Re: [AMBER] Fwd: Error during amber16 installation

From: <spss4.iacs.res.in>
Date: Fri, 22 Jan 2021 10:29:09 +0530

  Hello
Thank you for your suggestion. You have mentioned to use AmberTools20
but I have the license for Amber16. How can I get Amber20?  

I got the following error messages before "error: command 'gcc' failed
with exit status 1" line
  pytraj/cyutils.cpp:19858:21: error: ‘PyThreadState {aka struct _ts}’
has no member named ‘exc_type’
       *type = tstate->exc_type;
                       ^
  pytraj/cyutils.cpp:19859:22: error: ‘PyThreadState {aka struct _ts}’
has no member named ‘exc_value’
       *value = tstate->exc_value;
                        ^
  pytraj/cyutils.cpp:19860:19: error: ‘PyThreadState {aka struct _ts}’
has no member named ‘exc_traceback’
       *tb = tstate->exc_traceback;
                     ^
  pytraj/cyutils.cpp: In function ‘void
__Pyx_ExceptionReset(PyObject*, PyObject*, PyObject*)’:
  pytraj/cyutils.cpp:19872:24: error: ‘PyThreadState {aka struct _ts}’
has no member named ‘exc_type’
       tmp_type = tstate->exc_type;
                          ^
  pytraj/cyutils.cpp:19873:25: error: ‘PyThreadState {aka struct _ts}’
has no member named ‘exc_value’
       tmp_value = tstate->exc_value;
                           ^
  pytraj/cyutils.cpp:19874:22: error: ‘PyThreadState {aka struct _ts}’
has no member named ‘exc_traceback’
       tmp_tb = tstate->exc_traceback;
                        ^
  pytraj/cyutils.cpp:19875:13: error: ‘PyThreadState {aka struct _ts}’
has no member named ‘exc_type’
       tstate->exc_type = type;
               ^
  pytraj/cyutils.cpp:19876:13: error: ‘PyThreadState {aka struct _ts}’
has no member named ‘exc_value’
       tstate->exc_value = value;
               ^
  pytraj/cyutils.cpp:19877:13: error: ‘PyThreadState {aka struct _ts}’
has no member named ‘exc_traceback’
       tstate->exc_traceback = tb;
               ^
  pytraj/cyutils.cpp: In function ‘int __Pyx_GetException(PyObject**,
PyObject**, PyObject**)’:
  pytraj/cyutils.cpp:19920:24: error: ‘PyThreadState {aka struct _ts}’
has no member named ‘exc_type’
       tmp_type = tstate->exc_type;
                          ^
  pytraj/cyutils.cpp:19921:25: error: ‘PyThreadState {aka struct _ts}’
has no member named ‘exc_value’
       tmp_value = tstate->exc_value;
                           ^
  pytraj/cyutils.cpp:19922:22: error: ‘PyThreadState {aka struct _ts}’
has no member named ‘exc_traceback’
       tmp_tb = tstate->exc_traceback;
                        ^
  pytraj/cyutils.cpp:19923:13: error: ‘PyThreadState {aka struct _ts}’
has no member named ‘exc_type’
       tstate->exc_type = local_type;
               ^
  pytraj/cyutils.cpp:19924:13: error: ‘PyThreadState {aka struct _ts}’
has no member named ‘exc_value’
       tstate->exc_value = local_value;
               ^
  pytraj/cyutils.cpp:19925:13: error: ‘PyThreadState {aka struct _ts}’
has no member named ‘exc_traceback’
       tstate->exc_traceback = local_tb;
               ^
  pytraj/cyutils.cpp: In function ‘void
__Pyx_ExceptionSwap(PyObject**, PyObject**, PyObject**)’:
  pytraj/cyutils.cpp:21572:24: error: ‘PyThreadState {aka struct _ts}’
has no member named ‘exc_type’
       tmp_type = tstate->exc_type;
                          ^
  pytraj/cyutils.cpp:21573:25: error: ‘PyThreadState {aka struct _ts}’
has no member named ‘exc_value’
       tmp_value = tstate->exc_value;
                           ^
  pytraj/cyutils.cpp:21574:22: error: ‘PyThreadState {aka struct _ts}’
has no member named ‘exc_traceback’
       tmp_tb = tstate->exc_traceback;
                        ^
  pytraj/cyutils.cpp:21575:13: error: ‘PyThreadState {aka struct _ts}’
has no member named ‘exc_type’
       tstate->exc_type = *type;
               ^
  pytraj/cyutils.cpp:21576:13: error: ‘PyThreadState {aka struct _ts}’
has no member named ‘exc_value’
       tstate->exc_value = *value;
               ^
  pytraj/cyutils.cpp:21577:13: error: ‘PyThreadState {aka struct _ts}’
has no member named ‘exc_traceback’
       tstate->exc_traceback = *tb;
  Thank you.
 


----- Message from David A Case <david.case.rutgers.edu> ---------
    Date: Thu, 21 Jan 2021 08:16:12 -0500
    From: David A Case <david.case.rutgers.edu>
Reply-To: AMBER Mailing List <amber.ambermd.org>
Subject: Re: [AMBER] Fwd: Error during amber16 installation
      To: AMBER Mailing List <amber.ambermd.org>

> On Thu, Jan 21, 2021, spss4.iacs.res.in wrote:
>> I am trying to install Amber16 in ubuntu16.04 system according to the steps
>>   described  in the manual. I am getting the following error during make
>>   install
>>
>>   error: command 'gcc' failed with exit status 1
>>   Makefile:456: recipe for target 'pytraj' failed
>
> You should capture the output of the make command, e.g.
>
>      make install | tee make.errors
>
> Then look for the relevant error messages in the "make.errors" file.  You
> will want to look at what happens right before the "gcc failed" line.
>
> Better: download AmberTools20 and try that.  It may no longer be possible
> to install pytraj on an raw AmberTools16 installation, since there have been
> changes in various python components since then.  You'll want to use
> AmberTools20 in any event, even if you continue to use pmemd from Amber16.
> But consider upgrading to Amber20 as well.
>
> ...good luck....dac
>
> _______________________________________________
> AMBER mailing list
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----- End message from David A Case <david.case.rutgers.edu> -----
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