gmake[2]: *** [CMakeFiles/hdf5.dir/build.make:86: subbuilds/src/hdf5-stamp/hdf5-build] Error 1

[rprolim]

Hello! I am Raphael, from the BINGO Telescope group. I am installing Commander in a virtual machine with the following specs:

OS: Ubuntu 24.04.1 LTS
Memory: 8192 Mb
CPUs: 4

The Ubuntu installation is a clean one, and I decided to use a VM for the installation because it is my first time installing Commander, so I wanted to make sure that I got everything right before installing in our cluster.

For the installation, I am following the Cosmoglobe youtube video tutorial. However, I am finding an error with the last command of cmake.

I searched in your repository and I found the same error in issue #80 from 2021, but I didn't understand very well what I can do to fix the error. I will write here the exact commands that I am using in my terminal and then the error output:

Terminal Commands

Apt install

sudo apt -y install cmake pkg-config build-essential gcc git

Intel C++ Essentials

wget https://registrationcenter-download.intel.com/akdlm/IRC_NAS/189a6c48-72de-4bef-a43c-eb1ee49787d6/intel-cpp-essentials-2025.0.1.27_offline.sh

sudo sh ./intel-cpp-essentials-2025.0.1.27_offline.sh -a --silent --cli --eula accept

Intel Fortran Essentials

wget https://registrationcenter-download.intel.com/akdlm/IRC_NAS/9e86b555-f238-4dea-b4b2-01b243e42483/intel-fortran-essentials-2025.0.1.27_offline.sh

sudo sh ./intel-fortran-essentials-2025.0.1.27_offline.sh -a --silent --cli --eula accept

Intel MPI Library

I am downloading the .sh file through an interface with this link.

sudo sh ./intel-mpi-2021.14.2.9_offline.sh -a --silent --cli --eula accept

Access variables

source /opt/intel/oneapi/setvars.sh

source /opt/intel/oneapi/mpi/latest/env/vars.sh

Get Commander

I actually forked Commander here, because my project consists in altering it.

git clone https://github.com/rprolim/Commander.git

cd Commander && mkdir build && cd build

cmake -DCMAKE_INSTALL_PREFIX=/home/rrolim/codes/Commander/build/ -DCMAKE_C_COMPILER=icx -DCMAKE_CXX_COMPILER=icpx -DCMAKE_Fortran_COMPILER=ifx -DMPI_C_COMPILER=mpiicx -DMPI_CXX_COMPILER=mpiicpx -DMPI_Fortran_COMPILER=mpiifx -DFFTW_ENABLE_AVX2=OFF ..

Up until here, everything seems to be going well, every library seems to have been properly downloaded and installed, as cmake tells me that the configuring and generating are done, and the build files have been written to "/home/rrolim/code/Commander/build".

cmake --build . --target install -j 4

Error output

rrolim@vm:~/code/Commander/build$ cmake --build . --target install -j 4
[  0%] Creating directories for 'libaec_src'
[  0%] Built target tempita
[  0%] Built target mpi
[  0%] Built target openmp
[  0%] Performing download step (git clone) for 'libaec_src'
[  0%] Built target libssh2
[  0%] Built target mbedtls
[  0%] Built target curl
[  1%] Creating directories for 'cfitsio_src'
[  1%] Creating directories for 'fftw_src'
[  2%] Creating directories for 'healpix_src'
[  2%] Performing download step (download, verify and extract) for 'cfitsio_src'
[  2%] Performing download step (download, verify and extract) for 'fftw_src'
[  3%] Performing download step (download, verify and extract) for 'healpix_src'
-- fftw_src download command succeeded.  See also /home/rrolim/codes/Commander/build/logs/fftw_src-download-*.log
[  4%] No update step for 'fftw_src'
[  4%] No patch step for 'fftw_src'
[  5%] No configure step for 'fftw_src'
[  5%] No build step for 'fftw_src'
[  5%] No install step for 'fftw_src'
[  6%] Completed 'fftw_src'
[  6%] Built target fftw_src
[  7%] Building CXX object CMakeFiles/comm_system_backend.dir/commander3/src/comm_system_backend.cpp.o
/home/rrolim/code/Commander/commander3/src/comm_system_backend.cpp:71:21: warning: format specifies type 'long long *' but the argument has type 'int64_t *' (aka 'long *') [-Wformat]
   71 |                 fscanf(f, "%lld", &npage);
      |                            ~~~~   ^~~~~~
      |                            %ld
1 warning generated.
[  7%] Linking CXX static library /home/rrolim/codes/Commander/build/lib/libcomm_system_backend.a
[  7%] Built target comm_system_backend
[  7%] Built target required_libraries
[  7%] Creating directories for 'fftw_double_shared'
[  7%] No download step for 'fftw_double_shared'
[  8%] No update step for 'fftw_double_shared'
[  8%] No patch step for 'fftw_double_shared'
[  9%] Performing configure step for 'fftw_double_shared'
-- fftw_double_shared configure command succeeded.  See also /home/rrolim/codes/Commander/build/logs/fftw_double_shared-configure-*.log
[  9%] Performing build step for 'fftw_double_shared'
-- healpix_src download command succeeded.  See also /home/rrolim/codes/Commander/build/logs/healpix_src-download-*.log
[  9%] No update step for 'healpix_src'
[  9%] No patch step for 'healpix_src'
[  9%] No configure step for 'healpix_src'
[  9%] No build step for 'healpix_src'
[  9%] No install step for 'healpix_src'
[ 10%] Completed 'healpix_src'
[ 10%] Built target healpix_src
[ 10%] Creating directories for 'fftw_double_static'
[ 10%] No download step for 'fftw_double_static'
[ 10%] No update step for 'fftw_double_static'
[ 11%] No patch step for 'fftw_double_static'
[ 11%] Performing configure step for 'fftw_double_static'
-- cfitsio_src download command succeeded.  See also /home/rrolim/codes/Commander/build/logs/cfitsio_src-download-*.log
[ 11%] No update step for 'cfitsio_src'
[ 12%] No patch step for 'cfitsio_src'
[ 12%] No configure step for 'cfitsio_src'
[ 13%] No build step for 'cfitsio_src'
[ 14%] No install step for 'cfitsio_src'
[ 14%] Completed 'cfitsio_src'
[ 14%] Built target cfitsio_src
[ 14%] Creating directories for 'fftw_float_shared'
[ 15%] No download step for 'fftw_float_shared'
[ 15%] No update step for 'fftw_float_shared'
[ 16%] No patch step for 'fftw_float_shared'
[ 16%] Performing configure step for 'fftw_float_shared'
-- fftw_double_static configure command succeeded.  See also /home/rrolim/codes/Commander/build/logs/fftw_double_static-configure-*.log
[ 17%] Performing build step for 'fftw_double_static'
-- fftw_float_shared configure command succeeded.  See also /home/rrolim/codes/Commander/build/logs/fftw_float_shared-configure-*.log
[ 18%] Performing build step for 'fftw_float_shared'
-- libaec_src download command succeeded.  See also /home/rrolim/codes/Commander/build/logs/libaec_src-download-*.log
[ 19%] Performing update step for 'libaec_src'
[ 19%] No patch step for 'libaec_src'
[ 20%] No configure step for 'libaec_src'
[ 20%] No build step for 'libaec_src'
[ 21%] No install step for 'libaec_src'
[ 21%] Completed 'libaec_src'
[ 21%] Built target libaec_src
[ 22%] Creating directories for 'fftw_float_static'
[ 23%] No download step for 'fftw_float_static'
[ 23%] No update step for 'fftw_float_static'
[ 23%] No patch step for 'fftw_float_static'
[ 23%] Performing configure step for 'fftw_float_static'
-- fftw_float_static configure command succeeded.  See also /home/rrolim/codes/Commander/build/logs/fftw_float_static-configure-*.log
[ 23%] Performing build step for 'fftw_float_static'
-- fftw_double_shared build command succeeded.  See also /home/rrolim/codes/Commander/build/logs/fftw_double_shared-build-*.log
[ 24%] Performing install step for 'fftw_double_shared'
-- fftw_double_shared install command succeeded.  See also /home/rrolim/codes/Commander/build/logs/fftw_double_shared-install-*.log
[ 24%] Completed 'fftw_double_shared'
[ 24%] Built target fftw_double_shared
[ 25%] Creating directories for 'zlib_src'
[ 26%] Performing download step (download, verify and extract) for 'zlib_src'
-- zlib_src download command succeeded.  See also /home/rrolim/codes/Commander/build/logs/zlib_src-download-*.log
[ 27%] No update step for 'zlib_src'
[ 27%] No patch step for 'zlib_src'
[ 27%] No configure step for 'zlib_src'
[ 27%] No build step for 'zlib_src'
[ 27%] No install step for 'zlib_src'
[ 28%] Completed 'zlib_src'
[ 28%] Built target zlib_src
[ 28%] Creating directories for 'libaec_static'
[ 28%] No download step for 'libaec_static'
[ 28%] No update step for 'libaec_static'
[ 29%] No patch step for 'libaec_static'
[ 29%] Performing configure step for 'libaec_static'
-- libaec_static configure command succeeded.  See also /home/rrolim/codes/Commander/build/logs/libaec_static-configure-*.log
[ 30%] Performing build step for 'libaec_static'
-- libaec_static build command succeeded.  See also /home/rrolim/codes/Commander/build/logs/libaec_static-build-*.log
[ 31%] Performing install step for 'libaec_static'
-- libaec_static install command succeeded.  See also /home/rrolim/codes/Commander/build/logs/libaec_static-install-*.log
[ 31%] Completed 'libaec_static'
[ 31%] Built target libaec_static
[ 32%] Creating directories for 'libaec_shared'
[ 32%] No download step for 'libaec_shared'
[ 33%] No update step for 'libaec_shared'
[ 33%] No patch step for 'libaec_shared'
[ 34%] Performing configure step for 'libaec_shared'
-- libaec_shared configure command succeeded.  See also /home/rrolim/codes/Commander/build/logs/libaec_shared-configure-*.log
[ 34%] Performing build step for 'libaec_shared'
-- libaec_shared build command succeeded.  See also /home/rrolim/codes/Commander/build/logs/libaec_shared-build-*.log
[ 34%] Performing install step for 'libaec_shared'
-- libaec_shared install command succeeded.  See also /home/rrolim/codes/Commander/build/logs/libaec_shared-install-*.log
[ 35%] Completed 'libaec_shared'
[ 35%] Built target libaec_shared
[ 35%] Built target blas
[ 35%] Creating directories for 'zlib'
[ 36%] No download step for 'zlib'
[ 36%] No update step for 'zlib'
[ 37%] No patch step for 'zlib'
[ 37%] Performing configure step for 'zlib'
-- fftw_double_static build command succeeded.  See also /home/rrolim/codes/Commander/build/logs/fftw_double_static-build-*.log
[ 38%] Performing install step for 'fftw_double_static'
-- fftw_float_shared build command succeeded.  See also /home/rrolim/codes/Commander/build/logs/fftw_float_shared-build-*.log
[ 38%] Performing install step for 'fftw_float_shared'
-- fftw_double_static install command succeeded.  See also /home/rrolim/codes/Commander/build/logs/fftw_double_static-install-*.log
[ 38%] Completed 'fftw_double_static'
[ 38%] Built target fftw_double_static
[ 38%] Built target libaec
-- fftw_float_shared install command succeeded.  See also /home/rrolim/codes/Commander/build/logs/fftw_float_shared-install-*.log
[ 38%] Completed 'fftw_float_shared'
[ 38%] Built target fftw_float_shared
-- zlib configure command succeeded.  See also /home/rrolim/codes/Commander/build/logs/zlib-configure-*.log
[ 39%] Performing build step for 'zlib'
-- zlib build command succeeded.  See also /home/rrolim/codes/Commander/build/logs/zlib-build-*.log
[ 39%] Performing install step for 'zlib'
-- zlib install command succeeded.  See also /home/rrolim/codes/Commander/build/logs/zlib-install-*.log
[ 39%] Completed 'zlib'
[ 39%] Built target zlib
[ 39%] Creating directories for 'cfitsio_static'
[ 40%] No download step for 'cfitsio_static'
[ 40%] No update step for 'cfitsio_static'
[ 41%] No patch step for 'cfitsio_static'
[ 41%] Performing configure step for 'cfitsio_static'
[ 41%] Creating directories for 'cfitsio_shared'
[ 41%] No download step for 'cfitsio_shared'
[ 42%] No update step for 'cfitsio_shared'
[ 42%] Creating directories for 'hdf5_src'
[ 42%] No patch step for 'cfitsio_shared'
[ 42%] Performing download step (download, verify and extract) for 'hdf5_src'
[ 43%] Performing configure step for 'cfitsio_shared'
-- fftw_float_static build command succeeded.  See also /home/rrolim/codes/Commander/build/logs/fftw_float_static-build-*.log
[ 43%] Performing install step for 'fftw_float_static'
-- fftw_float_static install command succeeded.  See also /home/rrolim/codes/Commander/build/logs/fftw_float_static-install-*.log
[ 44%] Completed 'fftw_float_static'
[ 44%] Built target fftw_float_static
[ 44%] Built target fftw
-- cfitsio_static configure command succeeded.  See also /home/rrolim/codes/Commander/build/logs/cfitsio_static-configure-*.log
[ 45%] Performing build step for 'cfitsio_static'
-- cfitsio_shared configure command succeeded.  See also /home/rrolim/codes/Commander/build/logs/cfitsio_shared-configure-*.log
[ 45%] Performing build step for 'cfitsio_shared'
-- hdf5_src download command succeeded.  See also /home/rrolim/codes/Commander/build/logs/hdf5_src-download-*.log
[ 45%] No update step for 'hdf5_src'
[ 46%] No patch step for 'hdf5_src'
[ 46%] No configure step for 'hdf5_src'
[ 47%] No build step for 'hdf5_src'
[ 48%] No install step for 'hdf5_src'
[ 48%] Completed 'hdf5_src'
[ 48%] Built target hdf5_src
[ 48%] Creating directories for 'hdf5'
[ 48%] No download step for 'hdf5'
[ 49%] No update step for 'hdf5'
[ 49%] No patch step for 'hdf5'
[ 50%] Performing configure step for 'hdf5'
-- cfitsio_shared build command succeeded.  See also /home/rrolim/codes/Commander/build/logs/cfitsio_shared-build-*.log
[ 51%] Performing install step for 'cfitsio_shared'
-- cfitsio_shared install command succeeded.  See also /home/rrolim/codes/Commander/build/logs/cfitsio_shared-install-*.log
-- cfitsio_static build command succeeded.  See also /home/rrolim/codes/Commander/build/logs/cfitsio_static-build-*.log
[ 51%] Completed 'cfitsio_shared'
[ 51%] Performing install step for 'cfitsio_static'
[ 51%] Built target cfitsio_shared
-- cfitsio_static install command succeeded.  See also /home/rrolim/codes/Commander/build/logs/cfitsio_static-install-*.log
[ 51%] Completed 'cfitsio_static'
[ 51%] Built target cfitsio_static
[ 51%] Built target cfitsio
[ 51%] Creating directories for 'healpix'
[ 52%] No download step for 'healpix'
[ 52%] No update step for 'healpix'
[ 53%] No patch step for 'healpix'
[ 53%] Performing configure step for 'healpix'
-- hdf5 configure command succeeded.  See also /home/rrolim/codes/Commander/build/logs/hdf5-configure-*.log
[ 53%] Performing build step for 'hdf5'
-- healpix configure command succeeded.  See also /home/rrolim/codes/Commander/build/logs/healpix-configure-*.log
[ 54%] Performing build step for 'healpix'
-- healpix build command succeeded.  See also /home/rrolim/codes/Commander/build/logs/healpix-build-*.log
[ 54%] Performing install step for 'healpix'
[ 54%] Completed 'healpix'
[ 54%] Built target healpix
CMake Error at /home/rrolim/code/Commander/build/subbuilds/src/hdf5-stamp/hdf5-build-RelWithDebInfo.cmake:49 (message):
  Command failed: 2

   '/usr/bin/gmake'

  See also

    /home/rrolim/codes/Commander/build/logs/hdf5-build-*.log


gmake[2]: *** [CMakeFiles/hdf5.dir/build.make:86: subbuilds/src/hdf5-stamp/hdf5-build] Error 1
gmake[1]: *** [CMakeFiles/Makefile2:812: CMakeFiles/hdf5.dir/all] Error 2
gmake: *** [Makefile:136: all] Error 2

The weird thing here is that the logs directory was never created, so I cannot show you the .log file.

I hope I could transmit everything necessary, and I thank you in advance!

[dncnwtts]

Hi Raphael, thanks for the detailed error log! Before we go any further, I would suggest looking at the devel branch if you haven't already. There have been some migration issues with ifx from ifort, in particular with compilation within healpix. If you are using the master branch, consider starting from devel, since we are currently debugging this issue now and it should be fixed.

Thanks,
Duncan

[rprolim]

Hi Duncan, thanks for the answer! I hadn't thought about trying different branches!

Okay, so I deleted my original Commander directory and then tried to use the devel branch with git checkout devel after cloning Commander again (but now directly from your repository):

rrolim@vm:~/codes/Commander$ git checkout devel
branch 'devel' set up to track 'origin/devel'.
Switched to a new branch 'devel'

And then:

rrolim@vm:~/codes/Commander/build$ cmake -DCMAKE_INSTALL_PREFIX=/home/rrolim/codes/Commander/build/ -DCMAKE_C_COMPILER=icx -DCMAKE_CXX_COMPILER=icpx -DCMAKE_Fortran_COMPILER=ifx -DMPI_C_COMPILER=mpiicx -DMPI_CXX_COMPILER=mpiicpx -DMPI_Fortran_COMPILER=mpiifx -DFFTW_ENABLE_AVX2=OFF ..
-- ===============================================================
-- Welcome to automatic Commander3 installer!
-- Issued under: GNU GPLv3 license
-- Official repo: https://github.com/Cosmoglobe/Commander
-- Documentation: https://cosmoglobe.github.io/Commander/#/
-- Forum: https://forums.beyondplanck.science/
-- ===============================================================
-- Scanning your system. Please, wait a moment...
-- The Fortran compiler identification is IntelLLVM 2025.0.4
-- The CXX compiler identification is IntelLLVM 2025.0.4
-- The C compiler identification is IntelLLVM 2025.0.4
-- Detecting Fortran compiler ABI info
-- Detecting Fortran compiler ABI info - done
-- Check for working Fortran compiler: /opt/intel/oneapi/compiler/2025.0/bin/ifx - skipped
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /opt/intel/oneapi/compiler/2025.0/bin/icpx - 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: /opt/intel/oneapi/compiler/2025.0/bin/icx - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Found Python: /usr/bin/python3 (found version "3.12.3") found components: Interpreter 
-- Detecting Fortran/C Interface
-- Detecting Fortran/C Interface - Found GLOBAL and MODULE mangling
-- Verifying Fortran/CXX Compiler Compatibility
-- Verifying Fortran/CXX Compiler Compatibility - Success
-- math (m) libraries are: /usr/lib/x86_64-linux-gnu/libm.so
-- dl libs are: dl
-- Found Git: /usr/bin/git (found version "2.43.0") 
-- ---------------------------------------------------------------
-- Found MPI_C: /opt/intel/oneapi/mpi/2021.14/lib/libmpifort.so (found version "3.1") 
-- Found MPI_CXX: /opt/intel/oneapi/mpi/2021.14/lib/libmpicxx.so (found version "3.1") 
-- Found MPI_Fortran: /opt/intel/oneapi/mpi/2021.14/lib/libmpifort.so (found version "3.1") 
-- Found MPI: TRUE (found version "3.1") found components: Fortran C CXX 
-- MPI Libs Path: /opt/intel/oneapi/mpi/2021.14/lib/libmpifort.so;/opt/intel/oneapi/mpi/2021.14/lib/libmpi.so;/lib/x86_64-linux-gnu/libdl.a;/lib/x86_64-linux-gnu/librt.a;/lib/x86_64-linux-gnu/libpthread.a
-- MPI Include Path: /opt/intel/oneapi/mpi/2021.14/include/mpi;/opt/intel/oneapi/mpi/2021.14/include
-- MPI Compile Options are: 
-- MPI Link options are: -Xlinker --enable-new-dtags -Xlinker -rpath -Xlinker "/opt/intel/oneapi/mpi/2021.14/lib" -Xlinker -rpath -Xlinker "/opt/intel/oneapi/mpi/2021.14/lib"
-- ---------------------------------------------------------------
-- Found OpenMP_C: -fiopenmp (found version "5.1") 
-- Found OpenMP_CXX: -fiopenmp (found version "5.1") 
-- Found OpenMP_Fortran: -fiopenmp (found version "5.2") 
-- Found OpenMP: TRUE (found version "5.1")  
-- OPENMP Fortran LIBRARIES are: /opt/intel/oneapi/compiler/2025.0/lib/libiomp5.so
-- Looking for Fortran sgemm
-- Looking for Fortran sgemm - not found
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success
-- Found Threads: TRUE  
-- Looking for Fortran sgemm
-- Looking for Fortran sgemm - found
-- Found BLAS: /opt/intel/oneapi/mkl/2025.0/lib/libmkl_intel_lp64.so;/opt/intel/oneapi/mkl/2025.0/lib/libmkl_intel_thread.so;/opt/intel/oneapi/mkl/2025.0/lib/libmkl_core.so;/opt/intel/oneapi/compiler/2025.0/lib/libiomp5.so;-lm;-ldl  
-- Looking for Fortran cheev
-- Looking for Fortran cheev - found
-- Found LAPACK: /opt/intel/oneapi/mkl/2025.0/lib/libmkl_intel_lp64.so;/opt/intel/oneapi/mkl/2025.0/lib/libmkl_intel_thread.so;/opt/intel/oneapi/mkl/2025.0/lib/libmkl_core.so;/opt/intel/oneapi/compiler/2025.0/lib/libiomp5.so;-lm;-ldl;-lm;-ldl  
-- ---------------------------------------------------------------
-- Could NOT find ZLIB (missing: ZLIB_LIBRARY ZLIB_INCLUDE_DIR) (Required is at least version "1.2.11")
-- ---------------------------------------------------------------
-- No LibAEC, will compile from source.
-- No ZLIB sources were found; thus, will download it from source:
https://sourceforge.net/projects/libpng/files/zlib/1.2.11/zlib-1.2.11.tar.gz
CMake Warning (dev) at /usr/share/cmake-3.28/Modules/ExternalProject.cmake:3195 (message):
  The DOWNLOAD_EXTRACT_TIMESTAMP option was not given and policy CMP0135 is
  not set.  The policy's OLD behavior will be used.  When using a URL
  download, the timestamps of extracted files should preferably be that of
  the time of extraction, otherwise code that depends on the extracted
  contents might not be rebuilt if the URL changes.  The OLD behavior
  preserves the timestamps from the archive instead, but this is usually not
  what you want.  Update your project to the NEW behavior or specify the
  DOWNLOAD_EXTRACT_TIMESTAMP option with a value of true to avoid this
  robustness issue.
Call Stack (most recent call first):
  /usr/share/cmake-3.28/Modules/ExternalProject.cmake:4418 (_ep_add_download_command)
  cmake/projects/zlib.cmake:46 (ExternalProject_Add)
  cmake/libraries.cmake:274 (include)
  cmake/main.cmake:47 (include)
  CMakeLists.txt:92 (include)
This warning is for project developers.  Use -Wno-dev to suppress it.

-- No LIBAEC sources were found; thus, will download it from source:
https://gitlab.dkrz.de/k202009/libaec.git
-- No CFITSIO sources were found; thus, will download it from source:
http://heasarc.gsfc.nasa.gov/FTP/software/fitsio/c/cfitsio-4.0.0.tar.gz
CMake Warning (dev) at /usr/share/cmake-3.28/Modules/ExternalProject.cmake:3195 (message):
  The DOWNLOAD_EXTRACT_TIMESTAMP option was not given and policy CMP0135 is
  not set.  The policy's OLD behavior will be used.  When using a URL
  download, the timestamps of extracted files should preferably be that of
  the time of extraction, otherwise code that depends on the extracted
  contents might not be rebuilt if the URL changes.  The OLD behavior
  preserves the timestamps from the archive instead, but this is usually not
  what you want.  Update your project to the NEW behavior or specify the
  DOWNLOAD_EXTRACT_TIMESTAMP option with a value of true to avoid this
  robustness issue.
Call Stack (most recent call first):
  /usr/share/cmake-3.28/Modules/ExternalProject.cmake:4418 (_ep_add_download_command)
  cmake/projects/cfitsio.cmake:52 (ExternalProject_Add)
  cmake/libraries.cmake:274 (include)
  cmake/main.cmake:47 (include)
  CMakeLists.txt:92 (include)
This warning is for project developers.  Use -Wno-dev to suppress it.

-- No FFTW sources were found; thus, will download it from source:
http://fftw.org/fftw-3.3.9.tar.gz
CMake Warning (dev) at /usr/share/cmake-3.28/Modules/ExternalProject.cmake:3195 (message):
  The DOWNLOAD_EXTRACT_TIMESTAMP option was not given and policy CMP0135 is
  not set.  The policy's OLD behavior will be used.  When using a URL
  download, the timestamps of extracted files should preferably be that of
  the time of extraction, otherwise code that depends on the extracted
  contents might not be rebuilt if the URL changes.  The OLD behavior
  preserves the timestamps from the archive instead, but this is usually not
  what you want.  Update your project to the NEW behavior or specify the
  DOWNLOAD_EXTRACT_TIMESTAMP option with a value of true to avoid this
  robustness issue.
Call Stack (most recent call first):
  /usr/share/cmake-3.28/Modules/ExternalProject.cmake:4418 (_ep_add_download_command)
  cmake/projects/fftw.cmake:67 (ExternalProject_Add)
  cmake/libraries.cmake:274 (include)
  cmake/main.cmake:47 (include)
  CMakeLists.txt:92 (include)
This warning is for project developers.  Use -Wno-dev to suppress it.

-- Missing component -- Fortran -- will be compiled from source.
-- No HDF5 sources were found; thus, will download it from source:
https://support.hdfgroup.org/ftp/HDF5/releases/hdf5-1.12/hdf5-1.12.0/src/hdf5-1.12.0.tar.gz
CMake Warning (dev) at /usr/share/cmake-3.28/Modules/ExternalProject.cmake:3195 (message):
  The DOWNLOAD_EXTRACT_TIMESTAMP option was not given and policy CMP0135 is
  not set.  The policy's OLD behavior will be used.  When using a URL
  download, the timestamps of extracted files should preferably be that of
  the time of extraction, otherwise code that depends on the extracted
  contents might not be rebuilt if the URL changes.  The OLD behavior
  preserves the timestamps from the archive instead, but this is usually not
  what you want.  Update your project to the NEW behavior or specify the
  DOWNLOAD_EXTRACT_TIMESTAMP option with a value of true to avoid this
  robustness issue.
Call Stack (most recent call first):
  /usr/share/cmake-3.28/Modules/ExternalProject.cmake:4418 (_ep_add_download_command)
  cmake/projects/hdf5.cmake:65 (ExternalProject_Add)
  cmake/libraries.cmake:274 (include)
  cmake/main.cmake:47 (include)
  CMakeLists.txt:92 (include)
This warning is for project developers.  Use -Wno-dev to suppress it.

-- No HEALPIX sources were found; thus, will download it from source:
https://sourceforge.net/projects/healpix/files/Healpix_3.80/Healpix_3.80_2021Jun22.tar.gz/download
CMake Warning (dev) at /usr/share/cmake-3.28/Modules/ExternalProject.cmake:3195 (message):
  The DOWNLOAD_EXTRACT_TIMESTAMP option was not given and policy CMP0135 is
  not set.  The policy's OLD behavior will be used.  When using a URL
  download, the timestamps of extracted files should preferably be that of
  the time of extraction, otherwise code that depends on the extracted
  contents might not be rebuilt if the URL changes.  The OLD behavior
  preserves the timestamps from the archive instead, but this is usually not
  what you want.  Update your project to the NEW behavior or specify the
  DOWNLOAD_EXTRACT_TIMESTAMP option with a value of true to avoid this
  robustness issue.
Call Stack (most recent call first):
  /usr/share/cmake-3.28/Modules/ExternalProject.cmake:4418 (_ep_add_download_command)
  cmake/projects/healpix.cmake:124 (ExternalProject_Add)
  cmake/libraries.cmake:274 (include)
  cmake/main.cmake:47 (include)
  CMakeLists.txt:92 (include)
This warning is for project developers.  Use -Wno-dev to suppress it.

-- ---------------------------------------------------------------
-- ===============================================================
   |                    CONFIGURATION SUMMARY                    |
   ===============================================================
-- |                          HARDWARE                           |
   ---------------------------------------------------------------
-- | Operating System:
   |------------------
   | * Name            -- Linux
   | * Platform        -- x86_64
   | * Release         -- 6.11.0-17-generic
   | * Version         -- #17~24.04.2-Ubuntu SMP PREEMPT_DYNAMIC Mon Jan 20 22:48:29 UTC 2
   |------------------
-- | CPU             :
   |------------------
   | * Name            -- Unknown P6 family
   | * Description     -- 4 core 11th Gen Intel(R) Core(TM) i7-1165G7 @ 2.80GHz
   | * Physical Cores  -- 4
   | * Logical Cores   -- 4
   | * Is 64Bit        -- 1
   | * Has FPU         -- 1
   | * Has SSE         -- 1
   | * Has SSE2        -- 1
   | * Has SSE FP      -- 0
   | * Has SSE MMX     -- 0
   | * Has MMX         -- 1
   | * Has Ext. MMX    -- 0
   |------------------
-- | Memory          :
   |------------------
   | * Virtual [total] -- 4095 [MiB]
   | * Virtual [avail] -- 4095 [MiB]
   | * Phys    [total] -- 7940 [MiB]
   | * Phys    [avail] -- 6896 [MiB]
   ---------------------------------------------------------------
-- |                         COMPILERS                           |
   ---------------------------------------------------------------
-- | Fortran         :
   |------------------
   | * Name            -- /opt/intel/oneapi/compiler/2025.0/bin/ifx
   | * ID              -- IntelLLVM
   | * Version         -- 2025.0.4
   | * MPI Name        -- /opt/intel/oneapi/mpi/2021.14/bin/mpiifx
   | * MPI Exec.       -- /opt/intel/oneapi/mpi/2021.14/bin/mpiexec
   |------------------
-- | C++             :
   |------------------
   | * Name            -- /opt/intel/oneapi/compiler/2025.0/bin/icpx
   | * ID              -- IntelLLVM
   | * Version         -- 2025.0.4
   | * MPI Name        -- /opt/intel/oneapi/mpi/2021.14/bin/mpiicpx
   | * MPI Exec.       -- /opt/intel/oneapi/mpi/2021.14/bin/mpiexec
   |------------------
-- | C               :
   |------------------
   | * Name            -- /opt/intel/oneapi/compiler/2025.0/bin/icx
   | * ID              -- IntelLLVM
   | * Version         -- 2025.0.4
   | * MPI Name        -- /opt/intel/oneapi/mpi/2021.14/bin/mpiicx
   | * MPI Exec.       -- /opt/intel/oneapi/mpi/2021.14/bin/mpiexec
   ---------------------------------------------------------------
-- |                        INSTALLATION                         |
   ---------------------------------------------------------------
   | * CMake Exec.     -- /usr/bin/cmake
   | * CMake Ver.      -- 3.28.3
   | * Prefix          -- /home/rrolim/codes/Commander/build
   | * Downloads Dir   -- /home/rrolim/codes/Commander/build/downloads
   | * Build Type      -- RelWithDebInfo
   | * Compiler Flags  -- -O2;-xHost;-g;-fpe0;-fPIC;-qopenmp;-assume;byterecl;-traceback;-heap-arrays;16384 ;
   ---------------------------------------------------------------
-- |                         LIBRARIES                           |
   ---------------------------------------------------------------
-- | Linux Math      :
   |------------------
   | * Name(s)       :
   |   - /usr/lib/x86_64-linux-gnu/libm.so
   |------------------
-- | BLAS            :
   |------------------
   | * Found           -- TRUE
   | * Name(s)       :
   |   - /opt/intel/oneapi/mkl/2025.0/lib/libmkl_intel_lp64.so
   |   - /opt/intel/oneapi/mkl/2025.0/lib/libmkl_intel_thread.so
   |   - /opt/intel/oneapi/mkl/2025.0/lib/libmkl_core.so
   |   - /opt/intel/oneapi/compiler/2025.0/lib/libiomp5.so
   |   - -lm
   |   - -ldl
   |------------------
-- | LAPACK          :
   |------------------
   | * Found           -- TRUE
   | * Name(s)       :
   |   - /opt/intel/oneapi/mkl/2025.0/lib/libmkl_intel_lp64.so
   |   - /opt/intel/oneapi/mkl/2025.0/lib/libmkl_intel_thread.so
   |   - /opt/intel/oneapi/mkl/2025.0/lib/libmkl_core.so
   |   - /opt/intel/oneapi/compiler/2025.0/lib/libiomp5.so
   |   - -lm
   |   - -ldl
   |   - -lm
   |   - -ldl
   |------------------
-- | ZLIB            :
   |------------------
   | * Found           -- FALSE
   | * Name(s)       :
   |   - /home/rrolim/codes/Commander/build/lib/libz.so
   | * Source URL    :
   |   - https://sourceforge.net/projects/libpng/files/zlib/1.2.11/zlib-1.2.11.tar.gz
   |------------------
-- | HDF5            :
   |------------------
   | * Found           -- 
   | * Name(s)       :
   |   - /home/rrolim/codes/Commander/build/lib/libhdf5_hl_fortran.a
   |   - /home/rrolim/codes/Commander/build/lib/libhdf5_hl_f90cstub.a
   |   - /home/rrolim/codes/Commander/build/lib/libhdf5_fortran.a
   |   - /home/rrolim/codes/Commander/build/lib/libhdf5_f90cstub.a
   |   - /home/rrolim/codes/Commander/build/lib/libhdf5_hl.a
   |   - /home/rrolim/codes/Commander/build/lib/libhdf5.a
   |   - /home/rrolim/codes/Commander/build/lib/libz.so
   |   - /home/rrolim/codes/Commander/build/lib/libsz.so
   | * Source URL    :
   |   - https://support.hdfgroup.org/ftp/HDF5/releases/hdf5-1.12/hdf5-1.12.0/src/hdf5-1.12.0.tar.gz
   | * Depends       :
   |   - ZLIB
   |   - LIBAEC
   |------------------
-- | FFTW            :
   |------------------
   | * Found           -- 
   | * Name(s)       :
   |   - /home/rrolim/codes/Commander/build/lib/libfftw3.a
   |   - /home/rrolim/codes/Commander/build/lib/libfftw3_threads.a
   |   - /home/rrolim/codes/Commander/build/lib/libfftw3f.a
   |   - /home/rrolim/codes/Commander/build/lib/libfftw3f_threads.a
   |   - /home/rrolim/codes/Commander/build/lib/libfftw3f_omp.a
   | * Source URL    :
   |   - http://fftw.org/fftw-3.3.9.tar.gz
   |------------------
-- | CFITSIO         :
   |------------------
   | * Found           -- 
   | * Name(s)       :
   |   - /home/rrolim/codes/Commander/build/lib/libcfitsio.a
   |   - /home/rrolim/codes/Commander/build/lib/libz.so
   | * Source URL    :
   |   - http://heasarc.gsfc.nasa.gov/FTP/software/fitsio/c/cfitsio-4.0.0.tar.gz
   | * Depends       :
   |   - ZLIB
   |------------------
-- | HEALPIX         :
   |------------------
   | * Found           -- 
   | * Name(s)       :
   |   - /home/rrolim/codes/Commander/build/healpix/lib/libsharp.a
   |   - /home/rrolim/codes/Commander/build/healpix/lib/libhealpix.a
   | * Source URL    :
   |   - https://sourceforge.net/projects/healpix/files/Healpix_3.80/Healpix_3.80_2021Jun22.tar.gz/download
   | * Depends       :
   |   - CFITSIO
-- ===============================================================
-- Configuring done (6.4s)
-- Generating done (0.0s)
-- Build files have been written to: /home/rrolim/codes/Commander/build

But then again, the same error appeared:

rrolim@vm:~/codes/Commander/build$ cmake --build . --target install -j 4
[  0%] Built target mpi
[  0%] Creating directories for 'libaec_src'
[  0%] Built target tempita
[  0%] Built target openmp
[  0%] Built target mbedtls
[  0%] Built target libssh2
[  0%] Performing download step (git clone) for 'libaec_src'
[  0%] Built target curl
[  0%] Creating directories for 'cfitsio_src'
[  0%] Creating directories for 'fftw_src'
[  1%] Creating directories for 'healpix_src'
[  1%] Performing download step (download, verify and extract) for 'cfitsio_src'
[  1%] Performing download step (download, verify and extract) for 'fftw_src'
[  1%] Performing download step (download, verify and extract) for 'healpix_src'
-- fftw_src download command succeeded.  See also /home/rrolim/codes/Commander/build/logs/fftw_src-download-*.log
[  2%] No update step for 'fftw_src'
[  2%] No patch step for 'fftw_src'
[  3%] No configure step for 'fftw_src'
[  3%] No build step for 'fftw_src'
[  4%] No install step for 'fftw_src'
[  4%] Completed 'fftw_src'
[  4%] Built target fftw_src
[  4%] Building CXX object CMakeFiles/comm_system_backend.dir/commander3/src/comm_system_backend.cpp.o
/home/rrolim/codes/Commander/commander3/src/comm_system_backend.cpp:71:21: warning: format specifies type 'long long *' but the argument has type 'int64_t *' (aka 'long *') [-Wformat]
   71 |                 fscanf(f, "%lld", &npage);
      |                            ~~~~   ^~~~~~
      |                            %ld
1 warning generated.
[  5%] Linking CXX static library lib/libcomm_system_backend.a
[  5%] Built target comm_system_backend
[  5%] Built target required_libraries
[  5%] Creating directories for 'fftw_double_shared'
[  5%] No download step for 'fftw_double_shared'
[  5%] No update step for 'fftw_double_shared'
[  6%] No patch step for 'fftw_double_shared'
[  6%] Performing configure step for 'fftw_double_shared'
-- libaec_src download command succeeded.  See also /home/rrolim/codes/Commander/build/logs/libaec_src-download-*.log
[  6%] Performing update step for 'libaec_src'
[  7%] No patch step for 'libaec_src'
[  7%] No configure step for 'libaec_src'
[  8%] No build step for 'libaec_src'
[  9%] No install step for 'libaec_src'
[  9%] Completed 'libaec_src'
[  9%] Built target libaec_src
[  9%] Creating directories for 'fftw_double_static'
[ 10%] No download step for 'fftw_double_static'
[ 10%] No update step for 'fftw_double_static'
[ 11%] No patch step for 'fftw_double_static'
[ 11%] Performing configure step for 'fftw_double_static'
-- fftw_double_shared configure command succeeded.  See also /home/rrolim/codes/Commander/build/logs/fftw_double_shared-configure-*.log
[ 12%] Performing build step for 'fftw_double_shared'
-- cfitsio_src download command succeeded.  See also /home/rrolim/codes/Commander/build/logs/cfitsio_src-download-*.log
[ 13%] No update step for 'cfitsio_src'
[ 13%] No patch step for 'cfitsio_src'
[ 14%] No configure step for 'cfitsio_src'
[ 14%] No build step for 'cfitsio_src'
[ 15%] No install step for 'cfitsio_src'
[ 15%] Completed 'cfitsio_src'
[ 15%] Built target cfitsio_src
[ 16%] Creating directories for 'fftw_float_shared'
[ 17%] No download step for 'fftw_float_shared'
[ 17%] No update step for 'fftw_float_shared'
[ 17%] No patch step for 'fftw_float_shared'
[ 17%] Performing configure step for 'fftw_float_shared'
-- fftw_double_static configure command succeeded.  See also /home/rrolim/codes/Commander/build/logs/fftw_double_static-configure-*.log
[ 18%] Performing build step for 'fftw_double_static'
-- fftw_float_shared configure command succeeded.  See also /home/rrolim/codes/Commander/build/logs/fftw_float_shared-configure-*.log
[ 18%] Performing build step for 'fftw_float_shared'
-- healpix_src download command succeeded.  See also /home/rrolim/codes/Commander/build/logs/healpix_src-download-*.log
[ 19%] No update step for 'healpix_src'
[ 19%] No patch step for 'healpix_src'
[ 20%] No configure step for 'healpix_src'
[ 20%] No build step for 'healpix_src'
[ 20%] No install step for 'healpix_src'
[ 21%] Completed 'healpix_src'
[ 21%] Built target healpix_src
[ 22%] Creating directories for 'fftw_float_static'
[ 22%] No download step for 'fftw_float_static'
[ 23%] No update step for 'fftw_float_static'
[ 23%] No patch step for 'fftw_float_static'
[ 24%] Performing configure step for 'fftw_float_static'
-- fftw_float_static configure command succeeded.  See also /home/rrolim/codes/Commander/build/logs/fftw_float_static-configure-*.log
[ 24%] Performing build step for 'fftw_float_static'
-- fftw_double_shared build command succeeded.  See also /home/rrolim/codes/Commander/build/logs/fftw_double_shared-build-*.log
[ 25%] Performing install step for 'fftw_double_shared'
-- fftw_double_shared install command succeeded.  See also /home/rrolim/codes/Commander/build/logs/fftw_double_shared-install-*.log
[ 25%] Completed 'fftw_double_shared'
[ 25%] Built target fftw_double_shared
[ 26%] Creating directories for 'zlib_src'
[ 26%] Performing download step (download, verify and extract) for 'zlib_src'
-- fftw_double_static build command succeeded.  See also /home/rrolim/codes/Commander/build/logs/fftw_double_static-build-*.log
[ 26%] Performing install step for 'fftw_double_static'
-- fftw_double_static install command succeeded.  See also /home/rrolim/codes/Commander/build/logs/fftw_double_static-install-*.log
[ 26%] Completed 'fftw_double_static'
[ 26%] Built target fftw_double_static
[ 26%] Creating directories for 'libaec_static'
[ 27%] No download step for 'libaec_static'
[ 27%] No update step for 'libaec_static'
[ 28%] No patch step for 'libaec_static'
[ 28%] Performing configure step for 'libaec_static'
-- libaec_static configure command succeeded.  See also /home/rrolim/codes/Commander/build/logs/libaec_static-configure-*.log
[ 29%] Performing build step for 'libaec_static'
-- zlib_src download command succeeded.  See also /home/rrolim/codes/Commander/build/logs/zlib_src-download-*.log
[ 30%] No update step for 'zlib_src'
[ 30%] No patch step for 'zlib_src'
[ 31%] No configure step for 'zlib_src'
[ 31%] No build step for 'zlib_src'
[ 31%] No install step for 'zlib_src'
[ 32%] Completed 'zlib_src'
[ 32%] Built target zlib_src
[ 32%] Creating directories for 'libaec_shared'
[ 32%] No download step for 'libaec_shared'
[ 33%] No update step for 'libaec_shared'
[ 33%] No patch step for 'libaec_shared'
[ 34%] Performing configure step for 'libaec_shared'
-- libaec_shared configure command succeeded.  See also /home/rrolim/codes/Commander/build/logs/libaec_shared-configure-*.log
[ 34%] Performing build step for 'libaec_shared'
-- libaec_static build command succeeded.  See also /home/rrolim/codes/Commander/build/logs/libaec_static-build-*.log
[ 34%] Performing install step for 'libaec_static'
-- libaec_static install command succeeded.  See also /home/rrolim/codes/Commander/build/logs/libaec_static-install-*.log
[ 34%] Completed 'libaec_static'
[ 34%] Built target libaec_static
[ 34%] Built target blas
-- libaec_shared build command succeeded.  See also /home/rrolim/codes/Commander/build/logs/libaec_shared-build-*.log
[ 35%] Performing install step for 'libaec_shared'
[ 36%] Creating directories for 'zlib'
[ 37%] No download step for 'zlib'
[ 37%] No update step for 'zlib'
[ 37%] No patch step for 'zlib'
[ 37%] Performing configure step for 'zlib'
-- libaec_shared install command succeeded.  See also /home/rrolim/codes/Commander/build/logs/libaec_shared-install-*.log
[ 37%] Completed 'libaec_shared'
-- fftw_float_shared build command succeeded.  See also /home/rrolim/codes/Commander/build/logs/fftw_float_shared-build-*.log
[ 37%] Performing install step for 'fftw_float_shared'
[ 37%] Built target libaec_shared
[ 37%] Built target libaec
-- fftw_float_shared install command succeeded.  See also /home/rrolim/codes/Commander/build/logs/fftw_float_shared-install-*.log
[ 38%] Completed 'fftw_float_shared'
[ 38%] Built target fftw_float_shared
-- zlib configure command succeeded.  See also /home/rrolim/codes/Commander/build/logs/zlib-configure-*.log
[ 38%] Performing build step for 'zlib'
-- zlib build command succeeded.  See also /home/rrolim/codes/Commander/build/logs/zlib-build-*.log
[ 38%] Performing install step for 'zlib'
-- zlib install command succeeded.  See also /home/rrolim/codes/Commander/build/logs/zlib-install-*.log
[ 39%] Completed 'zlib'
[ 39%] Built target zlib
[ 39%] Creating directories for 'cfitsio_static'
[ 40%] Creating directories for 'cfitsio_shared'
[ 40%] No download step for 'cfitsio_static'
[ 40%] No update step for 'cfitsio_static'
[ 40%] No download step for 'cfitsio_shared'
[ 41%] No update step for 'cfitsio_shared'
[ 42%] No patch step for 'cfitsio_static'
[ 42%] No patch step for 'cfitsio_shared'
[ 42%] Performing configure step for 'cfitsio_static'
[ 42%] Creating directories for 'hdf5_src'
[ 43%] Performing configure step for 'cfitsio_shared'
[ 44%] Performing download step (download, verify and extract) for 'hdf5_src'
-- cfitsio_static configure command succeeded.  See also /home/rrolim/codes/Commander/build/logs/cfitsio_static-configure-*.log
[ 45%] Performing build step for 'cfitsio_static'
-- cfitsio_shared configure command succeeded.  See also /home/rrolim/codes/Commander/build/logs/cfitsio_shared-configure-*.log
[ 45%] Performing build step for 'cfitsio_shared'
-- hdf5_src download command succeeded.  See also /home/rrolim/codes/Commander/build/logs/hdf5_src-download-*.log
[ 45%] No update step for 'hdf5_src'
[ 46%] No patch step for 'hdf5_src'
[ 46%] No configure step for 'hdf5_src'
[ 47%] No build step for 'hdf5_src'
[ 47%] No install step for 'hdf5_src'
[ 47%] Completed 'hdf5_src'
[ 47%] Built target hdf5_src
[ 47%] Creating directories for 'hdf5'
[ 47%] No download step for 'hdf5'
[ 47%] No update step for 'hdf5'
[ 48%] No patch step for 'hdf5'
[ 48%] Performing configure step for 'hdf5'
-- fftw_float_static build command succeeded.  See also /home/rrolim/codes/Commander/build/logs/fftw_float_static-build-*.log
[ 48%] Performing install step for 'fftw_float_static'
-- fftw_float_static install command succeeded.  See also /home/rrolim/codes/Commander/build/logs/fftw_float_static-install-*.log
[ 49%] Completed 'fftw_float_static'
[ 49%] Built target fftw_float_static
[ 49%] Built target fftw
-- cfitsio_static build command succeeded.  See also /home/rrolim/codes/Commander/build/logs/cfitsio_static-build-*.log
[ 50%] Performing install step for 'cfitsio_static'
-- cfitsio_static install command succeeded.  See also /home/rrolim/codes/Commander/build/logs/cfitsio_static-install-*.log
[ 50%] Completed 'cfitsio_static'
[ 50%] Built target cfitsio_static
-- hdf5 configure command succeeded.  See also /home/rrolim/codes/Commander/build/logs/hdf5-configure-*.log
[ 51%] Performing build step for 'hdf5'
-- cfitsio_shared build command succeeded.  See also /home/rrolim/codes/Commander/build/logs/cfitsio_shared-build-*.log
[ 51%] Performing install step for 'cfitsio_shared'
-- cfitsio_shared install command succeeded.  See also /home/rrolim/codes/Commander/build/logs/cfitsio_shared-install-*.log
[ 51%] Completed 'cfitsio_shared'
[ 51%] Built target cfitsio_shared
[ 51%] Built target cfitsio
[ 52%] Creating directories for 'healpix'
[ 53%] No download step for 'healpix'
[ 53%] No update step for 'healpix'
[ 53%] No patch step for 'healpix'
[ 53%] Performing configure step for 'healpix'
-- healpix configure command succeeded.  See also /home/rrolim/codes/Commander/build/logs/healpix-configure-*.log
[ 53%] Performing build step for 'healpix'
-- healpix build command succeeded.  See also /home/rrolim/codes/Commander/build/logs/healpix-build-*.log
[ 53%] Performing install step for 'healpix'
[ 54%] Completed 'healpix'
[ 54%] Built target healpix
CMake Error at /home/rrolim/codes/Commander/build/subbuilds/src/hdf5-stamp/hdf5-build-RelWithDebInfo.cmake:49 (message):
  Command failed: 2

   '/usr/bin/gmake'

  See also

    /home/rrolim/codes/Commander/build/logs/hdf5-build-*.log


gmake[2]: *** [CMakeFiles/hdf5.dir/build.make:86: subbuilds/src/hdf5-stamp/hdf5-build] Error 1
gmake[1]: *** [CMakeFiles/Makefile2:812: CMakeFiles/hdf5.dir/all] Error 2
gmake: *** [Makefile:136: all] Error 2

I figured it out that I was writing the wrong path to cmake with -DCMAKE_INSTALL_PREFIX=/home/rrolim/codes/Commander/build/, but I corrected it and now I can show you the .log file:

rrolim@vm:~/codes/Commander/build$ more logs/hdf5-build-err.log 
/usr/bin/ld: warning: libsz.so.2, needed by ../bin/libhdf5.so.200.0.0, not found (try using -rpath or -rpath-link)
/usr/bin/ld: ../bin/libhdf5.so.200.0.0: undefined reference to `SZ_encoder_enabled'
/usr/bin/ld: ../bin/libhdf5.so.200.0.0: undefined reference to `SZ_BufftoBuffDecompress'
/usr/bin/ld: ../bin/libhdf5.so.200.0.0: undefined reference to `SZ_BufftoBuffCompress'
icx: error: linker command failed with exit code 1 (use -v to see invocation)
gmake[5]: *** [examples/CMakeFiles/h5_crtdat.dir/build.make:98: bin/h5_crtdat] Error 1
gmake[4]: *** [CMakeFiles/Makefile2:7484: examples/CMakeFiles/h5_crtdat.dir/all] Error 2
gmake[4]: *** Waiting for unfinished jobs....
gmake[3]: *** [Makefile:166: all] Error 2

Thanks,
Raphael.

[dncnwtts]

Just so you know where I'm working from, what I usually do is install using the script install_ita.sh, which is specifically for the Institute of Theoretical Astrophysics system. I'm currently testing on my own laptop using the new Intel fortran setup.

I am able to compile with these lines:

          fc="/opt/intel/oneapi/2025.0/bin/ifx"
          cc="/opt/intel/oneapi/2025.0/bin/icx"
          cxx="/opt/intel/oneapi/2025.0/bin/icpx"
          # MPI compilers
          mpifc="/opt/intel/oneapi/2025.0/bin/mpiifx"
          mpicc="/opt/intel/oneapi/2025.0/bin/mpiicx"
          mpicxx="/opt/intel/oneapi/2025.0/bin/mpiicpx"
          comm3_root_dir="/home/dwatts/Commander"
          build_dir="build"
          abs_path_to_build="$comm3_root_dir/$build_dir"

          cmake \
          -DCMAKE_INSTALL_PREFIX:PATH="$comm3_root_dir/$build_dir/install" \
          -DCMAKE_DOWNLOAD_DIRECTORY:PATH="$comm3_root_dir/downloads" \
          -DCMAKE_BUILD_TYPE="$buildtype" \
          -DCMAKE_Fortran_COMPILER=$fc \
          -DCMAKE_C_COMPILER=$cc \
          -DCMAKE_CXX_COMPILER=$cxx \
          -DMPI_C_COMPILER=$mpicc \
          -DMPI_CXX_COMPILER=$mpicxx \
          -DMPI_Fortran_COMPILER=$mpifc \
          -DCFITSIO_USE_CURL:BOOL=OFF \
          -DUSE_SYSTEM_HEALPIX:BOOL=OFF \
          -DUSE_SYSTEM_FFTW:BOOL=OFF \
          -DUSE_SYSTEM_CFITSIO:BOOL=OFF \
          -DUSE_SYSTEM_HDF5:BOOL=OFF \
          -DUSE_SYSTEM_HEALPIX:BOOL=OFF \
          -DUSE_SYSTEM_BLAS:BOOL=ON \
          -S $comm3_root_dir -B $abs_path_to_build

        cmake --build $comm3_root_dir/$build_dir --target install -j 4

Sometimes it can be the case that the build directory is polluted by previous builds, including the downloads and build* directory.

I am guessing that the main issue is the -DCMAKE_INSTALL_PREFIX:PATH being set to $build_dir instead of $build_dir/install.

[rprolim]

Okay, I tried using the same commands as you:

source /opt/intel/oneapi/setvars.sh

This ensures "ifx", "icx" and "icpx" are enabled in my PATH, then:

mpifc="/opt/intel/oneapi/2025.0/bin/mpiifx"
mpicc="/opt/intel/oneapi/2025.0/bin/mpiicx"
mpicxx="/opt/intel/oneapi/2025.0/bin/mpiicpx"
comm3_root_dir="/home/rrolim/codes/Commander"
build_dir="build"
abs_path_to_build="$comm3_root_dir/$build_dir"

And therefore:

cmake -DCMAKE_INSTALL_PREFIX:PATH="$comm3_root_dir/$build_dir/install" -DCMAKE_DOWNLOAD_DIRECTORY:PATH="$comm3_root_dir/downloads" -DCMAKE_BUILD_TYPE="$buildtype" -DCMAKE_Fortran_COMPILER=ifx -DCMAKE_C_COMPILER=icx -DCMAKE_CXX_COMPILER=icpx -DMPI_C_COMPILER=$mpicc -DMPI_CXX_COMPILER=$mpicxx -DMPI_Fortran_COMPILER=$mpifc -DCFITSIO_USE_CURL:BOOL=OFF -DUSE_SYSTEM_HEALPIX:BOOL=OFF -DUSE_SYSTEM_FFTW:BOOL=OFF -DUSE_SYSTEM_CFITSIO:BOOL=OFF -DUSE_SYSTEM_HDF5:BOOL=OFF -DUSE_SYSTEM_HEALPIX:BOOL=OFF -DUSE_SYSTEM_BLAS:BOOL=ON -S $comm3_root_dir -B $abs_path_to_build

But when I try to do the last cmake command with

 cmake --build $comm3_root_dir/$build_dir --target install -j 4

I receive another error (similar to the old one):

rrolim@vm:~/codes/Commander/build$ more install/logs/hdf5-build-err.log 
/home/rrolim/codes/Commander/downloads/hdf5/fortran/src/H5Fff.F90(1025): warning #5472: When passing logicals to C, spec
ify '-fpscomp logicals' to get the zero/non-zero behavior of FALSE/TRUE.
    hdferr = INT(h5fget_dset_no_attrs_hint_c(file_id, c_minimize))
------------------------------------------------------^
/home/rrolim/codes/Commander/downloads/hdf5/fortran/src/H5Fff.F90(1074): warning #5472: When passing logicals to C, spec
ify '-fpscomp logicals' to get the zero/non-zero behavior of FALSE/TRUE.
    hdferr = INT(h5fset_dset_no_attrs_hint_c(file_id, c_minimize))
------------------------------------------------------^
/home/rrolim/codes/Commander/downloads/hdf5/fortran/src/H5Pff.F90(7430): warning #5472: When passing logicals to C, spec
ify '-fpscomp logicals' to get the zero/non-zero behavior of FALSE/TRUE.
    hdferr = INT(H5Pset_all_coll_metadata_ops(plist_id, c_is_collective))
--------------------------------------------------------^
/home/rrolim/codes/Commander/downloads/hdf5/fortran/src/H5Pff.F90(7472): warning #5472: When passing logicals to C, spec
ify '-fpscomp logicals' to get the zero/non-zero behavior of FALSE/TRUE.
    hdferr = INT(H5Pget_all_coll_metadata_ops(plist_id, c_is_collective))
--------------------------------------------------------^
/home/rrolim/codes/Commander/downloads/hdf5/fortran/src/H5Pff.F90(7519): warning #5472: When passing logicals to C, spec
ify '-fpscomp logicals' to get the zero/non-zero behavior of FALSE/TRUE.
    hdferr = INT(H5Pset_coll_metadata_write(plist_id, c_is_collective))
------------------------------------------------------^
/home/rrolim/codes/Commander/downloads/hdf5/fortran/src/H5Pff.F90(7561): warning #5472: When passing logicals to C, spec
ify '-fpscomp logicals' to get the zero/non-zero behavior of FALSE/TRUE.
    hdferr = INT(H5Pget_coll_metadata_write(plist_id, c_is_collective))
------------------------------------------------------^
/home/rrolim/codes/Commander/downloads/hdf5/fortran/src/H5Pff.F90(8121): warning #5472: When passing logicals to C, spec
ify '-fpscomp logicals' to get the zero/non-zero behavior of FALSE/TRUE.
    hdferr = INT(h5pget_dset_no_attrs_hint_c(dcpl_id, c_minimize))
------------------------------------------------------^
/home/rrolim/codes/Commander/downloads/hdf5/fortran/src/H5Pff.F90(8170): warning #5472: When passing logicals to C, spec
ify '-fpscomp logicals' to get the zero/non-zero behavior of FALSE/TRUE.
    hdferr = INT(h5pset_dset_no_attrs_hint_c(dcpl_id, c_minimize))
------------------------------------------------------^
/usr/bin/ld: warning: libsz.so.2, needed by ../../../bin/libhdf5.so.200.0.0, not found (try using -rpath or -rpath-link)
/usr/bin/ld: ../../../bin/libhdf5.so.200.0.0: undefined reference to `SZ_encoder_enabled'
/usr/bin/ld: ../../../bin/libhdf5.so.200.0.0: undefined reference to `SZ_BufftoBuffDecompress'
/usr/bin/ld: ../../../bin/libhdf5.so.200.0.0: undefined reference to `SZ_BufftoBuffCompress'
icx: error: linker command failed with exit code 1 (use -v to see invocation)
gmake[5]: *** [tools/src/h5format_convert/CMakeFiles/h5format_convert-shared.dir/build.make:99: bin/h5format_convert-sha
red] Error 1
gmake[4]: *** [CMakeFiles/Makefile2:6364: tools/src/h5format_convert/CMakeFiles/h5format_convert-shared.dir/all] Error 2
gmake[4]: *** Waiting for unfinished jobs....
gmake[3]: *** [Makefile:166: all] Error 2

I tried this with both devel and main branches, but both of them result in the same error. Do you think it would be a better idea to use old Intel compilers? Like ifort, icc and icpc?

[dncnwtts]

It would be good to try test this with the older compilers, although we do need to get the newer compilers to work.

It seems like this is crashing in the hdf5 build step. A good way to test this would be to try and build the hdf5 library separate from Commander.

I am going to run this test on my own system compiling the source code listed here:
https://www.hdfgroup.org/download-hdf5/source-code/

[rprolim]

Okay, I tried to compile with the source code of hdf5 with this command:

cmake -DCMAKE_INSTALL_PREFIX:PATH="$comm3_root_dir/$build_dir/install" -DCMAKE_DOWNLOAD_DIRECTORY:PATH="$comm3_root_dir/downloads" -DCMAKE_BUILD_TYPE="$buildtype" -DCMAKE_Fortran_COMPILER=ifx -DCMAKE_C_COMPILER=icx -DCMAKE_CXX_COMPILER=icpx -DMPI_C_COMPILER=$mpicc -DMPI_CXX_COMPILER=$mpicxx -DMPI_Fortran_COMPILER=$mpifc -DCFITSIO_USE_CURL:BOOL=OFF -DUSE_SYSTEM_HEALPIX:BOOL=OFF -DUSE_SYSTEM_FFTW:BOOL=OFF -DUSE_SYSTEM_CFITSIO:BOOL=OFF -DUSE_SYSTEM_HDF5:PATH="/home/rrolim/codes/hdf5-1.14.6" -DUSE_SYSTEM_HEALPIX:BOOL=OFF -DUSE_SYSTEM_BLAS:BOOL=ON -S $comm3_root_dir -B $abs_path_to_build

-- ===============================================================
-- Welcome to automatic Commander3 installer!
-- Issued under: GNU GPLv3 license
-- Official repo: https://github.com/Cosmoglobe/Commander
-- Documentation: https://cosmoglobe.github.io/Commander/#/
-- Forum: https://forums.beyondplanck.science/
-- ===============================================================
-- Scanning your system. Please, wait a moment...
-- The Fortran compiler identification is IntelLLVM 2025.0.4
-- The CXX compiler identification is IntelLLVM 2025.0.4
-- The C compiler identification is IntelLLVM 2025.0.4
-- Detecting Fortran compiler ABI info
-- Detecting Fortran compiler ABI info - done
-- Check for working Fortran compiler: /opt/intel/oneapi/compiler/2025.0/bin/ifx - skipped
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /opt/intel/oneapi/compiler/2025.0/bin/icpx - 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: /opt/intel/oneapi/compiler/2025.0/bin/icx - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Found Python: /usr/bin/python3 (found version "3.12.3") found components: Interpreter 
-- Detecting Fortran/C Interface
-- Detecting Fortran/C Interface - Found GLOBAL and MODULE mangling
-- Verifying Fortran/CXX Compiler Compatibility
-- Verifying Fortran/CXX Compiler Compatibility - Success
-- math (m) libraries are: /usr/lib/x86_64-linux-gnu/libm.so
-- dl libs are: dl
-- Found Git: /usr/bin/git (found version "2.43.0") 
-- ---------------------------------------------------------------
-- Found MPI_C: /opt/intel/oneapi/mpi/2021.14/lib/libmpifort.so (found version "3.1") 
-- Found MPI_CXX: /opt/intel/oneapi/mpi/2021.14/lib/libmpicxx.so (found version "3.1") 
-- Found MPI_Fortran: /opt/intel/oneapi/mpi/2021.14/lib/libmpifort.so (found version "3.1") 
-- Found MPI: TRUE (found version "3.1") found components: Fortran C CXX 
-- MPI Libs Path: /opt/intel/oneapi/mpi/2021.14/lib/libmpifort.so;/opt/intel/oneapi/mpi/2021.14/lib/libmpi.so;/lib/x86_64-linux-gnu/libdl.a;/lib/x86_64-linux-gnu/librt.a;/lib/x86_64-linux-gnu/libpthread.a
-- MPI Include Path: /opt/intel/oneapi/mpi/2021.14/include/mpi;/opt/intel/oneapi/mpi/2021.14/include
-- MPI Compile Options are: 
-- MPI Link options are: -Xlinker --enable-new-dtags -Xlinker -rpath -Xlinker "/opt/intel/oneapi/mpi/2021.14/lib" -Xlinker -rpath -Xlinker "/opt/intel/oneapi/mpi/2021.14/lib"
-- ---------------------------------------------------------------
-- Found OpenMP_C: -fiopenmp (found version "5.1") 
-- Found OpenMP_CXX: -fiopenmp (found version "5.1") 
-- Found OpenMP_Fortran: -fiopenmp (found version "5.2") 
-- Found OpenMP: TRUE (found version "5.1")  
-- OPENMP Fortran LIBRARIES are: /opt/intel/oneapi/compiler/2025.0/lib/libiomp5.so
-- Looking for Fortran sgemm
-- Looking for Fortran sgemm - not found
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success
-- Found Threads: TRUE  
-- Looking for Fortran sgemm
-- Looking for Fortran sgemm - found
-- Found BLAS: /opt/intel/oneapi/mkl/2025.0/lib/libmkl_intel_lp64.so;/opt/intel/oneapi/mkl/2025.0/lib/libmkl_intel_thread.so;/opt/intel/oneapi/mkl/2025.0/lib/libmkl_core.so;/opt/intel/oneapi/compiler/2025.0/lib/libiomp5.so;-lm;-ldl  
-- Looking for Fortran cheev
-- Looking for Fortran cheev - found
-- Found LAPACK: /opt/intel/oneapi/mkl/2025.0/lib/libmkl_intel_lp64.so;/opt/intel/oneapi/mkl/2025.0/lib/libmkl_intel_thread.so;/opt/intel/oneapi/mkl/2025.0/lib/libmkl_core.so;/opt/intel/oneapi/compiler/2025.0/lib/libiomp5.so;-lm;-ldl;-lm;-ldl  
-- ---------------------------------------------------------------
-- Could NOT find HDF5: (Required is at least version "1.10.5") (found HDF5_hdf5_fortran_LIBRARY-NOTFOUND;HDF5_hdf5_LIBRARY-NOTFOUND)
-- ---------------------------------------------------------------
-- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found suitable version "1.3", minimum required is "1.2.11")  
-- ---------------------------------------------------------------
-- No LibAEC, will compile from source.
-- Found an existing LIBAEC sources inside:
/home/rrolim/codes/Commander/downloads/libaec
-- Found an existing CFITSIO sources inside:
/home/rrolim/codes/Commander/downloads/cfitsio
-- Found an existing FFTW sources inside:
/home/rrolim/codes/Commander/downloads/fftw
-- Missing component -- Fortran -- will be compiled from source.
-- Found an existing HDF5 sources inside:
/home/rrolim/codes/Commander/downloads/hdf5
-- Found an existing HEALPIX sources inside:
/home/rrolim/codes/Commander/downloads/healpix
-- ---------------------------------------------------------------
-- ===============================================================
   |                    CONFIGURATION SUMMARY                    |
   ===============================================================
-- |                          HARDWARE                           |
   ---------------------------------------------------------------
-- | Operating System:
   |------------------
   | * Name            -- Linux
   | * Platform        -- x86_64
   | * Release         -- 6.11.0-17-generic
   | * Version         -- #17~24.04.2-Ubuntu SMP PREEMPT_DYNAMIC Mon Jan 20 22:48:29 UTC 2
   |------------------
-- | CPU             :
   |------------------
   | * Name            -- Unknown P6 family
   | * Description     -- 4 core 11th Gen Intel(R) Core(TM) i7-1165G7 @ 2.80GHz
   | * Physical Cores  -- 4
   | * Logical Cores   -- 4
   | * Is 64Bit        -- 1
   | * Has FPU         -- 1
   | * Has SSE         -- 1
   | * Has SSE2        -- 1
   | * Has SSE FP      -- 0
   | * Has SSE MMX     -- 0
   | * Has MMX         -- 1
   | * Has Ext. MMX    -- 0
   |------------------
-- | Memory          :
   |------------------
   | * Virtual [total] -- 4095 [MiB]
   | * Virtual [avail] -- 4095 [MiB]
   | * Phys    [total] -- 7940 [MiB]
   | * Phys    [avail] -- 6836 [MiB]
   ---------------------------------------------------------------
-- |                         COMPILERS                           |
   ---------------------------------------------------------------
-- | Fortran         :
   |------------------
   | * Name            -- /opt/intel/oneapi/compiler/2025.0/bin/ifx
   | * ID              -- IntelLLVM
   | * Version         -- 2025.0.4
   | * MPI Name        -- /opt/intel/oneapi/2025.0/bin/mpiifx
   | * MPI Exec.       -- /opt/intel/oneapi/mpi/2021.14/bin/mpiexec
   |------------------
-- | C++             :
   |------------------
   | * Name            -- /opt/intel/oneapi/compiler/2025.0/bin/icpx
   | * ID              -- IntelLLVM
   | * Version         -- 2025.0.4
   | * MPI Name        -- /opt/intel/oneapi/2025.0/bin/mpiicpx
   | * MPI Exec.       -- /opt/intel/oneapi/mpi/2021.14/bin/mpiexec
   |------------------
-- | C               :
   |------------------
   | * Name            -- /opt/intel/oneapi/compiler/2025.0/bin/icx
   | * ID              -- IntelLLVM
   | * Version         -- 2025.0.4
   | * MPI Name        -- /opt/intel/oneapi/2025.0/bin/mpiicx
   | * MPI Exec.       -- /opt/intel/oneapi/mpi/2021.14/bin/mpiexec
   ---------------------------------------------------------------
-- |                        INSTALLATION                         |
   ---------------------------------------------------------------
   | * CMake Exec.     -- /usr/bin/cmake
   | * CMake Ver.      -- 3.28.3
   | * Prefix          -- /home/rrolim/codes/Commander/build/install
   | * Downloads Dir   -- /home/rrolim/codes/Commander/downloads
   | * Build Type      -- RelWithDebInfo
   | * Compiler Flags  -- -O2;-xHost;-g;-fpe0;-fPIC;-qopenmp;-assume;byterecl;-traceback;-heap-arrays;16384 ;
   ---------------------------------------------------------------
-- |                         LIBRARIES                           |
   ---------------------------------------------------------------
-- | Linux Math      :
   |------------------
   | * Name(s)       :
   |   - /usr/lib/x86_64-linux-gnu/libm.so
   |------------------
-- | BLAS            :
   |------------------
   | * Found           -- TRUE
   | * Name(s)       :
   |   - /opt/intel/oneapi/mkl/2025.0/lib/libmkl_intel_lp64.so
   |   - /opt/intel/oneapi/mkl/2025.0/lib/libmkl_intel_thread.so
   |   - /opt/intel/oneapi/mkl/2025.0/lib/libmkl_core.so
   |   - /opt/intel/oneapi/compiler/2025.0/lib/libiomp5.so
   |   - -lm
   |   - -ldl
   |------------------
-- | LAPACK          :
   |------------------
   | * Found           -- TRUE
   | * Name(s)       :
   |   - /opt/intel/oneapi/mkl/2025.0/lib/libmkl_intel_lp64.so
   |   - /opt/intel/oneapi/mkl/2025.0/lib/libmkl_intel_thread.so
   |   - /opt/intel/oneapi/mkl/2025.0/lib/libmkl_core.so
   |   - /opt/intel/oneapi/compiler/2025.0/lib/libiomp5.so
   |   - -lm
   |   - -ldl
   |   - -lm
   |   - -ldl
   |------------------
-- | ZLIB            :
   |------------------
   | * Found           -- TRUE
   | * Name(s)       :
   |   - /usr/lib/x86_64-linux-gnu/libz.so
   |------------------
-- | HDF5            :
   |------------------
   | * Found           -- FALSE
   | * Name(s)       :
   |   - /home/rrolim/codes/Commander/build/install/lib/libhdf5_hl_fortran.a
   |   - /home/rrolim/codes/Commander/build/install/lib/libhdf5_hl_f90cstub.a
   |   - /home/rrolim/codes/Commander/build/install/lib/libhdf5_fortran.a
   |   - /home/rrolim/codes/Commander/build/install/lib/libhdf5_f90cstub.a
   |   - /home/rrolim/codes/Commander/build/install/lib/libhdf5_hl.a
   |   - /home/rrolim/codes/Commander/build/install/lib/libhdf5.a
   |   - /usr/lib/x86_64-linux-gnu/libz.so
   |   - /home/rrolim/codes/Commander/build/install/lib/libsz.so
   | * Source URL    :
   |   - https://support.hdfgroup.org/ftp/HDF5/releases/hdf5-1.12/hdf5-1.12.0/src/hdf5-1.12.0.tar.gz
   | * Depends       :
   |   - ZLIB
   |   - LIBAEC
   |------------------
-- | FFTW            :
   |------------------
   | * Found           -- 
   | * Name(s)       :
   |   - /home/rrolim/codes/Commander/build/install/lib/libfftw3.a
   |   - /home/rrolim/codes/Commander/build/install/lib/libfftw3_threads.a
   |   - /home/rrolim/codes/Commander/build/install/lib/libfftw3f.a
   |   - /home/rrolim/codes/Commander/build/install/lib/libfftw3f_threads.a
   |   - /home/rrolim/codes/Commander/build/install/lib/libfftw3f_omp.a
   | * Source URL    :
   |   - http://fftw.org/fftw-3.3.9.tar.gz
   |------------------
-- | CFITSIO         :
   |------------------
   | * Found           -- 
   | * Name(s)       :
   |   - /home/rrolim/codes/Commander/build/install/lib/libcfitsio.a
   |   - /usr/lib/x86_64-linux-gnu/libz.so
   | * Source URL    :
   |   - http://heasarc.gsfc.nasa.gov/FTP/software/fitsio/c/cfitsio-4.0.0.tar.gz
   | * Depends       :
   |   - ZLIB
   |------------------
-- | HEALPIX         :
   |------------------
   | * Found           -- 
   | * Name(s)       :
   |   - /home/rrolim/codes/Commander/build/install/healpix/lib/libsharp.a
   |   - /home/rrolim/codes/Commander/build/install/healpix/lib/libhealpix.a
   | * Source URL    :
   |   - https://sourceforge.net/projects/healpix/files/Healpix_3.80/Healpix_3.80_2021Jun22.tar.gz/download
   | * Depends       :
   |   - CFITSIO
-- ===============================================================
-- Configuring done (5.5s)
-- Generating done (0.0s)
-- Build files have been written to: /home/rrolim/codes/Commander/build

And then:

rrolim@vm:~/codes/Commander/build$  cmake --build $comm3_root_dir/$build_dir --target install -j 4
[  0%] Built target openmp
[  0%] Built target mpi
[  0%] Built target tempita
[  0%] Built target zlib
[  0%] Built target mbedtls
[  0%] Built target curl
[  0%] Built target libaec_src
[  0%] Built target libssh2
[  0%] Built target cfitsio_src
[  0%] Built target hdf5_src
[  0%] Built target fftw_src
[  0%] Built target healpix_src
[  0%] Built target required_libraries
[  0%] Building CXX object CMakeFiles/comm_system_backend.dir/commander3/src/comm_system_backend.cpp.o
[  0%] Creating directories for 'fftw_double_shared'
[  0%] Creating directories for 'fftw_double_static'
[  0%] Creating directories for 'fftw_float_shared'
[  0%] No download step for 'fftw_double_shared'
[  0%] No download step for 'fftw_double_static'
[  0%] No download step for 'fftw_float_shared'
[  0%] No update step for 'fftw_double_shared'
[  0%] No update step for 'fftw_double_static'
[  0%] No update step for 'fftw_float_shared'
[  1%] No patch step for 'fftw_double_shared'
[  2%] No patch step for 'fftw_double_static'
[  3%] No patch step for 'fftw_float_shared'
[  4%] Performing configure step for 'fftw_double_shared'
[  5%] Performing configure step for 'fftw_double_static'
[  6%] Performing configure step for 'fftw_float_shared'
/home/rrolim/codes/Commander/commander3/src/comm_system_backend.cpp:71:21: warning: format specifies type 'long long *' but the argument has type 'int64_t *' (aka 'long *') [-Wformat]
   71 |                 fscanf(f, "%lld", &npage);
      |                            ~~~~   ^~~~~~
      |                            %ld
1 warning generated.
[  7%] Linking CXX static library install/lib/libcomm_system_backend.a
[  7%] Built target comm_system_backend
[  7%] Creating directories for 'fftw_float_static'
[  7%] No download step for 'fftw_float_static'
[  7%] No update step for 'fftw_float_static'
[  8%] No patch step for 'fftw_float_static'
[  9%] Performing configure step for 'fftw_float_static'
-- fftw_double_static configure command succeeded.  See also /home/rrolim/codes/Commander/build/install/logs/fftw_double_static-configure-*.log
[  9%] Performing build step for 'fftw_double_static'
-- fftw_double_shared configure command succeeded.  See also /home/rrolim/codes/Commander/build/install/logs/fftw_double_shared-configure-*.log
[  9%] Performing build step for 'fftw_double_shared'
-- fftw_float_shared configure command succeeded.  See also /home/rrolim/codes/Commander/build/install/logs/fftw_float_shared-configure-*.log
[  9%] Performing build step for 'fftw_float_shared'
-- fftw_float_static configure command succeeded.  See also /home/rrolim/codes/Commander/build/install/logs/fftw_float_static-configure-*.log
[  9%] Performing build step for 'fftw_float_static'
-- fftw_double_shared build command succeeded.  See also /home/rrolim/codes/Commander/build/install/logs/fftw_double_shared-build-*.log
-- fftw_float_shared build command succeeded.  See also /home/rrolim/codes/Commander/build/install/logs/fftw_float_shared-build-*.log
[ 10%] Performing install step for 'fftw_double_shared'
[ 11%] Performing install step for 'fftw_float_shared'
-- fftw_double_static build command succeeded.  See also /home/rrolim/codes/Commander/build/install/logs/fftw_double_static-build-*.log
[ 12%] Performing install step for 'fftw_double_static'
CMake Error at /home/rrolim/codes/Commander/build/subbuilds/src/fftw_float_shared-stamp/fftw_float_shared-install-RelWithDebInfo.cmake:49 (message):
  Command failed: 2

   '/usr/bin/gmake' 'install'

  See also

    /home/rrolim/codes/Commander/build/install/logs/fftw_float_shared-install-*.log


gmake[2]: *** [CMakeFiles/fftw_float_shared.dir/build.make:103: subbuilds/src/fftw_float_shared-stamp/fftw_float_shared-install] Error 1
-- fftw_double_shared install command succeeded.  See also /home/rrolim/codes/Commander/build/install/logs/fftw_double_shared-install-*.log
gmake[1]: *** [CMakeFiles/Makefile2:671: CMakeFiles/fftw_float_shared.dir/all] Error 2
gmake[1]: *** Waiting for unfinished jobs....
[ 13%] Completed 'fftw_double_shared'
-- fftw_double_static install command succeeded.  See also /home/rrolim/codes/Commander/build/install/logs/fftw_double_static-install-*.log
[ 14%] Completed 'fftw_double_static'
[ 14%] Built target fftw_double_shared
[ 14%] Built target fftw_double_static
-- fftw_float_static build command succeeded.  See also /home/rrolim/codes/Commander/build/install/logs/fftw_float_static-build-*.log
[ 15%] Performing install step for 'fftw_float_static'
-- fftw_float_static install command succeeded.  See also /home/rrolim/codes/Commander/build/install/logs/fftw_float_static-install-*.log
[ 16%] Completed 'fftw_float_static'
[ 16%] Built target fftw_float_static
gmake: *** [Makefile:136: all] Error 2

rrolim@vm:~/codes/Commander/build$ more install/logs/fftw_float_shared-install-err.log 
CMake Error at cmake_install.cmake:262 (file):
  file INSTALL cannot copy file
  "/home/rrolim/codes/Commander/build/subbuilds/src/fftw_float_shared-build/fftw3.f03"
  to "/home/rrolim/codes/Commander/build/install/include/fftw3.f03": No such
  file or directory.


gmake[3]: *** [Makefile:110: install] Error 1

I don't know if I did it correctly, but now a different error is appearing. I feel that I am doing something wrong here.