Please help me install tabix

Discussion in 'OS X Mountain Lion (10.8)' started by LouiseT, Feb 11, 2013.

  1. macrumors newbie

    Joined:
    Feb 11, 2013
    #1
    Hi
    I have basic problems installing software through my terminal.
    (I have OS X 10.8.2, and have installed 'develupers package with Xcode, make, gcc...)
    I am trying to install tabix (samtools). It does not have an INSTALL file for guidance. Do I need to use ./configure ?

    53132-b99690:tabix-0.2.6 3 lthingholm$ ./configure
    -bash: ./configure: No such file or directory

    Do I need to do something to get configure in my PATH, is it just not needed or?
    when I type $ make I get the following error:

    gcc -c -g -Wall -O2 -fPIC -D_FILE_OFFSET_BITS=64 -D_USE_KNETFILE -DBGZF_CACHE bgzf.c -o bgzf.o
    bgzf.c:25:19: error: stdio.h: No such file or directory
    bgzf.c:26:20: error: stdlib.h: No such file or directory
    bgzf.c:27:20: error: string.h: No such file or directory
    bgzf.c:28:20: error: unistd.h: No such file or directory
    bgzf.c:29:20: error: assert.h: No such file or directory
    bgzf.c:30:23: error: sys/types.h: No such file or directory
    In file included from bgzf.c:31:
    bgzf.h:31:20: error: stdint.h: No such file or directory
    bgzf.h:33:18: error: zlib.h: No such file or directory
    In file included from bgzf.c:31:
    bgzf.h:46: error: expected specifier-qualifier-list before ‘int64_t’
    bgzf.h:55: error: expected specifier-qualifier-list before ‘size_t’
    bgzf.h:99: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘bgzf_read’
    bgzf.h:109: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘bgzf_write’
    bgzf.h:132: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘bgzf_seek’
    and so on..

    Maybe I need a BGZF library or I need to put it in my path?

    Please help my move on from here!
    Thanks
     

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