Task: version - sanger-pathogens/ariba GitHub Wiki
This outputs version information of ARIBA and its dependencies, then quits. It will report any problems with the dependencies.
There are no options, just run it like this:
ariba version
If all is well, the output should be similar to this:
ARIBA version: 2.6.1 External dependencies: bowtie2 2.2.9 /home/ubuntu/bin//bowtie2 cdhit 4.6 /home/ubuntu/.local/apps/usr/bin/cd-hit-est nucmer 3.1 /home/ubuntu/.local/apps/usr/bin/nucmer External dependencies OK: True Python version: 3.3.2 (default, Jun 14 2013, 09:36:13) [GCC 4.6.3] Python packages: ariba 2.6.1 /home/ubuntu/.local/lib/python3.3/site-packages/ariba-2.6.1-py3.3-linux-x86_64.egg/ariba/__init__.py dendropy 4.1.0 /home/ubuntu/.local/lib/python3.3/site-packages/DendroPy-4.1.0-py3.3.egg/dendropy/__init__.py pyfastaq 3.14.0 /home/ubuntu/.local/lib/python3.3/site-packages/pyfastaq-3.14.0-py3.3.egg/pyfastaq/__init__.py pymummer 0.10.1 /home/ubuntu/.local/lib/python3.3/site-packages/pymummer-0.10.1-py3.3.egg/pymummer/__init__.py pysam 0.9.1.4 /home/ubuntu/.local/lib/python3.3/site-packages/pysam/__init__.py Python packages OK: True Everything looks OK: True