developer doc: meson setup build fails with an error about cunit #3432
Description
OK, in my continuing battle to do a simple PR for tskit, I am now at https://tskit.dev/tskit/docs/latest/development.html#building. It says:
To set up the initial build directory, run
$ cd c $ meson setup build
That fails:
bhaller@glass % meson setup build
The Meson build system
Version: 1.10.1
Source dir: /Users/bhaller/Documents/Research/MesserLab/other software/tskit/c
Build dir: /Users/bhaller/Documents/Research/MesserLab/other software/tskit/c/build
Build type: native build
Project name: tskit
Project version: 1.3.1
C compiler for the host machine: cc (clang 16.0.0 "Apple clang version 16.0.0 (clang-1600.0.26.6)")
C linker for the host machine: cc ld64 1115.7.3
C++ compiler for the host machine: c++ (clang 16.0.0 "Apple clang version 16.0.0 (clang-1600.0.26.6)")
C++ linker for the host machine: c++ ld64 1115.7.3
Host machine cpu family: aarch64
Host machine cpu: aarch64
Executing subproject kastore
kastore| Project name: kastore
kastore| Project version: 2.1.2
kastore| C compiler for the host machine: cc (clang 16.0.0 "Apple clang version 16.0.0 (clang-1600.0.26.6)")
kastore| C linker for the host machine: cc ld64 1115.7.3
kastore| C++ compiler for the host machine: c++ (clang 16.0.0 "Apple clang version 16.0.0 (clang-1600.0.26.6)")
kastore| C++ linker for the host machine: c++ ld64 1115.7.3
kastore| Build targets in project: 1
kastore| Subproject kastore finished.
Library m found: YES
Found pkg-config: YES (/opt/local/bin/pkg-config) 0.29.2
Found CMake: /opt/local/bin/cmake (3.31.10)
Run-time dependency cunit found: NO (tried pkgconfig, framework and cmake)
A full log can be found at /Users/bhaller/Documents/Research/MesserLab/other software/tskit/c/build/meson-logs/meson-log.txt
I have no idea what cunit is. :-> I opened the log file in question. It says (sorry, this is a bit long):
Build started at 2026-03-12T10:34:14.880284
Main binary: /opt/local/Library/Frameworks/Python.framework/Versions/3.14/bin/python3.14
Build Options:
Python system: Darwin
The Meson build system
Version: 1.10.1
Source dir: /Users/bhaller/Documents/Research/MesserLab/other software/tskit/c
Build dir: /Users/bhaller/Documents/Research/MesserLab/other software/tskit/c/build
Build type: native build
Project name: tskit
Project version: 1.3.1
-----------
Detecting compiler via: `cc --version` -> 0
stdout:
Apple clang version 16.0.0 (clang-1600.0.26.6)
Target: arm64-apple-darwin23.6.0
Thread model: posix
InstalledDir: /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin
-----------
Running command: -x c -E -dM -
-----
-----------
Detecting linker via: `cc -Wl,--version` -> 1
stderr:
ld: unknown options: --version
clang: error: linker command failed with exit code 1 (use -v to see invocation)
-----------
-----------
Detecting Apple linker via: `cc -Wl,-v` -> 0
stderr:
@(#)PROGRAM:ld PROJECT:ld-1115.7.3
BUILD 23:52:02 Dec 5 2024
configured to support archs: armv6 armv7 armv7s arm64 arm64e arm64_32 i386 x86_64 x86_64h armv6m armv7k armv7m armv7em
will use ld-classic for: armv6 armv7 armv7s i386 armv6m armv7k armv7m armv7em
LTO support using: LLVM version 16.0.0 (static support for 29, runtime is 29)
TAPI support using: Apple TAPI version 16.0.0 (tapi-1600.0.11.9)
-----------
Sanity testing C compiler: cc
Is cross compiler: False.
Sanity check compiler command line: cc sanitycheckc.c -o sanitycheckc.exe
Sanity check compile stdout:
-----
Sanity check compile stderr:
-----
Running test binary command: '/Users/bhaller/Documents/Research/MesserLab/other software/tskit/c/build/meson-private/sanitycheckc.exe'
-----------
Sanity check: `'/Users/bhaller/Documents/Research/MesserLab/other software/tskit/c/build/meson-private/sanitycheckc.exe'` -> 0
C compiler for the host machine: cc (clang 16.0.0 "Apple clang version 16.0.0 (clang-1600.0.26.6)")
C linker for the host machine: cc ld64 1115.7.3
-----------
Detecting archiver via: `llvm-ar-16 --version` -> [Errno 2] No such file or directory: 'llvm-ar-16'
-----------
Detecting archiver via: `llvm-ar --version` -> [Errno 2] No such file or directory: 'llvm-ar'
-----------
Detecting archiver via: `ar --version` -> 1
stderr:
usage: ar -d [-TLsv] archive file ...
ar -m [-TLsv] archive file ...
ar -m [-abiTLsv] position archive file ...
ar -p [-TLsv] archive [file ...]
ar -q [-cTLsv] archive file ...
ar -r [-cuTLsv] archive file ...
ar -r [-abciuTLsv] position archive file ...
ar -t [-TLsv] archive [file ...]
ar -x [-ouTLsv] archive [file ...]
-----------
-----------
Detecting compiler via: `c++ --version` -> 0
stdout:
Apple clang version 16.0.0 (clang-1600.0.26.6)
Target: arm64-apple-darwin23.6.0
Thread model: posix
InstalledDir: /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin
-----------
Running command: -x c++ -E -dM -
-----
-----------
Detecting linker via: `c++ -Wl,--version` -> 1
stderr:
ld: unknown options: --version
clang++: error: linker command failed with exit code 1 (use -v to see invocation)
-----------
-----------
Detecting Apple linker via: `c++ -Wl,-v` -> 0
stderr:
@(#)PROGRAM:ld PROJECT:ld-1115.7.3
BUILD 23:52:02 Dec 5 2024
configured to support archs: armv6 armv7 armv7s arm64 arm64e arm64_32 i386 x86_64 x86_64h armv6m armv7k armv7m armv7em
will use ld-classic for: armv6 armv7 armv7s i386 armv6m armv7k armv7m armv7em
LTO support using: LLVM version 16.0.0 (static support for 29, runtime is 29)
TAPI support using: Apple TAPI version 16.0.0 (tapi-1600.0.11.9)
-----------
Sanity testing C++ compiler: c++
Is cross compiler: False.
Sanity check compiler command line: c++ sanitycheckcpp.cc -o sanitycheckcpp.exe
Sanity check compile stdout:
-----
Sanity check compile stderr:
-----
Running test binary command: '/Users/bhaller/Documents/Research/MesserLab/other software/tskit/c/build/meson-private/sanitycheckcpp.exe'
-----------
Sanity check: `'/Users/bhaller/Documents/Research/MesserLab/other software/tskit/c/build/meson-private/sanitycheckcpp.exe'` -> 0
C++ compiler for the host machine: c++ (clang 16.0.0 "Apple clang version 16.0.0 (clang-1600.0.26.6)")
C++ linker for the host machine: c++ ld64 1115.7.3
-----------
Detecting compiler via: `cc --version` -> 0
stdout:
Apple clang version 16.0.0 (clang-1600.0.26.6)
Target: arm64-apple-darwin23.6.0
Thread model: posix
InstalledDir: /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin
-----------
Running command: -x c -E -dM -
-----
-----------
Detecting linker via: `cc -Wl,--version` -> 1
stderr:
ld: unknown options: --version
clang: error: linker command failed with exit code 1 (use -v to see invocation)
-----------
-----------
Detecting Apple linker via: `cc -Wl,-v` -> 0
stderr:
@(#)PROGRAM:ld PROJECT:ld-1115.7.3
BUILD 23:52:02 Dec 5 2024
configured to support archs: armv6 armv7 armv7s arm64 arm64e arm64_32 i386 x86_64 x86_64h armv6m armv7k armv7m armv7em
will use ld-classic for: armv6 armv7 armv7s i386 armv6m armv7k armv7m armv7em
LTO support using: LLVM version 16.0.0 (static support for 29, runtime is 29)
TAPI support using: Apple TAPI version 16.0.0 (tapi-1600.0.11.9)
-----------
Sanity testing C compiler: cc
Is cross compiler: False.
Sanity check compiler command line: cc sanitycheckc.c -o sanitycheckc.exe
Sanity check compile stdout:
-----
Sanity check compile stderr:
-----
Running test binary command: '/Users/bhaller/Documents/Research/MesserLab/other software/tskit/c/build/meson-private/sanitycheckc.exe'
-----------
Sanity check: `'/Users/bhaller/Documents/Research/MesserLab/other software/tskit/c/build/meson-private/sanitycheckc.exe'` -> 0
C compiler for the build machine: cc (clang 16.0.0 "Apple clang version 16.0.0 (clang-1600.0.26.6)")
C linker for the build machine: cc ld64 1115.7.3
-----------
Detecting archiver via: `llvm-ar-16 --version` -> [Errno 2] No such file or directory: 'llvm-ar-16'
-----------
Detecting archiver via: `llvm-ar --version` -> [Errno 2] No such file or directory: 'llvm-ar'
-----------
Detecting archiver via: `ar --version` -> 1
stderr:
usage: ar -d [-TLsv] archive file ...
ar -m [-TLsv] archive file ...
ar -m [-abiTLsv] position archive file ...
ar -p [-TLsv] archive [file ...]
ar -q [-cTLsv] archive file ...
ar -r [-cuTLsv] archive file ...
ar -r [-abciuTLsv] position archive file ...
ar -t [-TLsv] archive [file ...]
ar -x [-ouTLsv] archive [file ...]
-----------
-----------
Detecting compiler via: `c++ --version` -> 0
stdout:
Apple clang version 16.0.0 (clang-1600.0.26.6)
Target: arm64-apple-darwin23.6.0
Thread model: posix
InstalledDir: /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin
-----------
Running command: -x c++ -E -dM -
-----
-----------
Detecting linker via: `c++ -Wl,--version` -> 1
stderr:
ld: unknown options: --version
clang++: error: linker command failed with exit code 1 (use -v to see invocation)
-----------
-----------
Detecting Apple linker via: `c++ -Wl,-v` -> 0
stderr:
@(#)PROGRAM:ld PROJECT:ld-1115.7.3
BUILD 23:52:02 Dec 5 2024
configured to support archs: armv6 armv7 armv7s arm64 arm64e arm64_32 i386 x86_64 x86_64h armv6m armv7k armv7m armv7em
will use ld-classic for: armv6 armv7 armv7s i386 armv6m armv7k armv7m armv7em
LTO support using: LLVM version 16.0.0 (static support for 29, runtime is 29)
TAPI support using: Apple TAPI version 16.0.0 (tapi-1600.0.11.9)
-----------
Sanity testing C++ compiler: c++
Is cross compiler: False.
Sanity check compiler command line: c++ sanitycheckcpp.cc -o sanitycheckcpp.exe
Sanity check compile stdout:
-----
Sanity check compile stderr:
-----
Running test binary command: '/Users/bhaller/Documents/Research/MesserLab/other software/tskit/c/build/meson-private/sanitycheckcpp.exe'
-----------
Sanity check: `'/Users/bhaller/Documents/Research/MesserLab/other software/tskit/c/build/meson-private/sanitycheckcpp.exe'` -> 0
C++ compiler for the build machine: c++ (clang 16.0.0 "Apple clang version 16.0.0 (clang-1600.0.26.6)")
C++ linker for the build machine: c++ ld64 1115.7.3
Build machine cpu family: aarch64
Build machine cpu: aarch64
Host machine cpu family: aarch64
Host machine cpu: aarch64
Target machine cpu family: aarch64
Target machine cpu: aarch64
Executing subproject kastore
Project name: kastore
Project version: 2.1.2
C compiler for the host machine: cc (clang 16.0.0 "Apple clang version 16.0.0 (clang-1600.0.26.6)")
C linker for the host machine: cc ld64 1115.7.3
C++ compiler for the host machine: c++ (clang 16.0.0 "Apple clang version 16.0.0 (clang-1600.0.26.6)")
C++ linker for the host machine: c++ ld64 1115.7.3
C compiler for the build machine: cc (clang 16.0.0 "Apple clang version 16.0.0 (clang-1600.0.26.6)")
C linker for the build machine: cc ld64 1115.7.3
C++ compiler for the build machine: c++ (clang 16.0.0 "Apple clang version 16.0.0 (clang-1600.0.26.6)")
C++ linker for the build machine: c++ ld64 1115.7.3
Build targets in project: 1
Subproject kastore finished.
Running compile:
Working directory: /Users/bhaller/Documents/Research/MesserLab/other software/tskit/c/build/meson-private/tmp228zwnbm
Code:
int main(void) { return 0; }
-----------
Command line: `cc '/Users/bhaller/Documents/Research/MesserLab/other software/tskit/c/build/meson-private/tmp228zwnbm/testfile.c' -o '/Users/bhaller/Documents/Research/MesserLab/other software/tskit/c/build/meson-private/tmp228zwnbm/output.exe' -O0 -Werror=implicit-function-declaration -lm -Wl,-undefined,dynamic_lookup` -> 0
Library m found: YES
Pkg-config binary missing from cross or native file, or env var undefined.
Trying a default Pkg-config fallback at pkg-config
Found pkg-config: YES (/opt/local/bin/pkg-config) 0.29.2
Determining dependency 'cunit' with pkg-config executable '/opt/local/bin/pkg-config'
env[PKG_CONFIG_PATH]:
env[PKG_CONFIG]: /opt/local/bin/pkg-config
-----------
Called: `/opt/local/bin/pkg-config --modversion cunit` -> 1
stderr:
Package cunit was not found in the pkg-config search path.
Perhaps you should add the directory containing `cunit.pc'
to the PKG_CONFIG_PATH environment variable
No package 'cunit' found
-----------
Finding framework path by running: c++ -v -E -
Looking for framework cunit in /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/System/Library/Frameworks
CMake binary for host machine is not cached
CMake binary missing from cross or native file, or env var undefined.
Trying a default CMake fallback at cmake
Found CMake: /opt/local/bin/cmake (3.31.10)
Extracting basic cmake information
CMake Toolchain: Calling CMake once to generate the compiler state
Calling CMake (['/opt/local/bin/cmake']) in /Users/bhaller/Documents/Research/MesserLab/other software/tskit/c/build/meson-private/__CMake_compiler_info__ with:
- "--trace-expand"
- "--trace-format=json-v1"
- "--no-warn-unused-cli"
- "--trace-redirect=cmake_trace.txt"
- "-G"
- "Ninja"
- "-DCMAKE_TOOLCHAIN_FILE=/Users/bhaller/Documents/Research/MesserLab/other software/tskit/c/build/meson-private/__CMake_compiler_info__/CMakeMesonTempToolchainFile.cmake"
- "."
CMake trace warning: add_executable() non imported executables are not supported
CMake TRACE: /Users/bhaller/Documents/Research/MesserLab/other software/tskit/c/build/meson-private/__CMake_compiler_info__/CMakeFiles/CMakeScratch/TryCompile-2YKHVg/CMakeLists.txt:22 add_executable(['cmTC_b4dc8'])
CMake trace warning: target_link_libraries() TARGET cmTC_b4dc8 not found
CMake TRACE: /Users/bhaller/Documents/Research/MesserLab/other software/tskit/c/build/meson-private/__CMake_compiler_info__/CMakeFiles/CMakeScratch/TryCompile-2YKHVg/CMakeLists.txt:28 target_link_libraries(['cmTC_b4dc8', ''])
CMake trace warning: add_executable() non imported executables are not supported
CMake TRACE: /Users/bhaller/Documents/Research/MesserLab/other software/tskit/c/build/meson-private/__CMake_compiler_info__/CMakeFiles/CMakeScratch/TryCompile-UC4aIP/CMakeLists.txt:22 add_executable(['cmTC_ff977'])
CMake trace warning: target_link_libraries() TARGET cmTC_ff977 not found
CMake TRACE: /Users/bhaller/Documents/Research/MesserLab/other software/tskit/c/build/meson-private/__CMake_compiler_info__/CMakeFiles/CMakeScratch/TryCompile-UC4aIP/CMakeLists.txt:28 target_link_libraries(['cmTC_ff977', ''])
Try CMake generator: auto
Calling CMake (['/opt/local/bin/cmake']) in /Users/bhaller/Documents/Research/MesserLab/other software/tskit/c/build/meson-private/cmake_cunit with:
- "--trace-expand"
- "--trace-format=json-v1"
- "--no-warn-unused-cli"
- "--trace-redirect=cmake_trace.txt"
- "-DCMAKE_TOOLCHAIN_FILE=/Users/bhaller/Documents/Research/MesserLab/other software/tskit/c/build/meson-private/cmake_cunit/CMakeMesonToolchainFile.cmake"
- "."
-- Module search paths: ['/', '/Applications', '/Applications/Xcode.app/Contents/Applications', '/Applications/Xcode.app/Contents/Developer/Applications', '/Applications/Xcode.app/Contents/Developer/Library/Frameworks', '/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/Library/Frameworks', '/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.2.sdk/System/Library/Frameworks', '/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX15.2.sdk/usr', '/Library/Frameworks', '/System/Library/Frameworks', '/Users/bhaller/Applications', '/opt', '/opt/local', '/usr', '/usr/local']
-- CMake root: /opt/local/share/cmake-3.31
-- CMake architectures: []
-- CMake lib search paths: ['lib', 'lib32', 'lib64', 'libx32', 'share', '']
Preliminary CMake check failed. Aborting.
Run-time dependency cunit found: NO (tried pkgconfig, framework and cmake)
meson.build:47:16: ERROR: Dependency "cunit" not found, tried pkgconfig, framework and cmake
Surmising that maybe this is a package I need to install, I tried sudo port install cunit, that worked, and then meson setup build worked, so hopefully that fixes things. I guess the issue here is: if there are external dependencies that the user needs to have installed, it would be helpful for the doc to warn about that. I wasn't sure whether the issue was that, or some other sort of internal cmake problem.