliers*sizeof(cur_loc),SEEK_CUR);
     ^
In file included from fread_functions.h:12:0,
                 from read_abatch.c:164:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_abatch.c:3764:3: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
   gzclose(my_header->gzinfile);
   ^
In file included from fread_functions.h:12:0,
                 from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_abatch.c: In function ‘gzbinary_get_masks_outliers’:
read_abatch.c:3797:3: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
   gzseek(my_header->gzinfile,my_header->n_cells*sizeofrecords,SEEK_CUR);
   ^
In file included from fread_functions.h:12:0,
                 from read_abatch.c:164:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_abatch.c:3827:3: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
   gzclose(my_header->gzinfile);
   ^
In file included from fread_functions.h:12:0,
                 from read_abatch.c:164:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
gcc -std=gnu99 -I/home/biocbuild/bbs-3.3-bioc/R/include -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -I/usr/local/include   -g -O2   -fpic  -g -O2  -c read_bpmap.c -o read_bpmap.o
gcc -std=gnu99 -I/home/biocbuild/bbs-3.3-bioc/R/include -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -I/usr/local/include   -g -O2   -fpic  -g -O2  -c read_cdf_xda.c -o read_cdf_xda.o
gcc -std=gnu99 -I/home/biocbuild/bbs-3.3-bioc/R/include -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -I/usr/local/include   -g -O2   -fpic  -g -O2  -c read_cdffile2.c -o read_cdffile2.o
gcc -std=gnu99 -I/home/biocbuild/bbs-3.3-bioc/R/include -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -I/usr/local/include   -g -O2   -fpic  -g -O2  -c read_celfile_generic.c -o read_celfile_generic.o
read_celfile_generic.c: In function ‘isgzGenericCelFile’:
read_celfile_generic.c:1067:15: warning: assignment from incompatible pointer type [enabled by default]
   if ((infile = gzopen(filename, "rb")) == NULL)
               ^
read_celfile_generic.c:1074:5: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
     gzclose(infile);
     ^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_celfile_generic.c:1080:5: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
     gzclose(infile);
     ^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_celfile_generic.c:1089:4: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
    gzclose(infile);
    ^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_celfile_generic.c:1094:3: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
   gzclose(infile);
   ^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_celfile_generic.c: In function ‘gzgeneric_get_header_info’:
read_celfile_generic.c:1115:15: warning: assignment from incompatible pointer type [enabled by default]
   if ((infile = gzopen(filename, "rb")) == NULL)
               ^
read_celfile_generic.c:1151:3: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
   gzclose(infile);
   ^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_celfile_generic.c: In function ‘gzgeneric_get_detailed_header_info’:
read_celfile_generic.c:1175:15: warning: assignment from incompatible pointer type [enabled by default]
   if ((infile = gzopen(filename, "rb")) == NULL)
               ^
read_celfile_generic.c:1633:3: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
   gzclose(infile);
   ^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_celfile_generic.c: In function ‘check_gzgeneric_cel_file’:
read_celfile_generic.c:1661:15: warning: assignment from incompatible pointer type [enabled by default]
   if ((infile = gzopen(filename, "rb")) == NULL)
               ^
read_celfile_generic.c:1701:3: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
   gzclose(infile);
   ^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_celfile_generic.c: In function ‘gzread_genericcel_file_intensities’:
read_celfile_generic.c:1726:15: warning: assignment from incompatible pointer type [enabled by default]
   if ((infile = gzopen(filename, "rb")) == NULL)
               ^
read_celfile_generic.c:1745:3: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
   gzclose(infile);
   ^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_celfile_generic.c: In function ‘gzread_genericcel_file_stddev’:
read_celfile_generic.c:1777:15: warning: assignment from incompatible pointer type [enabled by default]
   if ((infile = gzopen(filename, "rb")) == NULL)
               ^
read_celfile_generic.c:1790:3: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
   gzseek(infile, my_data_set.file_pos_last, SEEK_SET); 
   ^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_celfile_generic.c:1802:3: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
   gzclose(infile);
   ^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_celfile_generic.c: In function ‘gzread_genericcel_file_npixels’:
read_celfile_generic.c:1831:15: warning: assignment from incompatible pointer type [enabled by default]
   if ((infile = gzopen(filename, "rb")) == NULL)
               ^
read_celfile_generic.c:1844:3: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
   gzseek(infile, my_data_set.file_pos_last, SEEK_SET); 
   ^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_celfile_generic.c:1848:3: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
   gzseek(infile, my_data_set.file_pos_last, SEEK_SET); 
   ^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_celfile_generic.c:1861:3: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
   gzclose(infile);
   ^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_celfile_generic.c: In function ‘gzgeneric_get_masks_outliers’:
read_celfile_generic.c:1896:15: warning: assignment from incompatible pointer type [enabled by default]
   if ((infile = gzopen(filename, "rb")) == NULL)
               ^
read_celfile_generic.c:1910:3: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
   gzseek(infile, my_data_set.file_pos_last, SEEK_SET); 
   ^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_celfile_generic.c:1915:3: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
   gzseek(infile, my_data_set.file_pos_last, SEEK_SET); 
   ^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_celfile_generic.c:1920:3: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
   gzseek(infile, my_data_set.file_pos_last, SEEK_SET); 
   ^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_celfile_generic.c:1939:3: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
   gzseek(infile, my_data_set.file_pos_last, SEEK_SET); 
   ^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_celfile_generic.c:1960:3: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
   gzclose(infile);
   ^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_celfile_generic.c: In function ‘gzgeneric_apply_masks’:
read_celfile_generic.c:1991:15: warning: assignment from incompatible pointer type [enabled by default]
   if ((infile = gzopen(filename, "rb")) == NULL)
               ^
read_celfile_generic.c:2012:3: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
   gzseek(infile, my_data_set.file_pos_last, SEEK_SET); 
   ^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_celfile_generic.c:2017:3: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
   gzseek(infile, my_data_set.file_pos_last, SEEK_SET); 
   ^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_celfile_generic.c:2022:3: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
   gzseek(infile, my_data_set.file_pos_last, SEEK_SET); 
   ^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_celfile_generic.c:2038:3: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
   gzseek(infile, my_data_set.file_pos_last, SEEK_SET); 
   ^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_celfile_generic.c:2056:3: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
   gzclose(infile);
   ^
In file included from read_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
gcc -std=gnu99 -I/home/biocbuild/bbs-3.3-bioc/R/include -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -I/usr/local/include   -g -O2   -fpic  -g -O2  -c read_clf.c -o read_clf.o
gcc -std=gnu99 -I/home/biocbuild/bbs-3.3-bioc/R/include -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -I/usr/local/include   -g -O2   -fpic  -g -O2  -c read_generic.c -o read_generic.o
read_generic.c: In function ‘gzread_ASTRING_fw’:
read_generic.c:927:2: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
  gzseek(instream, length-destination->len, SEEK_CUR);
  ^
In file included from fread_functions.h:12:0,
                 from read_generic.c:50:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_generic.c: In function ‘gzread_AWSTRING_fw’:
read_generic.c:973:2: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
  gzseek(instream, length-2*destination->len, SEEK_CUR);
  ^
In file included from fread_functions.h:12:0,
                 from read_generic.c:50:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_generic.c: In function ‘gzRead_Generic’:
read_generic.c:1508:15: warning: assignment from incompatible pointer type [enabled by default]
   if ((infile = gzopen(cur_file_name, "rb")) == NULL)
               ^
read_generic.c:1540:7: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
       gzseek(infile, my_data_set.file_pos_last, SEEK_SET);
       ^
In file included from fread_functions.h:12:0,
                 from read_generic.c:50:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
gcc -std=gnu99 -I/home/biocbuild/bbs-3.3-bioc/R/include -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -I/usr/local/include   -g -O2   -fpic  -g -O2  -c read_multichannel_celfile_generic.c -o read_multichannel_celfile_generic.o
read_multichannel_celfile_generic.c: In function ‘isgzGenericMultiChannelCelFile’:
read_multichannel_celfile_generic.c:620:15: warning: assignment from incompatible pointer type [enabled by default]
   if ((infile = gzopen(filename, "rb")) == NULL)
               ^
read_multichannel_celfile_generic.c:627:5: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
     gzclose(infile);
     ^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_multichannel_celfile_generic.c:633:5: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
     gzclose(infile);
     ^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_multichannel_celfile_generic.c:642:4: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
    gzclose(infile);
    ^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_multichannel_celfile_generic.c:647:3: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
   gzclose(infile);
   ^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_multichannel_celfile_generic.c: In function ‘gzmultichannel_determine_number_channels’:
read_multichannel_celfile_generic.c:677:15: warning: assignment from incompatible pointer type [enabled by default]
   if ((infile = gzopen(filename, "rb")) == NULL)
               ^
read_multichannel_celfile_generic.c:701:5: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
     gzseek(infile,next_group,SEEK_SET);
     ^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_multichannel_celfile_generic.c:704:3: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
   gzclose(infile);
   ^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_multichannel_celfile_generic.c: In function ‘gzmultichannel_determine_channel_name’:
read_multichannel_celfile_generic.c:729:15: warning: assignment from incompatible pointer type [enabled by default]
   if ((infile = gzopen(filename, "rb")) == NULL)
               ^
read_multichannel_celfile_generic.c:741:5: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
     gzseek(infile,next_group,SEEK_SET);
     ^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_multichannel_celfile_generic.c:751:3: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
   gzclose(infile);
   ^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_multichannel_celfile_generic.c: In function ‘gzread_genericcel_file_intensities_multichannel’:
read_multichannel_celfile_generic.c:778:15: warning: assignment from incompatible pointer type [enabled by default]
   if ((infile = gzopen(filename, "rb")) == NULL)
               ^
read_multichannel_celfile_generic.c:793:5: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
     gzseek(infile,next_group,SEEK_SET);
     ^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_multichannel_celfile_generic.c:807:3: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
   gzclose(infile);
   ^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_multichannel_celfile_generic.c: In function ‘gzread_genericcel_file_stddev_multichannel’:
read_multichannel_celfile_generic.c:834:15: warning: assignment from incompatible pointer type [enabled by default]
   if ((infile = gzopen(filename, "rb")) == NULL)
               ^
read_multichannel_celfile_generic.c:849:5: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
     gzseek(infile,next_group,SEEK_SET);
     ^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_multichannel_celfile_generic.c:856:3: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
   gzseek(infile, my_data_set.file_pos_last, SEEK_SET); 
   ^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_multichannel_celfile_generic.c:867:3: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
   gzclose(infile);
   ^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_multichannel_celfile_generic.c: In function ‘gzread_genericcel_file_npixels_multichannel’:
read_multichannel_celfile_generic.c:896:15: warning: assignment from incompatible pointer type [enabled by default]
   if ((infile = gzopen(filename, "rb")) == NULL)
               ^
read_multichannel_celfile_generic.c:912:5: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
     gzseek(infile,next_group,SEEK_SET);
     ^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_multichannel_celfile_generic.c:919:3: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
   gzseek(infile, my_data_set.file_pos_last, SEEK_SET); 
   ^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_multichannel_celfile_generic.c:923:3: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
   gzseek(infile, my_data_set.file_pos_last, SEEK_SET); 
   ^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_multichannel_celfile_generic.c:936:3: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
   gzclose(infile);
   ^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_multichannel_celfile_generic.c: In function ‘gzgeneric_get_masks_outliers_multichannel’:
read_multichannel_celfile_generic.c:965:15: warning: assignment from incompatible pointer type [enabled by default]
   if ((infile = gzopen(filename, "rb")) == NULL)
               ^
read_multichannel_celfile_generic.c:981:5: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
     gzseek(infile,next_group,SEEK_SET);
     ^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_multichannel_celfile_generic.c:989:3: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
   gzseek(infile, my_data_set.file_pos_last, SEEK_SET); 
   ^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_multichannel_celfile_generic.c:994:3: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
   gzseek(infile, my_data_set.file_pos_last, SEEK_SET); 
   ^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_multichannel_celfile_generic.c:999:3: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
   gzseek(infile, my_data_set.file_pos_last, SEEK_SET); 
   ^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_multichannel_celfile_generic.c:1018:3: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
   gzseek(infile, my_data_set.file_pos_last, SEEK_SET); 
   ^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_multichannel_celfile_generic.c:1039:3: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
   gzclose(infile);
   ^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
read_multichannel_celfile_generic.c: In function ‘gzgeneric_apply_masks_multichannel’:
read_multichannel_celfile_generic.c:1069:15: warning: assignment from incompatible pointer type [enabled by default]
   if ((infile = gzopen(filename, "rb")) == NULL)
               ^
read_multichannel_celfile_generic.c:1090:3: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
   gzseek(infile, my_data_set.file_pos_last, SEEK_SET); 
   ^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_multichannel_celfile_generic.c:1095:3: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
   gzseek(infile, my_data_set.file_pos_last, SEEK_SET); 
   ^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_multichannel_celfile_generic.c:1100:3: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
   gzseek(infile, my_data_set.file_pos_last, SEEK_SET); 
   ^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_multichannel_celfile_generic.c:1116:3: warning: passing argument 1 of ‘gzseek’ from incompatible pointer type [enabled by default]
   gzseek(infile, my_data_set.file_pos_last, SEEK_SET); 
   ^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1726:28: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
    ZEXTERN z_off_t ZEXPORT gzseek OF((gzFile, z_off_t, int));
                            ^
read_multichannel_celfile_generic.c:1134:3: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [enabled by default]
   gzclose(infile);
   ^
In file included from read_multichannel_celfile_generic.c:43:0:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile’ but argument is of type ‘struct gzFile_s **’
 ZEXTERN int ZEXPORT    gzclose OF((gzFile file));
                        ^
gcc -std=gnu99 -I/home/biocbuild/bbs-3.3-bioc/R/include -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -I/usr/local/include   -g -O2   -fpic  -g -O2  -c read_pgf.c -o read_pgf.o
read_pgf.c: In function ‘pgf_count_probeset_types’:
read_pgf.c:1265:28: warning: assignment from incompatible pointer type [enabled by default]
  my_pgf->probesets->current= my_pgf->probesets->current->next;
                            ^
gcc -std=gnu99 -shared -L/home/biocbuild/bbs-3.3-bioc/R/lib -L/usr/local/lib -o affyio.so fread_functions.o init_package.o read_abatch.o read_bpmap.o read_cdf_xda.o read_cdffile2.o read_celfile_generic.o read_clf.o read_generic.o read_multichannel_celfile_generic.o read_pgf.o -lpthread -lz -lpthread -L/home/biocbuild/bbs-3.3-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.3-bioc/meat/affyio.Rcheck/affyio/libs
** R
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded
* DONE (affyio)