Upgrading to the latest version of QIIME

This page documents how to install a new version of QIIME from an installation of the previous version. It should also be possible to follow the steps to upgrade from older versions to the most recent version, but it’s best to review all steps in that case to ensure that you won’t be performing unnecessary steps.

For a detailed history of the most notable changes between versions see the QIIME ChangeLog. This points to the most recent version, so will usually also give a preview of the changes that are coming in the next version of QIIME.

1.4.0 to 1.4.0-dev (Linux)

If you want to use the repository version of QIIME in any Linux box, follow these steps:

wget http://bmf.colorado.edu/QIIME/app-deploy-qiime-1.4.0.tgz
tar zxvf app-deploy-qiime-1.4.0.tgz
cd app-deploy-qiime-1.4.0
python app-deploy.py /software/ -f etc/qiime_1.4.0_repository.conf

Note that you can replace the installation folder (/software/) for any other path in your system.

1.3.0 to 1.4.0 (QIIME Virtual Machines)

If you are upgrading your virtual machine, follow these commands to upgrade:

Open a new terminal and run:

sudo rm -rf /software/*
rm .qiime_config

Close it, open a new one and run:

wget http://bmf.colorado.edu/QIIME/app-deploy-qiime-1.4.0.tgz
tar zxvf app-deploy-qiime-1.4.0.tgz
cd app-deploy-qiime-1.4.0
python app-deploy.py /software/ -f etc/qiime_1.4.0.conf

1.3.0 to 1.4.0 (general)

• QIIME 1.4.0-dev depends on Python 2.7.1 or greater; numpy 1.5.1; and matplotlib 1.1.0.
• AmpliconNoise support has been updated to use its latest version 1.25, which can be found here.
• muscle support has been updated to use its latest version 3.8.31, which can be found link.