You could add traces in the config file to see where it's hung, like this:
echo point1
Bill
On 8/27/16 3:07 PM, Nhai wrote:
> Hi
>
> Seem like your mac gets serious issue. Can you compile non-amber related programs at all?
>
> Hai
>
>> On Aug 27, 2016, at 12:52 PM, mirko hennig <mirkohennig.yahoo.com> wrote:
>>
>> hi jason
>>
>>
>>
>>> What happens if you run the fftw configure script by hand?
>> ./configure in the ~/AmberTools/src/fftw-3.3 subdirectory doesn't go anywhere. never finishes on its own, no errors...also, no time stamp gets updated, the fftw3_config.log remains an empty file (not with the current date/time)
>> thanksM
>>
>>
>>> On Aug 18, 2016, at 5:49 PM, mirko hennig <mirkohennig.yahoo.com> wrote:
>>>
>>> thanks Jason.
>>> response to make in a terminal is:
>>> make: *** No targets specified and no makefile found. Stop.
>>>
>>> I've tried a couple more things and what you're suggesting makes sense (that some input would be required yet it's non-interactive)
>>> I saw that you can use a -nofftw3 flag, so I've tried that....
>>>
>>> ./configure -macAccelerate -nofftw3 --with-netcdf /opt/local gnu
>>>
>>> now gets me to:
>>>
>>> Skipping configuration of FFTW3
>>> Configuring MTK++ (may be time-consuming)...
>>>
>>> and again, you can wait and wait and wait some more.
>>> the mtkpp_config.log file looks exactly like the netcdf log did before, last line reads:
>>> checking whether make sets $(MAKE)...
>>>
>>> however, this time (after manually terminating the process) configure actually finishes:
>>>
>>> ^C Warning: MTK++ configure returned 1
>>> MTK++ configure failed! Check the mtkpp_config.log file
>>> in the /Users/mirko/my_CNS/Amber/amber14/AmberTools/src directory.
>>> MTK++ will not be built alongside AmberTools.
>>>
>>> The configuration file, config.h, was successfully created.
>>>
>>> I've attached the config.h file in case it may be useful. Desperate as I am, I've tried to execute 'make install'; all looks ok for a while until it hits:
>>>
>>> Installing /Users/mirko/my_CNS/Amber/amber14/AmberTools/src/FEW/additional_libs/PerlMol/share/man/man3/Math::VectorReal.3pm
>>> Installing /Users/mirko/my_CNS/Amber/amber14/AmberTools/src/FEW/additional_libs/PerlMol/share/man/man3/Parse::Yapp.3
>>> Installing /Users/mirko/my_CNS/Amber/amber14/AmberTools/src/FEW/additional_libs/PerlMol/share/man/man3/Statistics::Regression.3pm
>>> Darwin_15.6.0
>>> Darwin_15.6.0
>>>
>>> the latter 'Darwin_15.6.0' is then repeated endlessly until one kills make manually.
>>> ^Cmake[3]: *** [doc_site_install] Interrupt: 2
>>> make[2]: *** [install] Interrupt: 2
>>> make[1]: *** [serial] Interrupt: 2
>>> Darwin_15.6.0
>>> make: *** [install] Interrupt: 2
>>>
>>> Btw, I had also downloaded AmberTools16 at some point, but everything is exactly the same
>>> best
>>> Mirko
>>>
>>> From: Jason Swails <jason.swails.gmail.com>
>>> To: mirko hennig <mirkohennig.yahoo.com>; AMBER Mailing List <amber.ambermd.org>
>>> Cc: "david.case.rutgers.edu" <david.case.rutgers.edu>
>>> Sent: Thursday, August 18, 2016 5:18 AM
>>> Subject: Re: [AMBER] [AMBER} NetCDF installation problem on mac OS X El Capitan
>>>
>>> I've seen this happen before when Xcode opens up a dialog (asking you to accept the EULA or something of that ilk). Since it's non-interactive, configure just sits there for ages waiting for user input that never comes.
>>>
>>> Try just typing "make" in an open terminal and paste the response you get here.
>>>
>>> HTH,
>>> Jason
>>>
>>>
>>>> On Tue, Aug 16, 2016 at 10:53 AM, mirko hennig <mirkohennig.yahoo.com> wrote:
>>>> unfortunately, not much information to work with...
>>>> Any clue from the $AMBERHOME/AmberTools/src/ fftw3_config.log file? Does
>>>> it end with a line like this?
>>>> checking whether make sets $(MAKE)...
>>> fftw3_config.log is an empty file:-rw-r--r-- 1 mirko staff 0 Aug 16 07:12 fftw3_config.logdrwxr-xr-x 60 mirko staff 2040 Aug 16 07:12 .drwxr-xr-x. 41 mirko staff 1394 Aug 16 07:13 fftw-3.3
>>> many thanks-mirko
>>>
>>>
>>> ______________________________ _________________
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>>>
>>>
>>>
>>> ______________________________ _________________
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>>>
>>>
>>>
>>> --
>>> Jason M. Swails
>>>
>>>
>>> <config.h>
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Received on Sat Aug 27 2016 - 16:00:02 PDT
