Hello
Python failures are usually an indication of problems with the boost
library. You might pickup libraries for the wrong Python version.
Best
Peter
On Mon, Oct 3, 2016 at 11:06 AM Philip Adler <[email protected]> wrote:
> Dear All,
>
> I am trying to compile rdkit to run with Python3.4 on Ubuntu 14.04 as per
> the instructions at http://www.rdkit.org/docs/Install.html For reasons
> which I don't really want to get into we would prefer to avoid anaconda for
> the time being.
>
> That being said, when I try to test the build, I get a number of errors
> and failed tests (the build does not work when called from Python, which is
> unsurprising).
>
> For reference, the cmake command I issued was:
>
> cmake -DRDK_BUILD_INCHI_SUPPORT=ON -D
> PYTHON_LIBRARY=/usr/lib/python3.4/config-3.4m-x86_64-linux-gnu/
> libpython3.4.so -D PYTHON_INCLUDE_DIR=/usr/include/python3.4/ -D
> PYTHON_EXECUTABLE=/usr/bin/python3.4
> -DBOOST_ROOT=/usr/lib/x86_64-linux-gnu/ ..
>
> The tests which fail are as follows:
>
> The following tests FAILED:
> 5 - pyBV (SEGFAULT)
> 6 - pyDiscreteValueVect (SEGFAULT)
> 7 - pySparseIntVect (SEGFAULT)
> 8 - pyFPB (SEGFAULT)
> 11 - testPyGeometry (SEGFAULT)
> 14 - pyAlignment (Failed)
> 18 - pyForceFieldConstraints (SEGFAULT)
> 20 - pyDistGeom (Failed)
> 33 - pyDepictor (SEGFAULT)
> 45 - pyChemReactions (SEGFAULT)
> 50 - pyFilterCatalog (SEGFAULT)
> 52 - pyFragCatalog (SEGFAULT)
> 54 - pyMolDescriptors (SEGFAULT)
> 57 - pyPartialCharges (SEGFAULT)
> 59 - pyMolTransforms (SEGFAULT)
> 63 - pyForceFieldHelpers (SEGFAULT)
> 65 - pyDistGeom (SEGFAULT)
> 67 - pyMolAlign (SEGFAULT)
> 69 - pyChemicalFeatures (SEGFAULT)
> 71 - pyShapeHelpers (SEGFAULT)
> 73 - pyMolCatalog (SEGFAULT)
> 75 - pyMolDraw2D (SEGFAULT)
> 77 - pyFMCS (SEGFAULT)
> 80 - pyMolHash (SEGFAULT)
> 82 - pyMMPA (SEGFAULT)
> 84 - pyReducedGraphs (SEGFAULT)
> 86 - pySLNParse (SEGFAULT)
> 87 - pyGraphMolWrap (SEGFAULT)
> 88 - pyTestConformerWrap (SEGFAULT)
> 89 - pyTestThreads (SEGFAULT)
> 92 - pyMatCalc (SEGFAULT)
> 93 - pySimDivPickers (SEGFAULT)
> 94 - pyRanker (Failed)
> 96 - pyFeatures (SEGFAULT)
> 97 - pythonTestDbCLI (Failed)
> 98 - pythonTestDirML (Failed)
> 99 - pythonTestDirDataStructs (Failed)
> 101 - pythonTestDirSimDivFilters (Failed)
> 102 - pythonTestDirVLib (Failed)
> 103 - pythonTestDirChem (SEGFAULT)
>
> I must confess I'm a little out of my depth right now, so I don't even
> know where to begin debugging this. Any advice would be greatly appreciated,
>
> Best,
>
> Phil
>
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