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new-versio
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8dcf420437 | ||
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d766001bf4 | ||
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@ -7,3 +7,93 @@
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cd crankshaft
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nosetests test/
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```
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## Notes about python dependencies
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* This extension is targeted at production databases. Therefore certain restrictions must be assumed about the production environment vs other experimental environments.
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* We're using `pip` and `virtualenv` to generate a suitable isolated environment for python code that has all the dependencies
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* Every dependency should be:
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- Added to the `setup.py` file
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- Installed through it
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- Tested, when they have a test suite.
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- Fixed in the `requirements.txt`
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* At present we use Python version 2.7.3
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---
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### Sample session with virtualenv
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#### Create and use a virtual env
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# Create the virtual environment for python
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$ virtualenv myenv
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# Activate the virtualenv
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$ source myenv/bin/activate
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# Install all the requirements
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# expect this to take a while, as it will trigger a few compilations
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(myenv) $ pip install -r requirements.txt
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# Add a new pip to the party
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(myenv) $ pip install pandas
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#### Test the libraries with that virtual env
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##### Test numpy library dependency:
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import numpy
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numpy.test('full')
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output:
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```
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======================================================================
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ERROR: test_multiarray.TestNewBufferProtocol.test_relaxed_strides
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----------------------------------------------------------------------
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Traceback (most recent call last):
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File "/home/ubuntu/www/crankshaft/src/py/dev2/lib/python2.7/site-packages/nose/case.py", line 197, in runTest
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self.test(*self.arg)
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File "/home/ubuntu/www/crankshaft/src/py/dev2/lib/python2.7/site-packages/numpy/core/tests/test_multiarray.py", line 5366, in test_relaxed_strides
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fd.write(c.data)
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TypeError: 'buffer' does not have the buffer interface
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----------------------------------------------------------------------
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Ran 6153 tests in 84.561s
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FAILED (KNOWNFAIL=3, SKIP=5, errors=1)
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Out[2]: <nose.result.TextTestResult run=6153 errors=1 failures=0>
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```
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NOTE: this is expected to fail with Python 2.7.3, which is the version embedded in our postgresql installation
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##### Run scipy tests
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import scipy
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scipy.test('full')
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Output:
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```
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Ran 21562 tests in 321.610s
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OK (KNOWNFAIL=130, SKIP=1840)
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Out[2]: <nose.result.TextTestResult run=21562 errors=0 failures=0>
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```
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Ok, this looks good...
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##### Testing pysal
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See [http://pysal.readthedocs.org/en/latest/developers/testing.html]
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import pysal
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import nose
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nose.runmodule('pysal')
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```
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Ran 537 tests in 42.182s
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FAILED (errors=48, failures=17)
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An exception has occurred, use %tb to see the full traceback.
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```
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This doesn't look good... Taking a deeper look at the failures, many have the `IOError: [Errno 2] No such file or directory: 'streets.shp'`
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In the source code, there's the following [config](https://github.com/pysal/pysal/blob/master/setup.cfg) that seems to be missing in the pip package. By copying it to `lib/python2.7/site-packages` within the environment, it goes down to 17 failures.
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The remaining failures don't look good. I see two types: precision calculation errors and arrays/matrices missing 1 element when comparing... TODO: FIX this
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@ -40,7 +40,11 @@ setup(
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# The choice of component versions is dictated by what's
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# provisioned in the production servers.
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install_requires=['pysal==1.11.0','numpy==1.6.1','scipy==0.17.0'],
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install_requires=[
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'numpy>=1.10.4,<2',
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'scipy>=0.11,<1', # see https://github.com/pysal/pysal/blob/master/requirements.txt
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'pysal>=1.11.0,<2',
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],
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requires=['pysal', 'numpy'],
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