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abyss-software

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Abyss

Assembly By Short Sequences - a de novo, parallel, paired-end sequence assembler.

Information

Usage

See versions of abyss which are available:

$ module avail abyss

Load one version into your environment and run it:

$ module load abyss/2.0.2
$ abyss-pe help

Installation

Notes from the sysadmin during installation:

$ cd /tmp
$ wget http://www.bcgsc.ca/platform/bioinfo/software/abyss/releases/2.0.2/abyss-2.0.2.tar.gz
$ tar xf abyss-2.0.2.tar.gz 
$ cd abyss-2.0.2
$ scl enable devtoolset-4 bash
$ ./configure --prefix=/export/apps/abyss/2.0.2 --with-boost=/export/apps/boost/1.65.1/include --with-mpi=/export/apps/openmpi/1.8.2
$ make -j4
$ sudo mkdir /export/apps/abyss/2.0.2
$ sudo chown aorth /export/apps/abyss/2.0.2
$ make install
$ sudo chown -R root:root /export/apps/abyss/2.0.2
abyss-software.txt · Last modified: 2017/10/14 16:39 by aorth