1 [[!meta title="H3ABioNet Hackathon (Workflows)"]]
3 I'm in Pretoria, South Africa at the
4 [H3ABioNet](http://h3abionet.org/)
5 [hackathon](http://h3abionet.org/17-h3abionet-courses/h3abionet-courses-upcoming/266-h3abionet-cloud-computing-hackathon)
6 which is developing workflows for Illumina chip genotyping,
7 imputation, 16S rRNA sequencing, and population structure/association
8 testing. Currently, I'm working with the imputation stream and we're
9 using [Nextflow](https://www.nextflow.io/) to deploy an
10 [IMPUTE](https://mathgen.stats.ox.ac.uk/impute/impute_v2.html)-based
11 imputation workflow with Docker and
12 [NCSA's openstack-based cloud (Nebula)](https://wiki.ncsa.illinois.edu/display/NEBULA/Nebula+Home)
15 The OpenStack command line clients (`nova` and `cinder`) seem to be
17 [automate bringing up a fleet of VMs](https://github.com/h3abionet/chipimputation/blob/master/openstack/generate_openstack)
18 and the cloud-init package which is present in the images makes
19 [configuring the images pretty simple](https://github.com/h3abionet/chipimputation/tree/master/openstack).
21 Now if I just knew of a better shared object store which was supported
22 by Nextflow in OpenStack besides mounting an NFS share, things would
25 You can follow our progress in our git repo:
26 [https://github.com/h3abionet/chipimputation]
29 [[!tag debian tech biology workflows]]