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Trying to get Travis-CI builds working #194

Merged
merged 9 commits into from
Apr 2, 2014
Merged

Trying to get Travis-CI builds working #194

merged 9 commits into from
Apr 2, 2014

Commits on Apr 2, 2014

  1. Use the https not git@ protocol to get the RMG-database in .travis.yml 

    The builds got this far then stopped for 10 minutes and were killed:
$ git clone git@github.com:GreenGroup/RMG-database.git
Cloning into 'RMG-database'...
The authenticity of host 'github.com (192.30.252.128)' can't be established.
RSA key fingerprint is 16:27:ac:a5:76:28:2d:36:63:1b:56:4d:eb:df:a6:48.
Are you sure you want to continue connecting (yes/no)?

Hopefully the https version can continue without the RSA fingerprint check...
    @rwest
    rwest committed Apr 2, 2014
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  2. Use system site_packages (and numpy/scipy) in travis config. 

    Currently it spends thousands of lines of log file (and quite some time)
compiling scipy for each build. The Ubuntu apt-get install of python-scipy
should save this, but you need to enable the system site packages (instead
of the isolated virtual environment) to use it. [1,2]

Hopefully this (using the system site packages) also fixes the apparent
failure of rdkit: current build failed with:
echo "Checking you have rdkit..."
Checking you have rdkit...
Traceback (most recent call last):
  File "<string>", line 1, in <module>
ImportError: No module named rdkit

[1] http://danielnouri.org/notes/2012/11/23/use-apt-get-to-install-python-dependencies-for-travis-ci/
[2] https://github.com/dnouri/nolearn/blob/master/.travis.yml
    @rwest
    rwest committed Apr 2, 2014
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  3. Simplify travis config: no QM and no Python 2.6 

    Trying to get the simplest possible configuration working first,
then will add complexity.
    @rwest
    rwest committed Apr 2, 2014
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  4. Remove redundant parts from Travis config file. 

    --use-mirrors has been deprecated, and pip install .  likely isn't needed
    @rwest
    rwest committed Apr 2, 2014
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  5. Try using the apt-get version of matplotlib too, in travis build. 

    This should speed up and simplify the build, if it works.
    @rwest
    rwest committed Apr 2, 2014
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  6. Try building RDKit from source during Travis-CI testing 

    These lines in the build script are based off the RDKit travis config
https://github.com/rdkit/rdkit/blob/master/.travis.yml
But modified to turn on InChI support
Once this is working we can worry about cacheing the finished
build to speed it up.
    @rwest
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  7. Travis gets and builds PyDAS and PyDQED 

    Unlike the instructions for users in our installation guide,
don't have Travis sudo the make install for PyDAS and PyDQED.
'sudo' on Ubuntu makes it discover the wrong python, which then doesn't
have Cython installed, and it all goes wrong. Hopefully this clears it up.
I also split into several lines, to make debugging the Travis log easier.
    @rwest
    rwest committed Apr 2, 2014
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  8. Trying to get Travis things in the right directories. 

     - RMG-database
 - RPyDAS
 - RPyDQED
 - Rrdkit
etc.
should all live alongside, not inside, the RMG-Py directory.
Hopefully this works solves the database problem
    @rwest
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  9. Try running eg1 as well as make test in travis testing.

    @rwest
    rwest committed Apr 2, 2014
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