Dear Gustaf,
Thank you very much for your help. It is working.
On Fri, Mar 20, 2020 at 8:59 PM Ana Ziad <ana.bluesky.46.gmail.com> wrote:
> Dear Professor Case,
> I cant fully understand the last two paragraphs of your email. The make
> test is now working. I am waiting to for it end and then check if the
> AMBERtools modules are working properly.
> Thanks
>
>
>
> On Fri, Mar 20, 2020, Ana Ziad wrote:
>
> >We recommend adding the line:
>
> test -f /home/maryam/amber18/amber.sh && source
> /home/maryam/amber18/amber.sh
>
> The above is the one you need. Note that the "(sh/bash/zsh)" part is a
> comment. You are almost certainly not running the csh shell (see
> below).
>
> > test -f /home/maryam/amber18/amber.csh && source
> >/home/maryam/amber18/amber.csh (csh/tcsh)
>
> In my view, this comment causes more harm than good, and should be
> removed. If there is any poor soul out there using tcsh as an
> interactive shell, they almost sure know that they are doing that, and
> know how to handle situations like this.
>
> Stated in other terms: the number of users to don't know what shell they
> are using (and hence are likely to be confused by this message) is far
> greater than the number of people actually using tcsh (only a few of
> whom would not already know this information.)
>
> ....dac
>
> On Fri, Mar 20, 2020 at 7:50 PM Ana Ziad <ana.bluesky.46.gmail.com> wrote:
>
>> *Dear Gustaf,*
>> *Thank you for your help.*
>> *I repeated all the steps again and this time installation was successful
>> but now I encountered another issue with "setenv"*
>> *So this is the installation message:*
>>
>> Installation of AmberTools19 serial is complete at Fri Mar 20 19:10:02
>> +0330 2020.
>>
>> *but make test didn't work:*
>>
>> make test
>> make[1]: Entering directory '/home/maryam/amber18/AmberTools/test'
>> ./test_at_serial.sh
>> 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/maryam/amber18/amber.sh && source
>> /home/maryam/amber18/amber.sh (sh/bash/zsh)
>> or
>> test -f /home/maryam/amber18/amber.csh && source
>> /home/maryam/amber18/amber.csh (csh/tcsh)
>>
>> to your login shell resource file (e.g., ~/.bashrc or ~/.cshrc).
>> Makefile:8: recipe for target 'test' failed
>> make[1]: *** [test] Error 1
>> make[1]: Leaving directory '/home/maryam/amber18/AmberTools/test'
>> Makefile:68: recipe for target 'test.serial' failed
>> make: [test.serial] Error 2 (ignored)
>>
>>
>> *Then I tried:*
>>
>> test -f /home/maryam/amber18/amber.csh && source
>> /home/maryam/amber18/amber.csh (csh/tcsh)
>>
>> *And the error is:*
>>
>> setenv: command not found
>> setenv: command not found
>> -bash: /home/maryam/amber18/amber.csh: line 14: syntax error: unexpected
>> end of file
>>
>> *Now when I try to call for xleap for example:*
>>
>> xleap: command not found
>>
>> *I would appreciate any help*
>> *Thanks in advance *
>>
>> On Wed, Mar 18, 2020 at 1:05 AM Ana Ziad <ana.bluesky.46.gmail.com>
>> wrote:
>>
>>> Dear AMBER developers,
>>> I am having a confusing issue while installing AMBER tools on windows10
>>> Linux subsystem.
>>> I am following this guide:
>>> https://www.ovetande.se/software/amber/install/ambertools19-windows10-wsl/
>>>
>>> I followed all the steps up to:
>>> ./configure gnu
>>> Here I get this error:
>>> ./configure2: 1: ./configure2: python: not found
>>> Using the AmberTools miniconda installation in
>>> /home/maryam/amber18/miniconda
>>> version 3.7.6
>>>
>>> Obtaining the gnu compiler suite versions, e.g.:
>>> /path/to/the/real/GCC -v
>>> Error: /path/to/the/real/GCC could not be found!
>>> Configure failed due to the errors above!
>>> that I tried to fix by searching the mailing list. took me a long time
>>> but still not working.
>>> I have python for sure. I can find the path to it, but not sure how to
>>> apply that in the config file.
>>> Also tried:*./configure --with-python /path/to/your/python gnu *
>>> that didnt work
>>> I will appreciate any help
>>> thanks a lot
>>>
>>
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Received on Sat Mar 21 2020 - 09:00:02 PDT
