fatal error: 'mysql.h' file not found #685

Almenon · 2024-01-29T21:51:57Z

Almenon
Jan 29, 2024

What OS and which version do you use?

macOS 14

How did you installed mysql client library?

brew install mysql-client

Output from `pkg-config --cflags --libs mysqlclient`

`-I/opt/homebrew/Cellar/mysql-client/8.3.0/include/mysql -L/opt/homebrew/Cellar/mysql-client/8.3.0/lib -lmysqlclient`

How did you tried to install mysqlclient?

pip install mysqlclient

Output of building mysqlclient

Collecting mysqlclient
  Using cached mysqlclient-2.2.1.tar.gz (89 kB)
  Installing build dependencies ... done
  Getting requirements to build wheel ... done
  Installing backend dependencies ... done
  Preparing metadata (pyproject.toml) ... done
Building wheels for collected packages: mysqlclient
  Building wheel for mysqlclient (pyproject.toml) ... error
  error: subprocess-exited-with-error
  
  × Building wheel for mysqlclient (pyproject.toml) did not run successfully.
  │ exit code: 1
  ╰─> [44 lines of output]
      # Options for building extension module:
        extra_compile_args: ['-I/opt/homebrew/Cellar/mysql/8.3.0/include/mysql', '-std=c99']
        extra_link_args: ['-L/opt/homebrew/Cellar/mysql/8.3.0/lib', '-lmysqlclient']
        define_macros: [('version_info', (2, 2, 1, 'final', 0)), ('__version__', '2.2.1')]
      running bdist_wheel
      running build
      running build_py
      creating build
      creating build/lib.macosx-14.2-arm64-cpython-311
      creating build/lib.macosx-14.2-arm64-cpython-311/MySQLdb
      copying src/MySQLdb/release.py -> build/lib.macosx-14.2-arm64-cpython-311/MySQLdb
      copying src/MySQLdb/cursors.py -> build/lib.macosx-14.2-arm64-cpython-311/MySQLdb
      copying src/MySQLdb/connections.py -> build/lib.macosx-14.2-arm64-cpython-311/MySQLdb
      copying src/MySQLdb/__init__.py -> build/lib.macosx-14.2-arm64-cpython-311/MySQLdb
      copying src/MySQLdb/times.py -> build/lib.macosx-14.2-arm64-cpython-311/MySQLdb
      copying src/MySQLdb/converters.py -> build/lib.macosx-14.2-arm64-cpython-311/MySQLdb
      copying src/MySQLdb/_exceptions.py -> build/lib.macosx-14.2-arm64-cpython-311/MySQLdb
      creating build/lib.macosx-14.2-arm64-cpython-311/MySQLdb/constants
      copying src/MySQLdb/constants/FLAG.py -> build/lib.macosx-14.2-arm64-cpython-311/MySQLdb/constants
      copying src/MySQLdb/constants/CLIENT.py -> build/lib.macosx-14.2-arm64-cpython-311/MySQLdb/constants
      copying src/MySQLdb/constants/__init__.py -> build/lib.macosx-14.2-arm64-cpython-311/MySQLdb/constants
      copying src/MySQLdb/constants/ER.py -> build/lib.macosx-14.2-arm64-cpython-311/MySQLdb/constants
      copying src/MySQLdb/constants/CR.py -> build/lib.macosx-14.2-arm64-cpython-311/MySQLdb/constants
      copying src/MySQLdb/constants/FIELD_TYPE.py -> build/lib.macosx-14.2-arm64-cpython-311/MySQLdb/constants
      running egg_info
      writing src/mysqlclient.egg-info/PKG-INFO
      writing dependency_links to src/mysqlclient.egg-info/dependency_links.txt
      writing top-level names to src/mysqlclient.egg-info/top_level.txt
      reading manifest file 'src/mysqlclient.egg-info/SOURCES.txt'
      reading manifest template 'MANIFEST.in'
      adding license file 'LICENSE'
      writing manifest file 'src/mysqlclient.egg-info/SOURCES.txt'
      copying src/MySQLdb/_mysql.c -> build/lib.macosx-14.2-arm64-cpython-311/MySQLdb
      running build_ext
      building 'MySQLdb._mysql' extension
      creating build/temp.macosx-14.2-arm64-cpython-311
      creating build/temp.macosx-14.2-arm64-cpython-311/src
      creating build/temp.macosx-14.2-arm64-cpython-311/src/MySQLdb
      clang -Wsign-compare -Wunreachable-code -DNDEBUG -g -fwrapv -O3 -Wall -I/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include -I/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include -I/opt/homebrew/opt/openssl/include -I/opt/homebrew/include "-Dversion_info=(2, 2, 1, 'final', 0)" -D__version__=2.2.1 -I/Users/almenon/.pyenv/versions/3.11.5/include/python3.11 -c src/MySQLdb/_mysql.c -o build/temp.macosx-14.2-arm64-cpython-311/src/MySQLdb/_mysql.o -I/opt/homebrew/Cellar/mysql/8.3.0/include/mysql -std=c99
      src/MySQLdb/_mysql.c:29:10: fatal error: 'mysql.h' file not found
      #include "mysql.h"
               ^~~~~~~~~
      1 error generated.
      error: command '/usr/bin/clang' failed with exit code 1
      [end of output]
  
  note: This error originates from a subprocess, and is likely not a problem with pip.
  ERROR: Failed building wheel for mysqlclient
Failed to build mysqlclient
ERROR: Could not build wheels for mysqlclient, which is required to install pyproject.toml-based projects

Answered by methane

Jan 30, 2024

See #688.
You are using innovation (beta) version of MySQL. Use MySQL 8.0 instead.

View full answer

Almenon · 2024-01-29T21:52:34Z

Almenon
Jan 29, 2024
Author

An alternative would be installing mysql via brew, but I get an error that way too. Note that I am using a mac with ARM architecture

0 replies

Almenon · 2024-01-29T22:24:04Z

Almenon
Jan 29, 2024
Author

Looks like this was due to a cursed combination of environment variables in my previous terminal. I opened up a fresh terminal and now I'm getting a new error:

$ pip install mysqlclient
"Exception: Can not find valid pkg-config name"
$ export PKG_CONFIG_PATH="$(brew --prefix)/opt/mysql-client/lib/pkgconfig"
$ pip install mysqlclient

Collecting mysqlclient
  Using cached mysqlclient-2.2.1.tar.gz (89 kB)
  Installing build dependencies ... done
  Getting requirements to build wheel ... done
  Installing backend dependencies ... done
  Preparing metadata (pyproject.toml) ... done
Building wheels for collected packages: mysqlclient
  Building wheel for mysqlclient (pyproject.toml) ... error
  error: subprocess-exited-with-error
  
  × Building wheel for mysqlclient (pyproject.toml) did not run successfully.
  │ exit code: 1
  ╰─> [59 lines of output]
      Trying pkg-config --exists mysqlclient
      # Options for building extension module:
        extra_compile_args: ['-I/opt/homebrew/Cellar/mysql-client/8.3.0/include/mysql', '-std=c99']
        extra_link_args: ['-L/opt/homebrew/Cellar/mysql-client/8.3.0/lib', '-lmysqlclient']
        define_macros: [('version_info', (2, 2, 1, 'final', 0)), ('__version__', '2.2.1')]
      running bdist_wheel
      running build
      running build_py
      creating build
      creating build/lib.macosx-14.2-arm64-cpython-311
      creating build/lib.macosx-14.2-arm64-cpython-311/MySQLdb
      copying src/MySQLdb/release.py -> build/lib.macosx-14.2-arm64-cpython-311/MySQLdb
      copying src/MySQLdb/cursors.py -> build/lib.macosx-14.2-arm64-cpython-311/MySQLdb
      copying src/MySQLdb/connections.py -> build/lib.macosx-14.2-arm64-cpython-311/MySQLdb
      copying src/MySQLdb/__init__.py -> build/lib.macosx-14.2-arm64-cpython-311/MySQLdb
      copying src/MySQLdb/times.py -> build/lib.macosx-14.2-arm64-cpython-311/MySQLdb
      copying src/MySQLdb/converters.py -> build/lib.macosx-14.2-arm64-cpython-311/MySQLdb
      copying src/MySQLdb/_exceptions.py -> build/lib.macosx-14.2-arm64-cpython-311/MySQLdb
      creating build/lib.macosx-14.2-arm64-cpython-311/MySQLdb/constants
      copying src/MySQLdb/constants/FLAG.py -> build/lib.macosx-14.2-arm64-cpython-311/MySQLdb/constants
      copying src/MySQLdb/constants/CLIENT.py -> build/lib.macosx-14.2-arm64-cpython-311/MySQLdb/constants
      copying src/MySQLdb/constants/__init__.py -> build/lib.macosx-14.2-arm64-cpython-311/MySQLdb/constants
      copying src/MySQLdb/constants/ER.py -> build/lib.macosx-14.2-arm64-cpython-311/MySQLdb/constants
      copying src/MySQLdb/constants/CR.py -> build/lib.macosx-14.2-arm64-cpython-311/MySQLdb/constants
      copying src/MySQLdb/constants/FIELD_TYPE.py -> build/lib.macosx-14.2-arm64-cpython-311/MySQLdb/constants
      running egg_info
      writing src/mysqlclient.egg-info/PKG-INFO
      writing dependency_links to src/mysqlclient.egg-info/dependency_links.txt
      writing top-level names to src/mysqlclient.egg-info/top_level.txt
      reading manifest file 'src/mysqlclient.egg-info/SOURCES.txt'
      reading manifest template 'MANIFEST.in'
      adding license file 'LICENSE'
      writing manifest file 'src/mysqlclient.egg-info/SOURCES.txt'
      copying src/MySQLdb/_mysql.c -> build/lib.macosx-14.2-arm64-cpython-311/MySQLdb
      running build_ext
      building 'MySQLdb._mysql' extension
      creating build/temp.macosx-14.2-arm64-cpython-311
      creating build/temp.macosx-14.2-arm64-cpython-311/src
      creating build/temp.macosx-14.2-arm64-cpython-311/src/MySQLdb
      clang -Wsign-compare -Wunreachable-code -DNDEBUG -g -fwrapv -O3 -Wall -I/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include -I/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include "-Dversion_info=(2, 2, 1, 'final', 0)" -D__version__=2.2.1 -I/Users/almenon/.pyenv/versions/3.11.5/include/python3.11 -c src/MySQLdb/_mysql.c -o build/temp.macosx-14.2-arm64-cpython-311/src/MySQLdb/_mysql.o -I/opt/homebrew/Cellar/mysql-client/8.3.0/include/mysql -std=c99
      src/MySQLdb/_mysql.c:527:9: error: call to undeclared function 'mysql_ssl_set'; ISO C99 and later do not support implicit function declarations [-Wimplicit-function-declaration]
              mysql_ssl_set(&(self->connection), key, cert, ca, capath, cipher);
              ^
      src/MySQLdb/_mysql.c:527:9: note: did you mean 'mysql_close'?
      /opt/homebrew/Cellar/mysql-client/8.3.0/include/mysql/mysql.h:797:14: note: 'mysql_close' declared here
      void STDCALL mysql_close(MYSQL *sock);
                   ^
      src/MySQLdb/_mysql.c:1795:9: error: call to undeclared function 'mysql_kill'; ISO C99 and later do not support implicit function declarations [-Wimplicit-function-declaration]
          r = mysql_kill(&(self->connection), pid);
              ^
      src/MySQLdb/_mysql.c:1795:9: note: did you mean 'mysql_ping'?
      /opt/homebrew/Cellar/mysql-client/8.3.0/include/mysql/mysql.h:525:13: note: 'mysql_ping' declared here
      int STDCALL mysql_ping(MYSQL *mysql);
                  ^
      src/MySQLdb/_mysql.c:2011:9: error: call to undeclared function 'mysql_shutdown'; ISO C99 and later do not support implicit function declarations [-Wimplicit-function-declaration]
          r = mysql_shutdown(&(self->connection), SHUTDOWN_DEFAULT);
              ^
      3 errors generated.
      error: command '/usr/bin/clang' failed with exit code 1
      [end of output]
  
  note: This error originates from a subprocess, and is likely not a problem with pip.
  ERROR: Failed building wheel for mysqlclient
Failed to build mysqlclient
ERROR: Could not build wheels for mysqlclient, which is required to install pyproject.toml-based projects

2 replies

methane Jan 30, 2024
Maintainer

See #688.
You are using innovation (beta) version of MySQL. Use MySQL 8.0 instead.

Answer selected by Almenon

Almenon Jan 30, 2024
Author

Thanks for the info. I ended up removing the mysql dependency but I'll follow the linked issue so I know when the homebrew version works again. I might add it back in the future.

Almenon · 2024-01-29T22:46:54Z

Almenon
Jan 29, 2024
Author

More info:

I just ran brew update and brew upgrade recently
pkg-config v0.29.2
same issue with brew installing mysql instead of mysqlclient
installed python 3.11 via pyenv. Installed pyenv via brew.

$ brew info openssl
==> openssl@3: stable 3.2.0 (bottled)
Cryptography and SSL/TLS Toolkit
https://openssl.org/
/opt/homebrew/Cellar/openssl@3/3.2.0_1 (6,805 files, 31.9MB) *
  Poured from bottle using the formulae.brew.sh API on 2023-12-08 at 16:32:31
From: https://github.com/Homebrew/homebrew-core/blob/HEAD/Formula/o/[email protected]
License: Apache-2.0
==> Dependencies
Required: ca-certificates ✔

$ clang --version
Apple clang version 15.0.0 (clang-1500.1.0.2.5)
Target: arm64-apple-darwin23.2.0
Thread model: posix
InstalledDir: /Library/Developer/CommandLineTools/usr/bin

https://www.redhat.com/en/blog/new-warnings-and-errors-clang-16
Kind of weird that there is an error because according to the above link I shouldn't see an error till I am on clang 16.

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Select a reply

fatal error: 'mysql.h' file not found #685

Almenon Jan 29, 2024

What OS and which version do you use?

How did you installed mysql client library?

Output from pkg-config --cflags --libs mysqlclient

How did you tried to install mysqlclient?

Output of building mysqlclient

Replies: 3 comments · 2 replies

Almenon Jan 29, 2024 Author

Almenon Jan 29, 2024 Author

methane Jan 30, 2024 Maintainer

Almenon Jan 30, 2024 Author

Almenon Jan 29, 2024 Author

Almenon
Jan 29, 2024

Output from `pkg-config --cflags --libs mysqlclient`

Replies: 3 comments 2 replies

Almenon
Jan 29, 2024
Author

Almenon
Jan 29, 2024
Author

methane Jan 30, 2024
Maintainer

Almenon Jan 30, 2024
Author

Almenon
Jan 29, 2024
Author