Error: Failed to install doxygen

[justin@…]

I'm new to mac and linux- any help would be appreciated. My OS isEl Capitan Here is the error I get

Error: org.macports.configure for port doxygen returned: configure failure: command execution failed
Error: Failed to install doxygen
Please see the log file for port doxygen for details: 

Here is the log.

version:1
:debug:main Attempting ln -sf /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_textproc_doxygen/doxygen/work /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/textproc/doxygen/work
:debug:main changing euid/egid - current euid: 0 - current egid: 0
:debug:main egid changed to: 501
:debug:main euid changed to: 502
:debug:main Executing org.macports.main (doxygen)
:debug:main Privilege de-escalation not attempted as not running as root.
:debug:main Skipping completed org.macports.archivefetch (doxygen)
:debug:main Privilege de-escalation not attempted as not running as root.
:debug:main Skipping completed org.macports.fetch (doxygen)
:debug:main Privilege de-escalation not attempted as not running as root.
:debug:main Skipping completed org.macports.checksum (doxygen)
:debug:main Privilege de-escalation not attempted as not running as root.
:debug:main Skipping completed org.macports.extract (doxygen)
:debug:main Privilege de-escalation not attempted as not running as root.
:debug:main Skipping completed org.macports.patch (doxygen)
:debug:main Privilege de-escalation not attempted as not running as root.
:debug:configure configure phase started at Mon Jan  4 20:28:44 EST 2016
:notice:configure --->  Configuring doxygen
:debug:configure Using compiler 'Xcode Clang'
:debug:configure Executing proc-pre-org.macports.configure-configure-0
:debug:configure Executing proc-pre-org.macports.configure-configure-1
:debug:configure Executing proc-pre-org.macports.configure-configure-2
:debug:configure Executing org.macports.configure (doxygen)
:debug:configure Environment: 
CC='/usr/bin/clang'
CC_PRINT_OPTIONS='YES'
CC_PRINT_OPTIONS_FILE='/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_textproc_doxygen/doxygen/work/.CC_PRINT_OPTIONS'
CFLAGS='-pipe -Os'
CPATH='/opt/local/include'
CPPFLAGS='-I/opt/local/include'
CXX='/usr/bin/clang++'
CXXFLAGS='-pipe -Os -stdlib=libc++'
F77FLAGS='-m64'
F90FLAGS='-pipe -Os -m64'
FCFLAGS='-pipe -Os -m64'
FFLAGS='-pipe -Os'
INSTALL='/usr/bin/install -c'
LDFLAGS='-L/opt/local/lib -Wl,-headerpad_max_install_names'
LIBRARY_PATH='/opt/local/lib'
MACOSX_DEPLOYMENT_TARGET='10.11'
OBJC='/usr/bin/clang'
OBJCFLAGS='-pipe -Os'
OBJCXX='/usr/bin/clang++'
OBJCXXFLAGS='-pipe -Os -stdlib=libc++'
:debug:configure Assembled command: 'cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_textproc_doxygen/doxygen/work/doxygen-1.8.10" && /opt/local/bin/cmake -DCMAKE_INSTALL_PREFIX=/opt/local -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_COLOR_MAKEFILE=ON -DCMAKE_BUILD_TYPE=Release -DCMAKE_BUILD_WITH_INSTALL_RPATH=ON -DCMAKE_INSTALL_RPATH=/opt/local/lib -DCMAKE_INSTALL_NAME_DIR=/opt/local/lib -DCMAKE_SYSTEM_PREFIX_PATH="/opt/local;/usr" -DCMAKE_MODULE_PATH=/opt/local/share/cmake/Modules -DCMAKE_FIND_FRAMEWORK=LAST -Wno-dev -DCMAKE_C_FLAGS_RELEASE="-DNDEBUG" -DCMAKE_CXX_FLAGS_RELEASE="-DNDEBUG" -DCMAKE_OSX_ARCHITECTURES="x86_64" -DCMAKE_OSX_DEPLOYMENT_TARGET="10.11" -DCMAKE_OSX_SYSROOT="/" /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_textproc_doxygen/doxygen/work/doxygen-1.8.10'
:debug:configure Executing command line:  cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_textproc_doxygen/doxygen/work/doxygen-1.8.10" && /opt/local/bin/cmake -DCMAKE_INSTALL_PREFIX=/opt/local -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_COLOR_MAKEFILE=ON -DCMAKE_BUILD_TYPE=Release -DCMAKE_BUILD_WITH_INSTALL_RPATH=ON -DCMAKE_INSTALL_RPATH=/opt/local/lib -DCMAKE_INSTALL_NAME_DIR=/opt/local/lib -DCMAKE_SYSTEM_PREFIX_PATH="/opt/local;/usr" -DCMAKE_MODULE_PATH=/opt/local/share/cmake/Modules -DCMAKE_FIND_FRAMEWORK=LAST -Wno-dev -DCMAKE_C_FLAGS_RELEASE="-DNDEBUG" -DCMAKE_CXX_FLAGS_RELEASE="-DNDEBUG" -DCMAKE_OSX_ARCHITECTURES="x86_64" -DCMAKE_OSX_DEPLOYMENT_TARGET="10.11" -DCMAKE_OSX_SYSROOT="/" /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_textproc_doxygen/doxygen/work/doxygen-1.8.10 
:info:configure -- Could NOT find Threads (missing:  Threads_FOUND) 
:info:configure CMake Error at cmake/FindIconv.cmake:121 (MESSAGE):
:info:configure   Unable to determine iconv() signature
:info:configure Call Stack (most recent call first):
:info:configure   CMakeLists.txt:64 (find_package)
:info:configure 
:info:configure 
:info:configure -- Configuring incomplete, errors occurred!
:info:configure See also "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_textproc_doxygen/doxygen/work/doxygen-1.8.10/CMakeFiles/CMakeOutput.log".
:info:configure See also "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_textproc_doxygen/doxygen/work/doxygen-1.8.10/CMakeFiles/CMakeError.log".
:info:configure Command failed:  cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_textproc_doxygen/doxygen/work/doxygen-1.8.10" && /opt/local/bin/cmake -DCMAKE_INSTALL_PREFIX=/opt/local -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_COLOR_MAKEFILE=ON -DCMAKE_BUILD_TYPE=Release -DCMAKE_BUILD_WITH_INSTALL_RPATH=ON -DCMAKE_INSTALL_RPATH=/opt/local/lib -DCMAKE_INSTALL_NAME_DIR=/opt/local/lib -DCMAKE_SYSTEM_PREFIX_PATH="/opt/local;/usr" -DCMAKE_MODULE_PATH=/opt/local/share/cmake/Modules -DCMAKE_FIND_FRAMEWORK=LAST -Wno-dev -DCMAKE_C_FLAGS_RELEASE="-DNDEBUG" -DCMAKE_CXX_FLAGS_RELEASE="-DNDEBUG" -DCMAKE_OSX_ARCHITECTURES="x86_64" -DCMAKE_OSX_DEPLOYMENT_TARGET="10.11" -DCMAKE_OSX_SYSROOT="/" /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_textproc_doxygen/doxygen/work/doxygen-1.8.10 
:info:configure Exit code: 1
:error:configure org.macports.configure for port doxygen returned: configure failure: command execution failed
:debug:configure Error code: NONE
:debug:configure Backtrace: configure failure: command execution failed
    while executing
"portconfigure::configure_main org.macports.configure"
    ("eval" body line 1)
    invoked from within
"eval $procedure $targetname"
:info:configure Warning: targets not executed for doxygen: org.macports.activate org.macports.configure org.macports.build org.macports.destroot org.macports.install
:error:configure Failed to install doxygen
:debug:configure Registry error: getopt not registered as installed & active.
    invoked from within
"registry_active $subport"
    invoked from within
"$workername eval registry_active \$subport"
:notice:configure Please see the log file for port doxygen for details:
    /opt/local/var/macports/logs/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_textproc_doxygen/doxygen/main.log

[mf2k (Frank Schima)]

In the future, please use WikiFormatting, fill in the Port field and Cc the port maintainers (port info --maintainers doxygen), if any.

[oscar@…]

Cc Me!

[senseysensor]

Cc Me!

[neverpanic (Clemens Lang)]

:info:configure -- Could NOT find Threads (missing:  Threads_FOUND)

makes me think you don't have the Command Line Tools installed, which should come with the necessary libraries to fulfill this check. Please install them, if you haven't already.

To debug the other error (if it persists), we need $(port work doxygen)/doxygen-1.8.10/CMakeFiles/CMakeError.log. Please attach this file.

[oscar@…]

Error log generated the same error as reported.

[oscar@…]

I believe I have the same error, but I do have the Command Line Tools installed. Attached my error log.

[neverpanic (Clemens Lang)]

Problems are:

8	/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_textproc_doxygen/doxygen/work/doxygen-1.8.10/CMakeFiles/CMakeTmp/CheckIncludeFile.c:1:10: fatal error: 'pthread.h' file not found
9	#include <pthread.h>
10	         ^
11	1 error generated.

and

42	In file included from /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_textproc_doxygen/doxygen/work/doxygen-1.8.10/CMakeFiles/CMakeTmp/src.cxx:1:
43	/opt/local/include/iconv.h:54:10: fatal error: 'errno.h' file not found
44	#include <errno.h>
45	         ^
46	1 error generated.

These files should be in /usr/include and are provided by the Command Line Tools:

:) clemens@cBookPro:~$ file /usr/include/pthread.h
/usr/include/pthread.h: ASCII c program text
:) clemens@cBookPro:~$ file /usr/include/errno.h
/usr/include/errno.h: ASCII c program text
:) clemens@cBookPro:~$ pkgutil --file-info /usr/include/pthread.h
volume: /
path: /usr/include/pthread.h

pkgid: com.apple.pkg.DevSDK
pkg-version: 10.11.1.0.1.1447239525
install-time: 1447279814
uid: 0
gid: 0
mode: 755

pkgid: com.apple.pkg.DevSDK_OSX1011
pkg-version: 7.2.0.0.1.1447826929
install-time: 1449617503
uid: 0
gid: 0
mode: 755
:) clemens@cBookPro:~$ pkgutil --file-info /usr/include/errno.h
volume: /
path: /usr/include/errno.h

pkgid: com.apple.pkg.DevSDK
pkg-version: 10.11.1.0.1.1447239525
install-time: 1447279814
uid: 0
gid: 0
mode: 444

pkgid: com.apple.pkg.DevSDK_OSX1011
pkg-version: 7.2.0.0.1.1447826929
install-time: 1449617503
uid: 0
gid: 0
mode: 444

Please install the command line tools. You can test for their presence by checking whether /Library/Developer/CommandLineTools/usr/bin/make exists.

[oscar@…]

Thanks for taking the time to debug. Both pthread.h and errno.h are located in /usr/include. I also have make in /Library/Developer/CommandLineTools/usr/bin/make. If I run pkgutil --file-info /usr/include/errno.h and pkgutil --file-info /usr/include/pthread.h I get the following.

pkgutil --file-info /usr/include/pthread.h
volume: /
path: /usr/include/pthread.h

pkgid: com.apple.pkg.DevSDK
pkg-version: 10.11.1.0.1.1447239525
install-time: 1447279814
uid: 0
gid: 0
mode: 755

pkgid: com.apple.pkg.DevSDK_OSX1011
pkg-version: 7.2.0.0.1.1447826929
install-time: 1452011125
uid: 0
gid: 0
mode: 755

pkgutil --file-info /usr/include/errno.h 
volume: /
path: /usr/include/errno.h

pkgid: com.apple.pkg.DevSDK
pkg-version: 10.11.1.0.1.1447239525
install-time: 1447279814
uid: 0
gid: 0
mode: 444

pkgid: com.apple.pkg.DevSDK_OSX1011
pkg-version: 7.2.0.0.1.1447826929
install-time: 1452011125
uid: 0
gid: 0
mode: 444

Please advice.

[neverpanic (Clemens Lang)]

Please save this file a test.cpp:

#include <iconv.h>
int main() {
        iconv(iconv_t(-1), 0, 0, 0, 0);
}

run the following commands and provide the output.

/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/clang++ --version
/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/clang++ -v -I/opt/local/include -pipe -Os -stdlib=libc++ -DICONV_COMPILES -arch x86_64 -mmacosx-version-min=10.11 -o /dev/null -c test.cpp
/usr/bin/clang++ --version
/usr/bin/clang++ -v -I/opt/local/include -pipe -Os -stdlib=libc++ -DICONV_COMPILES -arch x86_64 -mmacosx-version-min=10.11 -o /dev/null -c test.cpp

[oscar@…]

Thanks. Here is the output.

MVBook:~ osed$ /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/clang++ --version
Apple LLVM version 7.0.2 (clang-700.1.81)
Target: x86_64-apple-darwin15.2.0
Thread model: posix

MVBook:~ osed$ /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/clang++ -v -I/opt/local/include -pipe -Os -stdlib=libc++ -DICONV_COMPILES -arch x86_64 -mmacosx-version-min=10.11 -o /dev/null -c test.cpp
Apple LLVM version 7.0.2 (clang-700.1.81)
Target: x86_64-apple-darwin15.2.0
Thread model: posix
 "/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/clang" -cc1 -triple x86_64-apple-macosx10.11.0 -Wdeprecated-objc-isa-usage -Werror=deprecated-objc-isa-usage -emit-obj -disable-free -disable-llvm-verifier -main-file-name test.cpp -mrelocation-model pic -pic-level 2 -mthread-model posix -mdisable-fp-elim -masm-verbose -munwind-tables -target-cpu core2 -target-linker-version 253.9 -v -dwarf-column-info -coverage-file /dev/null -resource-dir /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../lib/clang/7.0.2 -D ICONV_COMPILES -I /opt/local/include -stdlib=libc++ -Os -fdeprecated-macro -fdebug-compilation-dir /Users/osed -ferror-limit 19 -fmessage-length 80 -stack-protector 1 -mstackrealign -fblocks -fobjc-runtime=macosx-10.11.0 -fencode-extended-block-signature -fcxx-exceptions -fexceptions -fmax-type-align=16 -fdiagnostics-show-option -fcolor-diagnostics -vectorize-loops -vectorize-slp -o /dev/null -x c++ test.cpp
clang -cc1 version 7.0.2 based upon LLVM 3.7.0svn default target x86_64-apple-darwin15.2.0
ignoring nonexistent directory "/usr/include/c++/v1"
#include "..." search starts here:
#include <...> search starts here:
 /opt/local/include
 /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1
 /usr/local/include
 /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../lib/clang/7.0.2/include
 /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/include
 /usr/include
 /System/Library/Frameworks (framework directory)
 /Library/Frameworks (framework directory)
End of search list.

MVBook:~ osed$ /usr/bin/clang++ --version
Apple LLVM version 7.0.2 (clang-700.1.81)
Target: x86_64-apple-darwin15.2.0
Thread model: posix

MVBook:~ osed$ /usr/bin/clang++ -v -I/opt/local/include -pipe -Os -stdlib=libc++ -DICONV_COMPILES -arch x86_64 -mmacosx-version-min=10.11 -o /dev/null -c test.cpp
Apple LLVM version 7.0.2 (clang-700.1.81)
Target: x86_64-apple-darwin15.2.0
Thread model: posix
 "/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/clang" -cc1 -triple x86_64-apple-macosx10.11.0 -Wdeprecated-objc-isa-usage -Werror=deprecated-objc-isa-usage -emit-obj -disable-free -disable-llvm-verifier -main-file-name test.cpp -mrelocation-model pic -pic-level 2 -mthread-model posix -mdisable-fp-elim -masm-verbose -munwind-tables -target-cpu core2 -target-linker-version 253.9 -v -dwarf-column-info -coverage-file /dev/null -resource-dir /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../lib/clang/7.0.2 -D ICONV_COMPILES -I /opt/local/include -stdlib=libc++ -Os -fdeprecated-macro -fdebug-compilation-dir /Users/osed -ferror-limit 19 -fmessage-length 80 -stack-protector 1 -mstackrealign -fblocks -fobjc-runtime=macosx-10.11.0 -fencode-extended-block-signature -fcxx-exceptions -fexceptions -fmax-type-align=16 -fdiagnostics-show-option -fcolor-diagnostics -vectorize-loops -vectorize-slp -o /dev/null -x c++ test.cpp
clang -cc1 version 7.0.2 based upon LLVM 3.7.0svn default target x86_64-apple-darwin15.2.0
ignoring nonexistent directory "/usr/include/c++/v1"
#include "..." search starts here:
#include <...> search starts here:
 /opt/local/include
 /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1
 /usr/local/include
 /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../lib/clang/7.0.2/include
 /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/include
 /usr/include
 /System/Library/Frameworks (framework directory)
 /Library/Frameworks (framework directory)
End of search list.

[neverpanic (Clemens Lang)]

So for some reason, your compiler happily picks up the include files when used outside of MacPorts, but fails inside? The include paths built into the compiler look fine to me, and there doesn't seem to be an error message either. I assume you already did a clean and re-try: sudo port clean cmake && sudo port install cmake?

[oscar@…]

I had not try that, but it did not help. :(

Can this be some changed permission issue with El Capitan? I have a (very) vague memory that they changed some permissions to development related resources.

[neverpanic (Clemens Lang)]

There's ProblemHotlist#xcode7.2, but that would print a large error message and crash, so isn't the case here.

Additionally, El Capitan introduced System Integrity Protection that prevents you from modifying /usr/ and /bin/ and a couple of other locations, but that doesn't seem to be the culprit either (the files are there, as you can see). Have you tried repairing disk permissions, maybe the macports user cannot read /usr/include?

Actually, try putting the test.cpp in /tmp, do chmod 644 /tmp/test.cpp and do this:

sudo -u macports /usr/bin/clang++ -v -I/opt/local/include -pipe -Os -stdlib=libc++ -DICONV_COMPILES -arch x86_64 -mmacosx-version-min=10.11 -o /dev/null -c /tmp/test.cpp

Maybe that uncovers something.

What does mdfind -name errno.h print on your system?

[oscar@…]

You're probably right. I'm afraid I'm not comfortable enough around this to be of much help. I have not tried repairing disk permissions. While figuring out how I found the following (​link), don't know if it helps.

Beginning with OS X El Capitan, system file permissions are automatically protected. It's no longer necessary to verify or repair permissions with Disk Utility.

Owner is set to root and group to wheel. Read access for both pthread.h and errno.h. (pthread.h also have write access for owner). Output from commands:

MVBook:tmp osed$ sudo -u macports /usr/bin/clang++ -v -I/opt/local/include -pipe -Os -stdlib=libc++ -DICONV_COMPILES -arch x86_64 -mmacosx-version-min=10.11 -o /dev/null -c /tmp/test.cpp
Apple LLVM version 7.0.2 (clang-700.1.81)
Target: x86_64-apple-darwin15.2.0
Thread model: posix
 "/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/clang" -cc1 -triple x86_64-apple-macosx10.11.0 -Wdeprecated-objc-isa-usage -Werror=deprecated-objc-isa-usage -emit-obj -disable-free -disable-llvm-verifier -main-file-name test.cpp -mrelocation-model pic -pic-level 2 -mthread-model posix -mdisable-fp-elim -masm-verbose -munwind-tables -target-cpu core2 -target-linker-version 253.9 -v -dwarf-column-info -coverage-file /dev/null -resource-dir /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../lib/clang/7.0.2 -D ICONV_COMPILES -I /opt/local/include -stdlib=libc++ -Os -fdeprecated-macro -fdebug-compilation-dir /private/tmp -ferror-limit 19 -fmessage-length 80 -stack-protector 1 -mstackrealign -fblocks -fobjc-runtime=macosx-10.11.0 -fencode-extended-block-signature -fcxx-exceptions -fexceptions -fmax-type-align=16 -fdiagnostics-show-option -fcolor-diagnostics -vectorize-loops -vectorize-slp -o /dev/null -x c++ /tmp/test.cpp
clang -cc1 version 7.0.2 based upon LLVM 3.7.0svn default target x86_64-apple-darwin15.2.0
ignoring nonexistent directory "/usr/include/c++/v1"
#include "..." search starts here:
#include <...> search starts here:
 /opt/local/include
 /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../include/c++/v1
 /usr/local/include
 /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../lib/clang/7.0.2/include
 /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/include
 /usr/include
 /System/Library/Frameworks (framework directory)
 /Library/Frameworks (framework directory)
End of search list.

MVBook:tmp osed$ mdfind -name errno.h
/usr/include/sys/errno.h
/opt/local/share/doc/boost/libs/exception/doc/errinfo_errno.html
/System/Library/Frameworks/Kernel.framework/Versions/A/Headers/sys/errno.h
/usr/include/bsm/audit_errno.h
/usr/include/errno.h
/usr/include/apr-1/apr_errno.h
/usr/include/apr-1/apu_errno.h
/usr/include/php/ext/iconv/php_iconv_supports_errno.h
/opt/local/include/boost/exception/errinfo_errno.hpp
/System/Library/Frameworks/Tcl.framework/Versions/8.5/Resources/Documentation/Reference/Tcl/TclLib/SetErrno.htm
/usr/local/avr/include/errno.h
/usr/local/CrossPack-AVR-20131216/avr/include/errno.h
/usr/local/CrossPack-AVR-20131216/doc/avr-libc/group__avr__errno.html
/usr/local/CrossPack-AVR-20131216/man/errno.h.3
/usr/local/octave/3.8.0/include/octave-3.8.0/octave/oct-errno.h
/usr/local/octave/3.8.0/libexec/llvm-3.3/include/llvm/Support/Errno.h
/Library/Frameworks/Python.framework/Versions/3.5/Resources/English.lproj/Documentation/library/errno.html

[neverpanic (Clemens Lang)]

That leaves me completely baffled as to why your compiler seems to happily use errno.h but fails to when trying to compile CMake. Maybe somebody else has an idea?

[jogu (Joseph Heenan)]

I had what I believe was this exact same problem; a "port clean doxygen" fixed it. What's particularly odd is that this was in a brand new install of macports. A colleague had the exact same problem.