Installing MySQL-python causes command 'clang' failed with exit status 1 on Mac OS 10.13.15

Question

I have installed tools via xcode-select --install but still show the following error while doing pip install MySQL-python

Building wheels for collected packages: MySQL-python
  Running setup.py bdist_wheel for MySQL-python ... error
  Complete output from command /Users/vaibhavmule/Envs/switchidea/bin/python2.7 -u -c "import setuptools, tokenize;__file__='/private/var/folders/p6/0v0bflxn3t399_qdpnm2z7hc0000gn/T/pip-install-SD9Cgh/MySQL-python/setup.py';f=getattr(tokenize, 'open', open)(__file__);code=f.read().replace('\r\n', '\n');f.close();exec(compile(code, __file__, 'exec'))" bdist_wheel -d /private/var/folders/p6/0v0bflxn3t399_qdpnm2z7hc0000gn/T/pip-wheel-g6C50k --python-tag cp27:
  running bdist_wheel
  running build
  running build_py
  creating build
  creating build/lib.macosx-10.13-x86_64-2.7
  copying _mysql_exceptions.py -> build/lib.macosx-10.13-x86_64-2.7
  creating build/lib.macosx-10.13-x86_64-2.7/MySQLdb
  copying MySQLdb/__init__.py -> build/lib.macosx-10.13-x86_64-2.7/MySQLdb
  copying MySQLdb/converters.py -> build/lib.macosx-10.13-x86_64-2.7/MySQLdb
  copying MySQLdb/connections.py -> build/lib.macosx-10.13-x86_64-2.7/MySQLdb
  copying MySQLdb/cursors.py -> build/lib.macosx-10.13-x86_64-2.7/MySQLdb
  copying MySQLdb/release.py -> build/lib.macosx-10.13-x86_64-2.7/MySQLdb
  copying MySQLdb/times.py -> build/lib.macosx-10.13-x86_64-2.7/MySQLdb
  creating build/lib.macosx-10.13-x86_64-2.7/MySQLdb/constants
  copying MySQLdb/constants/__init__.py -> build/lib.macosx-10.13-x86_64-2.7/MySQLdb/constants
  copying MySQLdb/constants/CR.py -> build/lib.macosx-10.13-x86_64-2.7/MySQLdb/constants
  copying MySQLdb/constants/FIELD_TYPE.py -> build/lib.macosx-10.13-x86_64-2.7/MySQLdb/constants
  copying MySQLdb/constants/ER.py -> build/lib.macosx-10.13-x86_64-2.7/MySQLdb/constants
  copying MySQLdb/constants/FLAG.py -> build/lib.macosx-10.13-x86_64-2.7/MySQLdb/constants
  copying MySQLdb/constants/REFRESH.py -> build/lib.macosx-10.13-x86_64-2.7/MySQLdb/constants
  copying MySQLdb/constants/CLIENT.py -> build/lib.macosx-10.13-x86_64-2.7/MySQLdb/constants
  running build_ext
  building '_mysql' extension
  creating build/temp.macosx-10.13-x86_64-2.7
  clang -fno-strict-aliasing -fno-common -dynamic -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Dversion_info=(1,2,3,'final',0) -D__version__=1.2.3 -I/usr/local/Cellar/mysql/8.0.11/include/mysql -I/usr/local/Cellar/python@2/2.7.15_1/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c _mysql.c -o build/temp.macosx-10.13-x86_64-2.7/_mysql.o
  _mysql.c:36:10: fatal error: 'my_config.h' file not found
  #include "my_config.h"
           ^~~~~~~~~~~~~
  1 error generated.
  error: command 'clang' failed with exit status 1

  ----------------------------------------
  Failed building wheel for MySQL-python
  Running setup.py clean for MySQL-python
Failed to build MySQL-python
django-model-utils 3.0.0 has requirement Django>=1.8, but you'll have django 1.6.7 which is incompatible.
faker 0.8.16 has requirement six>=1.10, but you'll have six 1.6.1 which is incompatible.
django-phonenumber-field 2.0.0 has requirement Django>=1.11, but you'll have django 1.6.7 which is incompatible.
Installing collected packages: MySQL-python, opbeat, olefile, Pillow, pyzmq, contextlib2, raven, simplejson, South, sqlparse, wheel, django-sendfile, httplib2, pytz, twilio, phonenumberslite, babel, django-phonenumber-field, django-twilio, text-unidecode, python-dateutil, Faker, factory-boy, waitress, beautifulsoup4, WebOb, webtest, django-webtest, coverage
  Running setup.py install for MySQL-python ... error
    Complete output from command /Users/vaibhavmule/Envs/switchidea/bin/python2.7 -u -c "import setuptools, tokenize;__file__='/private/var/folders/p6/0v0bflxn3t399_qdpnm2z7hc0000gn/T/pip-install-SD9Cgh/MySQL-python/setup.py';f=getattr(tokenize, 'open', open)(__file__);code=f.read().replace('\r\n', '\n');f.close();exec(compile(code, __file__, 'exec'))" install --record /private/var/folders/p6/0v0bflxn3t399_qdpnm2z7hc0000gn/T/pip-record-ihy3we/install-record.txt --single-version-externally-managed --compile --install-headers /Users/vaibhavmule/Envs/switchidea/bin/../include/site/python2.7/MySQL-python:
    running install
    running build
    running build_py
    creating build
    creating build/lib.macosx-10.13-x86_64-2.7
    copying _mysql_exceptions.py -> build/lib.macosx-10.13-x86_64-2.7
    creating build/lib.macosx-10.13-x86_64-2.7/MySQLdb
    copying MySQLdb/__init__.py -> build/lib.macosx-10.13-x86_64-2.7/MySQLdb
    copying MySQLdb/converters.py -> build/lib.macosx-10.13-x86_64-2.7/MySQLdb
    copying MySQLdb/connections.py -> build/lib.macosx-10.13-x86_64-2.7/MySQLdb
    copying MySQLdb/cursors.py -> build/lib.macosx-10.13-x86_64-2.7/MySQLdb
    copying MySQLdb/release.py -> build/lib.macosx-10.13-x86_64-2.7/MySQLdb
    copying MySQLdb/times.py -> build/lib.macosx-10.13-x86_64-2.7/MySQLdb
    creating build/lib.macosx-10.13-x86_64-2.7/MySQLdb/constants
    copying MySQLdb/constants/__init__.py -> build/lib.macosx-10.13-x86_64-2.7/MySQLdb/constants
    copying MySQLdb/constants/CR.py -> build/lib.macosx-10.13-x86_64-2.7/MySQLdb/constants
    copying MySQLdb/constants/FIELD_TYPE.py -> build/lib.macosx-10.13-x86_64-2.7/MySQLdb/constants
    copying MySQLdb/constants/ER.py -> build/lib.macosx-10.13-x86_64-2.7/MySQLdb/constants
    copying MySQLdb/constants/FLAG.py -> build/lib.macosx-10.13-x86_64-2.7/MySQLdb/constants
    copying MySQLdb/constants/REFRESH.py -> build/lib.macosx-10.13-x86_64-2.7/MySQLdb/constants
    copying MySQLdb/constants/CLIENT.py -> build/lib.macosx-10.13-x86_64-2.7/MySQLdb/constants
    running build_ext
    building '_mysql' extension
    creating build/temp.macosx-10.13-x86_64-2.7
    clang -fno-strict-aliasing -fno-common -dynamic -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Dversion_info=(1,2,3,'final',0) -D__version__=1.2.3 -I/usr/local/Cellar/mysql/8.0.11/include/mysql -I/usr/local/Cellar/python@2/2.7.15_1/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c _mysql.c -o build/temp.macosx-10.13-x86_64-2.7/_mysql.o
    _mysql.c:36:10: fatal error: 'my_config.h' file not found
    #include "my_config.h"
             ^~~~~~~~~~~~~
    1 error generated.
    error: command 'clang' failed with exit status 1

    ----------------------------------------
Command "/Users/vaibhavmule/Envs/switchidea/bin/python2.7 -u -c "import 
setuptools, tokenize;__file__='/private/var/folders/p6/0v0bflxn3t399_qdpnm2z7hc0000gn/T/pip-install-SD9Cgh/MySQL-python/setup.py';f=getattr(tokenize, 'open', open)(__file__);code=f.read().replace('\r\n', '\n');f.close();exec(compile(code, __file__, 'exec'))" install --record /private/var/folders/p6/0v0bflxn3t399_qdpnm2z7hc0000gn/T/pip-record-ihy3we/install-record.txt --single-version-externally-managed --compile --install-headers /Users/vaibhavmule/Envs/switchidea/bin/../include/site/python2.7/MySQL-python" failed with error code 1 in /private/var/folders/p6/0v0bflxn3t399_qdpnm2z7hc0000gn/T/pip-install-SD9Cgh/MySQL-python/

Answer 1

I just resolved this exact issue when running Ansible's mysql_user module. The answer here helped tip me off to a solution. I also needed MySQL-python from pip, which also broke in this process, so I've added the extra steps.

Steps to resolve:

1. brew unlink mysql # only if installed, causes the next step to fail
2. brew install mysql-connector-c
3. locate mysql_config file with which (mysql_config)

4. edit the mysql_config file, under # Create options change this:

   libs="$libs -l "

   to this:

   libs="$libs -lmysqlclient -lssl -lcrypto"

   if using vim, :wq! to save the read-only file

5. Now the install should run successfully

   pip install mysqlclient

6. Adding this separately, as it's similar but not directly related to the initial question

   pip install MySQL-python

7. Fix mysql brew formula, if it was unlinked in the first step.

   brew unlink mysql-connector-c

   brew link mysql

Answer 2

I know maybe the former answers can solve the problem already. But I'm still sharing below solution. If you don't want to brew install any extra things, you can try this solution.

I think the issue happens in many situations, mainly related to the installation of the pip packages about MySQL. In my case, I bumped into this issue when trying to install mysqlclient for Django.

This solution should work when you've installed MySQL with dmg downloaded from their official site.

In that case, you may find mysql_config in /usr/local/mysql/bin

If so, add export PATH="/usr/local/mysql/bin:${PATH}" in ~/.bash_profile, this would add the bin folder of mysql into the PATH, or you can say environment variable. Please note that mysql maybe in detail with your mysql version. In my case, the path is /usr/local/mysql-8.0.12-macos10.13-x86_64/bin.

Save and close the file, then source ~/.bash_profile to enable the change.

Try to install the pip package about MySQL again.

If still not working, a restart is preferred.

Answer 3

I solved this issue by setting xcode-select to use non-XCode command line tools, as shown in the below answer. I had a related clang error which led me to this answer.

sudo xcode-select --switch /Library/Developer/CommandLineTools

https://stackoverflow.com/a/30902106/11614142