Mi Amber recompilation failed with errors.
I now need to reinstall Xcode and the compilers ….
Erik Zuiderweg
> On Jan 4, 2017, at 7:43 PM, Huang Jing <jing.huang8911.gmail.com> wrote:
>
> In amber 16 manual page 26, python 2.7 and later version is required and
> the manual contains nothing about python 3;
> From my knowledge, python 2 and python 3 are two different schemes and they
> developed separately, athough some simply python scripts can run properly
> both with python 2 and python 3;
> jing
>
> On Wed, Jan 4, 2017 at 8:25 PM, Hai Nguyen <nhai.qn.gmail.com> wrote:
>
>> On Wed, Jan 4, 2017 at 1:13 PM, Huang Jing <jing.huang8911.gmail.com>
>> wrote:
>>
>>> Possibly your default python is python3 and the MMPBSA.py is written in
>>> python2.if you have Python version 3, the utility 2to3 must be present to
>>> translate the code into Python 3 syntax;
>>> Following is the details about MMPBSA.py script
>>> http://ambermd.org/tutorials/advanced/tutorial3/py_script/
>>> files/MMPBSA_Python_Manual.pdf
>>> jing
>>>
>>
>> all Python programs in AmberTools will work with both Python 2 and 3. User
>> needs not to use anything else to convert.
>> You just need to recompile AmberTools.
>> Please double-check the Python section in Amber 16 manual.
>>
>> Hai
>>
>>
>>>
>>> On Wed, Jan 4, 2017 at 8:00 PM, Hai Nguyen <nhai.qn.gmail.com> wrote:
>>>
>>>> make distclean and recompile Amber/AmberTools will help.
>>>>
>>>> PS0: "not working" is not very helpful info.
>>>> PS1: We've updated info for Mac OS here (much simpler):
>>>> http://ambermd.org/ubuntu.html
>>>> PS2: per Python version, I suggest you let AMBER install the Miniconda
>>>> distribution for you during installation process.
>>>>
>>>> .Dave: from the link: Mac OS on "ubuntu" link. Should we move?
>>>> Hai
>>>>
>>>> On Wed, Jan 4, 2017 at 12:54 PM, erik rp zuiderweg <zuiderwe.umich.edu
>>>
>>>> wrote:
>>>>
>>>>> My older MMPBSA calculations are not working any more, likely due to
>>> my
>>>>> OS “up”grade.
>>>>> Can anyone advise what versions of Amber, Ambertools, MMPBSA
>>>>> and what versions of Python
>>>>> are compatible with Mac OS 10.11.6 (El Capitan) ?
>>>>>
>>>>>
>>>>> Thanks so much!
>>>>>
>>>>>
>>>>> Erik Zuiderweg
>>>>> _______________________________________________
>>>>> AMBER mailing list
>>>>> AMBER.ambermd.org
>>>>> http://lists.ambermd.org/mailman/listinfo/amber
>>>>>
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Received on Wed Jan 04 2017 - 11:00:03 PST
