Re: [Samtools-help] SAM installation

[Jonathan C. <jon...@gm...>]

The "INSTALL" file, which should be in the top-level directory after
unpacking, mentions a couple of prerequisites.  From the error
messages it looks like it can't find zlib on your system.

Jonathan

On Thu, Jan 27, 2011 at 3:58 PM, COCO 2001 <coc...@ho...> wrote:
> Please, help me install samtools on Linux.
> Is there are step by step guide including prerequisites?
> I've downloaded samtools-0.1.12a.tar.bz and unpack it. Tried running 'Make'
> and get the following:
> make[1]: Entering directory `/xxxx/xxxx/Desktop/samtools-0.1.12a'
> make[2]: Entering directory `/xxxx/xxxx/Desktop/samtools-0.1.12a'
> gcc -c -g -Wall -O2  -D_FILE_OFFSET_BITS=64 -D_USE_KNETFILE -D_CURSES_LIB=1
> -I. bgzf.c -o bgzf.o
> In file included from bgzf.c:36:
> bgzf.h:30:18: error: zlib.h: No such file or directory
> bgzf.c: In function âdeflate_blockâ:
> bgzf.c:257: error: âZ_DEFAULT_COMPRESSIONâ undeclared (first use in this
> function)
> bgzf.c:257: error: (Each undeclared identifier is reported only once
> bgzf.c:257: error: for each function it appears in.)
> bgzf.c:258: error: âz_streamâ undeclared (first use in this function)
> bgzf.c:258: error: expected â;â before âzsâ
> bgzf.c:259: error: âzsâ undeclared (first use in this function)
> bgzf.c:266: warning: implicit declaration of function âdeflateInit2â
> bgzf.c:266: error: âZ_DEFLATEDâ undeclared (first use in this function)
> bgzf.c:267: error: âZ_DEFAULT_STRATEGYâ undeclared (first use in this
> function)
> bgzf.c:268: error: âZ_OKâ undeclared (first use in this function)
> bgzf.c:272: warning: implicit declaration of function âdeflateâ
> bgzf.c:272: error: âZ_FINISHâ undeclared (first use in this function)
> bgzf.c:273: error: âZ_STREAM_ENDâ undeclared (first use in this function)
> bgzf.c:274: warning: implicit declaration of function âdeflateEndâ
> bgzf.c:306: warning: implicit declaration of function âcrc32â
> bgzf.c: In function âinflate_blockâ:
> bgzf.c:332: error: âz_streamâ undeclared (first use in this function)
> bgzf.c:332: error: expected â;â before âzsâ
> bgzf.c:333: error: âzsâ undeclared (first use in this function)
> bgzf.c:340: warning: implicit declaration of function âinflateInit2â
> bgzf.c:341: error: âZ_OKâ undeclared (first use in this function)
> bgzf.c:345: warning: implicit declaration of function âinflateâ
> bgzf.c:345: error: âZ_FINISHâ undeclared (first use in this function)
> bgzf.c:346: error: âZ_STREAM_ENDâ undeclared (first use in this function)
> bgzf.c:347: warning: implicit declaration of function âinflateEndâ
> bgzf.c: In function âcheck_headerâ:
> bgzf.c:365: error: âZ_DEFLATEDâ undeclared (first use in this function)
> make[2]: *** [bgzf.o] Error 1
> make[2]: Leaving directory `/xxxx/xxxx/Desktop/samtools-0.1.12a'
> make[1]: *** [lib-recur] Error 1
> make[1]: Leaving directory `/xxxx/xxxx/Desktop/samtools-0.1.12a'
> make: *** [all-recur] Error 1
>
> Thanks!
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