The MISO_LIMS_Cloud is designed to be easily deployed for MISO on Compute Canada Cloud like Cedar (https://cedar.cloud.computecanada.ca/). By using the template, you can deploy MISO on a single OpenStack instance using Terraform.

MISO is an open source Lab Information Management System (LIMS) developped at the Earlham Institute, Ontario Institute for Cancer Research (OICR). MISO can be used to store relevant metadata based on a wide array of NGS sequencing platforms (e.g. Illumina GA, HiSeq and MiSeq, Roche 454, ABI SOLiD and PacBio RS) and public repository data submission schemas (e.g. the Sequence Read Archive at the EBI), and has many features common to bespoke and proprietary LIMS, such as secure authentication, fine-grained access control, barcode tracking, and reporting.

$ wget -P /tmp/ https://releases.hashicorp.com/terraform/0.12.6/terraform_0.12.6_linux_amd64.zip
--
$ unzip /tmp/terraform_0.12.6_linux_amd64.zip
$ sudo mv terraform /usr/local/bin/
$ terraform --version

$ sudo apt-get install python3-dev
$ sudo apt-get install python3-pip
$ sudo apt-get install python-virtualenv
$ virtualenv ~/venv
$ source ~/venv/bin/activate
$ pip3 install --upgrade setuptools
$ pip3 install python-openstackclient

Log in to the OpenStack dashboard, choose the project for which you want to download the OpenStack RC file, and run the following commands:

$ source your-project-openrc.sh
Please enter your OpenStack Password for project PROJECT as user username:

This lists the images available to you.

$ openstack image list

This lists the volumes you have created.

$ openstack volume list

This lists the flavors available to you.

$ openstack flavor list

Note: please check those resources and replace the content in the variables.tf file.

$ git clone https://github.com/cidgoh/MISO_LIMS_Cloud.git
$ cd MISO_LIMS_Cloud
$ terraform init
$ terraform plan
$ terraform apply

• MISO is an open source Lab Information Management System (LIMS) developped at the Earlham Institute, Ontario Institute for Cancer Research (OICR).

• MISO tutorial

If you have any problems running the scripts, please open an issue for discussion.

or email to [email protected]