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SMRT Service commandline interface
==================================
A high level client to the SMRT Link Services is accessible from `ServiceAccessLayer` in `pbcommand.services`.
Client Layer
~~~~~~~~~~~~
Example:
.. code-block:: python
In [1]: from pbcommand.services import ServiceAccessLayer
In [2]: s = ServiceAccessLayer("smrtlink-alpha", 8081)
In [3]: s.get_status()
Out[3]:
{u'id': u'smrtlink_analysis',
u'message': u'Services have been up for 141 hours, 37 minutes and 13.138 seconds.',
u'uptime': 509833138,
u'user': u'secondarytest',
u'uuid': u'12e1c62a-99a4-46c1-b616-a327dc38525f',
u'version': u'0.1.8-3a66e4a'}
In [4]: jobs = s.get_analysis_jobs()
In [5]: j = s.get_analysis_job_by_id(3)
In [6]: j.state, j.name
Out[6]: ('SUCCESSFUL', 'sirv_isoseq')
In [7]: import pbcommand; pbcommand.get_version()
Out[7]: '0.4.9'
Commandline Tool Interface to Services
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
.. warning:: This has been migrated to scala in smrtflow_. Support for the python Client layer API will remain, however the python commandline tool is no longer installed by default and will be removed in a future version.
.. _smrtflow: https://github.com/PacificBiosciences/smrtflow
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