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SDK for GPU accelerated genome assembly and analysis.



See versions of genomeworks that are available:

$ module avail genomeworks

Load one version into your environment and run it:

$ module load genomeworks/git-baab5668
$ cudamapper
$ cudapoa

Note: genomeworks only works on nodes that have an Nvidia GPU (currently only compute06).


Notes from the sysadmin during installation.

$ cd /tmp
$ git clone --recursive -b dev
$ cd GenomeWorks
$ mkdir build && cd build
$ scl enable devtoolset-7 bash
$ module load python/3.8
$ cmake3 .. -DCMAKE_BUILD_TYPE=Release -DCMAKE_INSTALL_PREFIX=/export/apps/genomeworks/git-baab5668 -Dgw_cuda_gen_all_arch=OFF -Dgw_build_htslib=ON
$ make
$ sudo mkdir -p /export/apps/genomeworks/git-baab5668
$ sudo chown aorth /export/apps/genomeworks/git-baab5668
$ make install
$ sudo chown -R root:root /export/apps/genomeworks/git-baab5668

I compiled from the dev branch because the latest release tag (v2021.02.2) has build issues in our environment.

genomeworks-software.txt · Last modified: 2021/09/20 07:44 by aorth