[Bioperl-l] about the Bio::SeqIO::staden::read

Magic Fang fangl at genomics.org.cn
Tue Nov 25 23:51:10 EST 2003


hi mackey,
i want to install Bio::SeqIO::staden::read module, and got error 
messages when compiled it.
...

/usr/local/genome/include/io_lib/os.h:9:1: warning: "INT_MAX" redefined
In file included from /usr/include/sys/param.h:107,
                 from /usr/local/lib/perl5/5.6.1/mach/CORE/perl.h:497,
                 from read.xs:2:
/usr/include/sys/limits.h:62:1: warning: this is the location of the previous definition
In file included from /usr/local/genome/include/io_lib/Read.h:43,
                 from read.xs:5:
/usr/local/genome/include/io_lib/os.h:10:1: warning: "SHRT_MAX" redefined
In file included from /usr/include/sys/param.h:107,
                 from /usr/local/lib/perl5/5.6.1/mach/CORE/perl.h:497,
                 from read.xs:2:
/usr/include/sys/limits.h:58:1: warning: this is the location of the previous definition
In file included from /usr/local/genome/include/io_lib/Read.h:43,
                 from read.xs:5:
/usr/local/genome/include/io_lib/os.h:24:4: #error No 2-byte integer type found.
/usr/local/genome/include/io_lib/os.h:34:4: #error No 4-byte integer type found.
In file included from /usr/local/genome/include/io_lib/Read.h:43,
                 from read.xs:5:
/usr/local/genome/include/io_lib/os.h:40: syntax error before "int_2"
/usr/local/genome/include/io_lib/os.h:40: warning: data definition has no type or storage class
/usr/local/genome/include/io_lib/os.h:41: syntax error before "uint_2"
/usr/local/genome/include/io_lib/os.h:41: warning: data definition has no type or storage class
/usr/local/genome/include/io_lib/os.h:42: syntax error before "int_4"
/usr/local/genome/include/io_lib/os.h:42: warning: data definition has no type or storage class
/usr/local/genome/include/io_lib/os.h:43: syntax error before "uint_4"
/usr/local/genome/include/io_lib/os.h:43: warning: data definition has no type or storage class
/usr/local/genome/include/io_lib/os.h:46: syntax error before "f_int"
/usr/local/genome/include/io_lib/os.h:46: warning: data definition has no type or storage class
/usr/local/genome/include/io_lib/os.h:47: syntax error before "f_implicit"
/usr/local/genome/include/io_lib/os.h:47: warning: data definition has no type or storage class
/usr/local/genome/include/io_lib/os.h:51: syntax error before "int_f"
/usr/local/genome/include/io_lib/os.h:51: warning: data definition has no type or storage class
/usr/local/genome/include/io_lib/os.h:52: syntax error before "int_fl"
/usr/local/genome/include/io_lib/os.h:52: warning: data definition has no type or storage class
In file included from /usr/local/genome/include/io_lib/Read.h:44,
                 from read.xs:5:
/usr/local/genome/include/io_lib/scf.h:79: syntax error before "uint_4"
/usr/local/genome/include/io_lib/scf.h:89: syntax error before "uint_4"
/usr/local/genome/include/io_lib/scf.h:110: syntax error before "uint_2"
/usr/local/genome/include/io_lib/scf.h:120: syntax error before "uint_4"
/usr/local/genome/include/io_lib/scf.h:432: syntax error before "samples"
In file included from read.xs:5:
/usr/local/genome/include/io_lib/Read.h:93: syntax error before "TRACE"
/usr/local/genome/include/io_lib/Read.h:93: warning: data definition has no type or storage class
/usr/local/genome/include/io_lib/Read.h:104: syntax error before "TRACE"
/usr/local/genome/include/io_lib/Read.h:112: syntax error before "uint_2"
In file included from /usr/local/genome/include/io_lib/translate.h:20,
                 from /usr/local/genome/include/io_lib/Read.h:227,

...

i can compiled it when i fixed the os.h from io_lib, but it said 
incorrected install Bio::SeqIO::staden::read when i use it.
my system is freebsd 5.1, any advice?



More information about the Bioperl-l mailing list