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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