gcc --version
gcc (Homebrew gcc 5.3.0) 5.3.0
In file included from src/fqheader.h:21:0,
from src/fqfile.c:14:
/usr/include/zlib.h:1324:21: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s *'
ZEXTERN int ZEXPORT gzwrite OF((gzFile file,
^
src/fqfile.c: In function 'fqfile_eof_file_fastq_compressed':
src/fqfile.c:285:18: warning: passing argument 1 of 'gzeof' from incompatible pointer type [-Wincompatible-pointer-types]
return gzeof((gzFile*)(((fqfile*)f)->handle));
^
In file included from src/fqheader.h:21:0,
from src/fqfile.c:14:
/usr/include/zlib.h:1458:21: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s *'
ZEXTERN int ZEXPORT gzeof OF((gzFile file));
^
src/fqfile.c: In function 'fqfile_flush_file_fastq_compressed':
src/fqfile.c:302:13: warning: passing argument 1 of 'gzflush' from incompatible pointer type [-Wincompatible-pointer-types]
gzflush((gzFile*)(((fqfile*)f)->handle), 0);
^
In file included from src/fqheader.h:21:0,
from src/fqfile.c:14:
/usr/include/zlib.h:1395:21: note: expected 'gzFile {aka struct gzFile_s *}' but argument is of type 'struct gzFile_s *'
ZEXTERN int ZEXPORT gzflush OF((gzFile file, int flush));
^
cc -O2 -g -Wall -Wextra -Wno-unused-parameter -I/bio/linuxbrew/opt/htslib/include -c -o src/fqfsin.o src/fqfsin.c
cc -O2 -g -Wall -Wextra -Wno-unused-parameter -I/bio/linuxbrew/opt/htslib/include -c -o src/fqfsout.o src/fqfsout.c
src/fqfsout.c: In function 'fqfsout_writechar':
src/fqfsout.c:165:14: warning: variable 'result' set but not used [-Wunused-but-set-variable]
fqstatus result;
^
src/fqfsout.c: In function 'fqfsout_write':
src/fqfsout.c:178:14: warning: variable 'result' set but not used [-Wunused-but-set-variable]
fqstatus result;
^
cc -O2 -g -Wall -Wextra -Wno-unused-parameter -I/bio/linuxbrew/opt/htslib/include -c -o src/fqfileprep.o src/fqfileprep.c
src/fqfileprep.c: In function 'prepare_filesets':
src/fqfileprep.c:86:15: warning: 'informat_2' may be used uninitialized in this function [-Wmaybe-uninitialized]
if((outformat_2 == FQ_FORMAT_UNKNOWN) && (options.input_interleaving == FQ_INTERLEAVED)) outformat_2 = info
^
