Mercurial > repos > ryanmorin > nextgen_variant_identification
comparison SNV/SNVMix2_source/SNVMix2-v0.12.1-rc1/samtools-0.1.6/INSTALL @ 0:74f5ea818cea
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| author | ryanmorin |
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| date | Wed, 12 Oct 2011 19:50:38 -0400 |
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| -1:000000000000 | 0:74f5ea818cea |
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| 1 System Requirements | |
| 2 =================== | |
| 3 | |
| 4 SAMtools depends on the zlib library <http://www.zlib.net>. The latest | |
| 5 version 1.2.3 is preferred and with the latest version you can compile | |
| 6 razip and use it to compress a FASTA file. SAMtools' faidx is able to | |
| 7 index a razip-compressed FASTA file to save diskspace. Older zlib also | |
| 8 works with SAMtools, but razip cannot be compiled. | |
| 9 | |
| 10 The text-based viewer (tview) requires the GNU ncurses library | |
| 11 <http://www.gnu.org/software/ncurses/>, which comes with Mac OS X and | |
| 12 most of the modern Linux/Unix distributions. If you do not have this | |
| 13 library installed, you can still compile the rest of SAMtools by | |
| 14 manually modifying one line in Makefile. | |
| 15 | |
| 16 | |
| 17 Compilation | |
| 18 =========== | |
| 19 | |
| 20 Type `make' to compile samtools. If you have zlib >= 1.2.2.1, you can | |
| 21 compile razip with `make razip'. | |
| 22 | |
| 23 | |
| 24 Installation | |
| 25 ============ | |
| 26 | |
| 27 Simply copy `samtools' and other executables/scripts in `misc' to a | |
| 28 location you want (e.g. a directory in your $PATH). No further | |
| 29 configurations are required. |