Metadata-Version: 2.0
Name: chmutil
Version: 0.5.1
Summary: Utility package to run CHM jobs on clusters
Home-page: https://github.com/CRBS/chmutil
Author: Christopher Churas
Author-email: churas@ncmir.ucsd.edu
License: UNKNOWN
Keywords: chmutil
Platform: UNKNOWN
Classifier: Development Status :: 2 - Pre-Alpha
Classifier: Intended Audience :: Developers
Classifier: Natural Language :: English
Classifier: Programming Language :: Python :: 2.7
Classifier: Programming Language :: Python :: 3.3
Classifier: Programming Language :: Python :: 3.4
Classifier: Programming Language :: Python :: 3.5
Requires-Dist: argparse
Requires-Dist: configparser
Requires-Dist: Pillow

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chmutil
===============================


.. image:: https://img.shields.io/pypi/v/chmutil.svg
           :target: https://pypi.python.org/pypi/chmutil

.. image:: https://pyup.io/repos/github/crbs/chmutil/shield.svg
        :target: https://pyup.io/repos/github/crbs/chmutil

.. image:: https://travis-ci.org/CRBS/chmutil.svg?branch=master
       :target: https://travis-ci.org/CRBS/chmutil

.. image:: https://coveralls.io/repos/github/CRBS/chmutil/badge.svg?branch=master
   :target: https://coveralls.io/github/CRBS/chmutil?branch=master

Utility package to run `Cascaded Hierarchical Model (CHM) <https://www.sci.utah.edu/software/chm.html>`_ jobs on clusters.

`For more information visit our wiki page <https://github.com/CRBS/chmutil/wiki>`_

Tools
--------

* **chmrunner.py** -- Runs CHM job with specific jobid

* **createchmjob.py** -- Creates a set of CHM jobs to process a set of images

* **checkchmjob.py** -- Generates script that can be used to run CHM jobs created by **createchmjob.py** on various compute clusters (Gordon, Comet, & Rocce)


Dependencies
--------------

* `argparse <https://pypi.python.org/pypi/argparse>`_

* `configparser <https://pypi.python.org/pypi/configparser>`_

* `Pillow <https://pypi.python.org/pypi/Pillow>`_

* `CHM singularity image <https://github.com/crbs/chm_singularity>`_ (not required to build this software, but is needed to run the jobs)

Compatibility
-------------

* Should work on Python 2.7 & 3+ on Linux distributions

Installation
------------

::

  pip install chmutil

Usage
--------

::

  # creates a job assuming images are in ./images and ./trainedmodel has
  # chm model
  createchmjob.py ./images ./trainedmodel myrun --cluster rocce

License
-------

See LICENSE.txt_


Bugs
-----

Please report them `here <https://github.com/CRBS/chmutil/issues>`_


Credits
---------

This package was created with Cookiecutter_ and the `audreyr/cookiecutter-pypackage`_ project template.

.. _NCMIR: https://ncmir.ucsd.edu/
.. _LICENSE.txt: https://github.com/CRBS/chmutil/blob/master/LICENSE.txt
.. _Cookiecutter: https://github.com/audreyr/cookiecutter
.. _`audreyr/cookiecutter-pypackage`: https://github.com/audreyr/cookiecutter-pypackage



=======
History
=======

0.5.1 (2017-01-12)
------------------

* Fixed account not being put into runjobs.gordon and runmerge.gordon.
  Issue #11

* Fixed errors in checking job status examples in readme.txt 
  created by createchmjob.py. Issue #12

0.5.0 (2017-01-11)
------------------

* First release on PyPI.



