My installation both serial and parallel completed without error after
installation of python 3.6.0.
I installed python 3.6.0 locally in set path in .bashrc as follows and
source it.
export
PATH=$PATH:/home/external/cbs/sunitap/softwares/Python-3.6.0/bin/python
However, still getting problem that path is not set.
===============
[sunitap.ycn2 amber18]$ make test
(cd AmberTools/test && make test.parallel)
make[1]: Entering directory
`/home/external/cbs/sunitap/softwares/amber18/AmberTools/test'
./test_at_parallel.sh
Tests being run with DO_PARALLEL="mpirun -np 2".
Error: Could not import Amber Python modules!
Probably your Amber Python environment was not set up correctly.
We recommend adding the line:
test -f /home/external/cbs/sunitap/softwares/amber18/amber.sh && source
/home/external/cbs/sunitap/softwares/amber18/amber.sh (sh/bash/zsh)
or
test -f /home/external/cbs/sunitap/softwares/amber18/amber.csh && source
/home/external/cbs/sunitap/softwares/amber18/amber.csh (csh/tcsh)
to your login shell resource file (e.g., ~/.bashrc or ~/.cshrc).
make[1]: *** [test.parallel] Error 1
make[1]: Leaving directory
`/home/external/cbs/sunitap/softwares/amber18/AmberTools/test'
make: *** [test.parallel] Error 2
================
Thanks & regards,
Sunita
On Fri, Aug 9, 2019 at 2:22 PM Sunita Patel <sunita.patel.cbs.ac.in> wrote:
> The problem is solved by doing configuration in the following way.
> ./configure --with-python /usr/bin/python/ gnu
>
> But getting another problem during compilation. I checked my python
> version which is 2.6.6. I will try with Phython 2.7 now.
>
> ===============
> You must have at least Python 2.7 for ParmEd to work correctly.
> make[2]: *** [parmed] Error 1
> make[2]: Leaving directory
> `/home/external/cbs/sunitap/softwares/amber18/AmberTools/src'
> make[1]: *** [serial] Error 2
> make[1]: Leaving directory
> `/home/external/cbs/sunitap/softwares/amber18/AmberTools/src'
> make: *** [install] Error 2
> ==============
> [sunitap.ycn2 amber18]$ python --version
> Python 2.6.6
>
> Sunita
>
> On Fri, Aug 9, 2019 at 12:13 PM Sunita Patel <sunita.patel.cbs.ac.in>
> wrote:
>
>> Dear AMBER-users,
>>
>> I am too having similar problem during installation of AMBER18 on two
>> different servers. I also tried to install in different times. Still
>> getting the similar problem.
>> Please suggest the solution.
>>
>> Thanks in advance for your help.
>> Sunita
>>
>> ===============================
>> This script will download and install a version of Python compatible
>> with every component of AmberTools and install all required and optional
>> prerequisites. The Python distribution is downloaded for your operating
>> system from Miniconda.
>>
>> Downloading Python 2.7 Miniconda
>> Detected Linux kernel. Downloading the Linux installer
>> Downloading the latest Miniconda distribution
>> Detected 64-bit Linux
>> --2019-08-09 12:13:06--
>> https://repo.continuum.io/miniconda/Miniconda2-4.3.21-Linux-x86_64.sh
>> Resolving repo.continuum.io... failed: Name or service not known.
>> wget: unable to resolve host address `repo.continuum.io'
>> Problem installing Miniconda... see error above.
>> Configure failed due to the errors above!
>>
>>
>> On Thu, Aug 8, 2019 at 9:11 PM David A Case <david.case.rutgers.edu>
>> wrote:
>>
>>> On Thu, Aug 08, 2019, Elvis Martis wrote:
>>>
>>> >I am trying to install AMBERTools19 and facing a problem while
>>> installing
>>> >miniconda.
>>> >Connecting to repo.continuum.io|104.18.201.79|:443... connected.
>>> >ERROR: certificate common name “ssl468915.cloudflaressl.com” doesn’t
>>> match
>>> >requested host name “repo.continuum.io”.
>>> >To connect to repo.continuum.io insecurely, use
>>> ‘--no-check-certificate’.
>>>
>>> Please try again after a while. The problem arises from continuum, and
>>> we have occasionally seen this before.
>>>
>>> ...dac
>>>
>>>
>>> _______________________________________________
>>> AMBER mailing list
>>> AMBER.ambermd.org
>>> http://lists.ambermd.org/mailman/listinfo/amber
>>>
>>
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Received on Fri Aug 09 2019 - 05:00:02 PDT
