Hi,

Thank you for all your responses. I attached the full log file.
I found the CMAKE_INSTALL_PREFIX instruction on the nest installation guidelines (https://nest-simulator.readthedocs.io/en/v3.1/installation/mac_install.html) in the building NEST section.
Indeed, I did not see the space in the command line. That should fix it, but before I do anything, would you recommend that :
1) I create a build directory NEST and run 
 (nest-simulator-dev) julienballbe@MacBook-Pro-de-Julien ~ % cmake -DCMAKE_INSTALL_PREFIX:PATH=/Users/julienballbe/NEST  /Users/julienballbe/Downloads/nest-simulator-master

or 

2) use as Robin suggested 'cmake path/to/src', in which case the command line will be, I supposed, 
cmake path/to/src /Users/julienballbe/Downloads/nest-simulator-master ?

Thank you for your help!
Best,

Julien

Le mer. 17 nov. 2021 à 10:04, Robin Gilbert De Schepper <robingilbert.deschepper@unipv.it> a écrit :
Using just `cmake path/to/src` should give you the default installation to the active Python env

On Wed, 17 Nov 2021, 09:56 Hans Ekkehard Plesser, <hans.ekkehard.plesser@nmbu.no> wrote:

 

Hi Julien,

 

The problem is the empty install path. Make tries to install to

 

"/share/doc/nest/help": No such file or

  directory.

 

at the root of the file hierarchy, which cannot (and should not) work. This is also shown in the configuration report provided by cmake:

 

The NEST executable will be installed to:

  /bin/

 

NEST dynamic libraries and user modules will be installed to:

  /lib/nest/

 

Documentation and examples will be installed to:

  /share/doc/nest/

 

PyNEST will be installed to:

    /lib/python3.9/site-packages

 

To set necessary environment variables, add the following line

to your ~/.bashrc :

  source /bin/nest_vars.sh

 

You need to specify a directory for installation behind the ...:PATH= in the following line

 

(nest-simulator-dev) julienballbe@MacBook-Pro-de-Julien ~ % cmake -DCMAKE_INSTALL_PREFIX:PATH= /Users/julienballbe  /Users/julienballbe/Downloads/nest-simulator-master 

 

I seems that you intended to install to your home directory, but that a stray space after ...PATH= misled cmake. It should be ...PATH=/Users/julienballbe.

 

Best,

Hans Ekkehard

 

 

 

--

 

Prof. Dr. Hans Ekkehard Plesser

Head, Department of Data Science

 

Faculty of Science and Technology

Norwegian University of Life Sciences

PO Box 5003, 1432 Aas, Norway

 

Phone +47 6723 1560

Email hans.ekkehard.plesser@nmbu.no

Home http://arken.nmbu.no/~plesser

 

 

 

On 17/11/2021, 09:41, "Julien Ballbé" <julien.ballbe@gmail.com> wrote:

 

Hi Robin,

 

Thank you for your response, I tried as you suggested, I removed the build folder and repeated the CMake, make and make install commands, and I obtained similar results. Here are the full outputs, I highlighted my line commands in yellow to be more readable:

 

(nest-simulator-dev) julienballbe@MacBook-Pro-de-Julien ~ % cmake -DCMAKE_INSTALL_PREFIX:PATH= /Users/julienballbe /Users/julienballbe/Downloads/nest-simulator-master 

-- The CXX compiler identification is AppleClang 13.0.0.13000029

-- The C compiler identification is AppleClang 13.0.0.13000029

-- Detecting CXX compiler ABI info

-- Detecting CXX compiler ABI info - done

-- Check for working CXX compiler: /Library/Developer/CommandLineTools/usr/bin/c++ - skipped

-- Detecting CXX compile features

-- Detecting CXX compile features - done

-- Detecting C compiler ABI info

-- Detecting C compiler ABI info - done

-- Check for working C compiler: /Library/Developer/CommandLineTools/usr/bin/cc - skipped

-- Detecting C compile features

-- Detecting C compile features - done

-- Found Doxygen: /Users/julienballbe/miniforge3/envs/nest-simulator-dev/bin/doxygen (found version "1.9.1") found components: doxygen dot 

-- Looking for include file inttypes.h

-- Looking for include file inttypes.h - found

-- Looking for include file mach-o/dyld.h

-- Looking for include file mach-o/dyld.h - found

-- Looking for include file mach/mach.h

-- Looking for include file mach/mach.h - found

-- Looking for include file memory.h

-- Looking for include file memory.h - found

-- Looking for include file stdint.h

-- Looking for include file stdint.h - found

-- Looking for include file sys/types.h

-- Looking for include file sys/types.h - found

-- Looking for C++ include istream

-- Looking for C++ include istream - found

-- Looking for C++ include ostream

-- Looking for C++ include ostream - found

-- Looking for C++ include sstream

-- Looking for C++ include sstream - found

-- Looking for stddef.h

-- Looking for stddef.h - found

-- Check size of long long

-- Check size of long long - done

-- Check size of u_int16_t

-- Check size of u_int16_t - done

-- Check size of uint16_t

-- Check size of uint16_t - done

-- Check size of u_int64_t

-- Check size of u_int64_t - done

-- Check size of uint64_t

-- Check size of uint64_t - done

-- Looking for NAN

-- Looking for NAN - found

-- Looking for isnan

-- Looking for isnan - found

-- Looking for M_E

-- Looking for M_E - found

-- Looking for M_PI

-- Looking for M_PI - found

-- Looking for expm1

-- Looking for expm1 - found

-- Host triple: arm64-apple-darwin

-- Target triple: arm64-apple-darwin

-- Found Python: /Users/julienballbe/miniforge3/envs/nest-simulator-dev/bin/python3.9 (found suitable version "3.9.7", minimum required is "3.8") found components: Interpreter Development.Module 

-- Found Cython: /Users/julienballbe/miniforge3/envs/nest-simulator-dev/bin/cython (found suitable version "0.29.24", minimum required is "0.28.3") 

-- Found LTDL: /Users/julienballbe/miniforge3/envs/nest-simulator-dev/lib/libltdl.dylib (found version "2.4.6") 

-- Found Readline: /Users/julienballbe/miniforge3/envs/nest-simulator-dev/lib/libreadline.dylib (found version "4.2") 

-- Could NOT find PkgConfig (missing: PKG_CONFIG_EXECUTABLE) 

-- Found GSL: /Users/julienballbe/miniforge3/envs/nest-simulator-dev/include (found version "2.7") 

-- Found OpenMP_C: -Xclang -fopenmp (found version "5.0") 

-- Found OpenMP_CXX: -Xclang -fopenmp (found version "5.0") 

-- Found OpenMP: TRUE (found version "5.0")  

-- Found Boost: /Users/julienballbe/miniforge3/envs/nest-simulator-dev/lib/cmake/Boost-1.76.0/BoostConfig.cmake (found suitable version "1.76.0", minimum required is "1.69.0")  

-- Check the abort exitcode.

-- Check the abort exitcode. 134

-- Check the segmentation fault exitcode.

-- Check the segmentation fault exitcode. 139

-- Check whether the compiler ignores cmath makros.

-- Check whether the compiler ignores cmath makros. OFF

-- Check whether the compiler does NOT include <*.h> headers ISO conformant.

-- Check whether the compiler does NOT include <*.h> headers ISO conformant. OFF

-- Check whether the compiler respects symbolic signal names in signal.h.

-- Check whether the compiler respects symbolic signal names in signal.h. OFF

-- Check static template member declaration.

-- Check static template member declaration. OFF

-- Check for STL vector capacity base unity.

-- Check for STL vector capacity base unity. ON

-- Check for STL vector capacity doubling strategy.

-- Check for STL vector capacity doubling strategy. ON

-- Check whether the compiler fails with ICE.

-- Check whether the compiler fails with ICE. OFF

-- Check if ::nan is available from cmath.

-- Check if ::nan is available from cmath. ON

-- Check if ::isnan is available from cmath.

-- Check if ::isnan is available from cmath. ON

-- Check if Random123 generators work.

-- Check if Random123 generators work. ON

-- NEST version: UNKNOWN

-- Found PythonInterp: /Users/julienballbe/miniforge3/envs/nest-simulator-dev/bin/python (found version "3.9.7") 

 

--------------------------------------------------------------------------------

NEST Configuration Summary

--------------------------------------------------------------------------------

 

Build type          : 

Target System       : Darwin

Cross Compiling     : FALSE

C compiler          : AppleClang 13.0.0.13000029 (/Library/Developer/CommandLineTools/usr/bin/cc)

C compiler flags    :  -O2 -Wall -Xclang -fopenmp 

C++ compiler        : AppleClang 13.0.0.13000029 (/Library/Developer/CommandLineTools/usr/bin/c++)

C++ compiler flags  :  -std=c++11 -O2 -Wall -Xclang -fopenmp 

Build dynamic       : ON

 

Built-in modules    : models

User modules        : None

Python bindings     : Yes (Python 3.9.7: /Users/julienballbe/miniforge3/envs/nest-simulator-dev/bin/python3.9)

       Includes     : /Users/julienballbe/miniforge3/envs/nest-simulator-dev/include/python3.9

       Libraries    : 

 

Cython bindings     : Yes (Cython 0.29.24: /Users/julienballbe/miniforge3/envs/nest-simulator-dev/bin/cython)

MPI4PY header     : NO 

Use threading       : Yes (OpenMP: -Xclang -fopenmp)

Use GSL             : Yes (GSL 2.7)

    Includes        : /Users/julienballbe/miniforge3/envs/nest-simulator-dev/include

    Libraries       : /Users/julienballbe/miniforge3/envs/nest-simulator-dev/lib/libgsl.dylib;/Users/julienballbe/miniforge3/envs/nest-simulator-dev/lib/libgslcblas.dylib

 

Use Readline        : Yes (GNU Readline 4.2)

    Includes        : /Library/Developer/CommandLineTools/SDKs/MacOSX12.0.sdk/usr/include

    Libraries       : /Users/julienballbe/miniforge3/envs/nest-simulator-dev/lib/libreadline.dylib;/Users/julienballbe/miniforge3/envs/nest-simulator-dev/lib/libncurses.dylib

 

Use libltdl         : Yes (LTDL 2.4.6)

    Includes        : /Users/julienballbe/miniforge3/envs/nest-simulator-dev/include

    Libraries       : /Users/julienballbe/miniforge3/envs/nest-simulator-dev/lib/libltdl.dylib

 

Use doxygen         : Yes (/Users/julienballbe/miniforge3/envs/nest-simulator-dev/bin/doxygen)

                    : target `doc` available

    `dot` available : Yes (/Users/julienballbe/miniforge3/envs/nest-simulator-dev/bin/dot)

                    : target `fulldoc` available

Use MPI             : No

Detailed timers     : No

 

Use MUSIC           : No

Use libneurosim     : No

Use Boost           : Yes (Boost 1.76.0)

    Includes        : /Users/julienballbe/miniforge3/envs/nest-simulator-dev/include

    Libraries       : 

 

Use SIONlib         : No

 

--------------------------------------------------------------------------------

 

The NEST executable will be installed to:

  /bin/

 

NEST dynamic libraries and user modules will be installed to:

  /lib/nest/

 

Documentation and examples will be installed to:

  /share/doc/nest/

 

PyNEST will be installed to:

    /lib/python3.9/site-packages

 

To set necessary environment variables, add the following line

to your ~/.bashrc :

  source /bin/nest_vars.sh

 

--------------------------------------------------------------------------------

 

You can now build and install NEST with

  make

  make install

  make installcheck

 

If you experience problems with the installation or the use of NEST,

please see https://www.nest-simulator.org/frequently_asked_questions

or go to https://www.nest-simulator.org/community to find out how to

join the user mailing list.

 

-- Configuring done

-- Generating done

-- Build files have been written to: /Users/julienballbe

(nest-simulator-dev) julienballbe@MacBook-Pro-de-Julien ~ % make

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