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1 System Requirements
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2 ===================
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3
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4 SAMtools depends on the zlib library <http://www.zlib.net>. Version 1.2.3+ is
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5 preferred and with 1.2.3+ you can compile razip and use it to compress a FASTA
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6 file. SAMtools' faidx is able to index a razip-compressed FASTA file to save
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7 diskspace. Older zlib also works with SAMtools, but razip cannot be compiled.
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8
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9 The text-based viewer (tview) requires the GNU ncurses library
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10 <http://www.gnu.org/software/ncurses/>, which comes with Mac OS X and most of
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11 the modern Linux/Unix distributions. If you do not have this library installed,
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12 you can still compile the rest of SAMtools by manually changing:
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13 `-D_CURSES_LIB=1' to `-D_CURSES_LIB=0' at the line starting with `DFLAGS=', and
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14 comment out the line starting with `LIBCURSES='.
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15
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16
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17 Compilation
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18 ===========
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19
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20 Type `make' to compile samtools. If you have zlib >= 1.2.2.1, you can compile
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21 razip with `make razip'.
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22
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23
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24 Installation
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25 ============
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26
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27 Copy `samtools', `bcftools/bcftools' and other executables/scripts in `misc' to
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28 a location you want (e.g. a directory in your $PATH). You may also copy
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29 `samtools.1' and `bcftools/bcftools.1' to a directory in your $MANPATH such
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30 that the `man' command may find the manual.
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