Changeset 2922 for branches/0.10-stable


Ignore:
Timestamp:
Dec 19, 2012, 11:30:25 AM (9 years ago)
Author:
Peter
Message:

mention samtools and zlib in README.

File:
1 edited

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  • branches/0.10-stable/README

    r2916 r2922  
    102102== Optional packages ==
    103103
     104=== Samtools ===
     105
     106Samtools available from http://samtools.sourceforge.net/ is required
     107to enable classes related to bam files. You can build yat without
     108samtools if you run configure with `--without-samtools`, in which case
     109bam related classes are not included in built library. Header files
     110<sam.h> and <bam.h> are needed as well as library libbam. If you have
     111header files available outside compiler's search path, you can help
     112the compiler with `./configure CPPFLAGS=-I<include dir>` when header
     113files are found in directory `<include dir>`. Likewise, you can run
     114`./configure LDFLAGS=-L<lib dir>` when library is found in `<lib dir>`
     115outside linker's search path. In order to run tests related to bam
     116files, the samtools binary is also needed. If not found during
     117configuration, these tests will be skipped. If you have samtools
     118available outside PATH, you can help configure to find it with
     119`./configure SAMTOOLS=/path/to/samtools`.
     120
     121=== ZLIB ===
     122
     123Zlib available from http://www.zlib.net/ is required to build samtools
     124and consequently needed to build yat too, unless you turn off samtools
     125support (please refer to samtools section above). Header file `zlib.h`
     126and library libz are required. If installed in an unconventional
     127location you can help the compiler/linker with `CPPFLAGS=-I<include
     128dir>` and `LDFLAGS=-L<lib dir>`, respectively.
     129
    104130=== ATLAS ===
    105131
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