abyss-software
Differences
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| Both sides previous revisionPrevious revisionNext revision | Previous revision | ||
| abyss-software [2015/03/21 13:24] – aorth | abyss-software [2019/07/10 14:25] (current) – aorth | ||
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| ===== Information ===== | ===== Information ===== | ||
| - | * Version: 1.5.2 | + | * Version: |
| * Added: August, 2013 | * Added: August, 2013 | ||
| - | * Updated: | + | * Updated: |
| - | * K-mer size: 64 (default at compile time) | + | * K-mer size: 128 (default at compile time) |
| * Link: http:// | * Link: http:// | ||
| ===== Usage ===== | ===== Usage ===== | ||
| - | === See versions of abyss which are available | + | See versions of abyss which are available: |
| - | < | + | < |
| + | |||
| + | Load one version into your environment and run it: | ||
| + | < | ||
| + | $ abyss-pe help</ | ||
| ===== Installation ====== | ===== Installation ====== | ||
| Line 19: | Line 23: | ||
| < | < | ||
| - | $ wget https://github.com/bcgsc/ | + | $ wget http://www.bcgsc.ca/ |
| - | $ tar xf abyss-1.5.2.tar.gz | + | $ tar xf abyss-2.1.4.tar.gz |
| - | $ cd abyss-1.5.2 | + | $ cd abyss-2.1.4 |
| - | $ scl enable devtoolset-2 bash | + | $ sudo yum install sparsehash-devel.x86_64 openmpi3-devel.x86_64 |
| - | $ mkdir /tmp/abyss-build | + | $ export CPPFLAGS=' |
| - | $ cd /tmp/abyss-build | + | $ export LIBS='-Wl,-rpath -Wl,/usr/lib64/openmpi3/lib -Wl,--enable-new-dtags -L/usr/lib64/openmpi3/lib -lmpi' |
| - | $ /tmp/abyss-1.5.2/ | + | $ ./configure |
| $ make -j4 | $ make -j4 | ||
| - | $ sudo mkdir -p / | + | $ sudo mkdir -p / |
| - | $ sudo chown aorth / | + | $ sudo chown aorth / |
| $ make install | $ make install | ||
| - | $ sudo chown -R root:root / | + | $ sudo chown -R root:root / |
| + | $ sudo yum remove sparsehash-devel.x86_64 openmpi3-devel.x86_64</ | ||
| + | |||
| + | There is currently a [[https:// | ||
abyss-software.1426944282.txt.gz · Last modified: 2015/03/21 13:24 by aorth