Check the version of gcc fort that working build. It may not match yours.
Not that it fixes your problem, unfortunately.
On Jun 10, 2011 1:14 PM, "JP" <[email protected]> wrote:
> It seems someone got it to work with python 2.4 on Centos
> (at least according to http://code.google.com/p/rdkit/wiki/WorkingBuilds).
> But even this is god knows how many permutations (gcc / boost / mpfr / gmp
> / bison / flex etc) away from mine...
>
> I'd be interested in Greg's take on supported platforms.
>
> What a start to the weekend!
>
>
> On 10 June 2011 20:04, Robert DeLisle <[email protected]> wrote:
>
>> I can't blame you there. "One ring to bind them" would be preferred.
>>
>> Have you searched the RDKit discussion list archives regarding Python
>> version compatibility? I vaguely remember something about older versions
of
>> Python in general, but I don't know if it applies to this case.
>>
>>
>>
>>
>>
>>
>> On Fri, Jun 10, 2011 at 1:00 PM, JP <[email protected]> wrote:
>>
>>>
>>> Hi there Kirk,
>>>
>>> Your suggestion was interesting to tinker with -- but it doesn't help my
>>> specific case.
>>>
>>> If I set the environment to work with python 2.7 (and RDKit), I break
>>> ROCKs functionality which I need from time to time.
>>> I do not want to stay switching between p2.4 and p2.7 in the same
>>> session...
>>>
>>>
>>>
>>>
>>> On 10 June 2011 19:20, Robert DeLisle <[email protected]> wrote:
>>>
>>>> I will defer to Greg's expertise for a more accurate answer, but I
would
>>>> suspect that the problem is the difference in using the system version
of
>>>> Python and a version of RDKit that is built with a newer version of
GCC.
>>>> You may be getting stuck in dependency confusion between the two
versions.
>>>>
>>>> You should be able to build and install Python 2.7 without disturbing
the
>>>> system's Python 2.4.3.
>>>>
>>>> -Kirk
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>
>>>> On Fri, Jun 10, 2011 at 12:00 PM, JP <[email protected]
>wrote:
>>>>
>>>>> I am installing the brand new RDKit (2011_03_2) on CentOS (lol!) on a
>>>>> Friday evening (6.54pm here in Oxford)... So I probably deserve the
misery
>>>>> of the following.
>>>>>
>>>>> I have already gone through the whole RDKit on Centos installation
>>>>> procedure and pain on other machines and I now am undaunted by it.
Bring it
>>>>> on.
>>>>> Still I installed everything (almost) according to the book (
>>>>> http://code.google.com/p/rdkit/wiki/BuildingOnCentOS) with the
>>>>> exception that I stuck to Python 2.4.3 (Python 2.7, doesn't play
nicely with
>>>>> Rocks)
>>>>>
>>>>> And I get this anti-fancy error message
>>>>>
>>>>> >>> from rdkit import Chem
>>>>> Traceback (most recent call last):
>>>>> File "<stdin>", line 1, in ?
>>>>> File "/share/apps/RDKit_2011_03_2/rdkit/Chem/__init__.py", line 18, in
>>>>> ?
>>>>> from rdkit import rdBase
>>>>> ImportError: /usr/lib64/libstdc++.so.6: version `GLIBCXX_3.4.9' not
>>>>> found (required by /share/apps/RDKit_2011_03_2/rdkit/rdBase.so)
>>>>>
>>>>> Any ideas?
>>>>>
>>>>> [jp@xxx build]$ echo $LD_LIBRARY_PATH
>>>>>
>>>>>
/share/apps/RDKit_2011_03_2/lib:/share/apps/boost_1_46_1/lib:/opt/gridengine/lib/lx26-amd64:/share/apps/openbabel/lib:/usr/local/lib:/share/apps/openbabel/lib:
>>>>>
>>>>> [jp@xxx build]$ echo $PYTHONPATH
>>>>> :/share/apps/RDKit_2011_03_2
>>>>>
>>>>> [jp@xxx build]$ echo $RDBASE
>>>>> /share/apps/RDKit_2011_03_2
>>>>>
>>>>> Any sympathy will be greatly appreciated.
>>>>>
>>>>> Cheers
>>>>> JP
>>>>>
>>>>>
>>>>>
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>>>>>
>>>>>
>>>>
>>>
>>
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