Flair 3.4 on Mac Sonoma 14.7.4

Flair
1

Dear Flair team,
My attempt to install flair 3.4 on Mac Sonoma was met with errors, the beginning of which is like this.

/opt/local/lib/gcc13/gcc/aarch64-apple-darwin23/13.3.0/include-fixed/stdio.h:83:8: error: 'FILE' does not name a type
   83 | extern FILE *__stdinp;
      |        ^~~~
/opt/local/lib/gcc13/gcc/aarch64-apple-darwin23/13.3.0/include-fixed/stdio.h:81:1: note: 'FILE' is defined in header '<cstdio>'; did you forget to '#include <cstdio>'?
   80 | #include <sys/_types/_seek_set.h>
  +++ |+#include <cstdio>
   81 |

The full list is attached, along with the port echo installed.
I probabaly messed up something because the flair beta version (3.x.3.4) that I succesfully installed previously doesn’t compile now.
Many thanks for all the help.
Sunil

make_err_log.txt (71.1 KB)
port_echo_installed.txt (17.3 KB)

pkgutil --pkg-info=com.apple.pkg.CLTools_Executables                    
xcodebuild -version
package-id: com.apple.pkg.CLTools_Executables
version: 16.2.0.0.1.1733547573
volume: /
location: /
install-time: 1733968623
xcode-select: error: tool 'xcodebuild' requires Xcode, but active developer directory '/Library/Developer/CommandLineTools' is a command line tools instance
sunil@sunilmac ~ %


sunil@sunilmac ~ % which g++ gcc gfortran ar
/opt/local/bin/g++
/opt/local/bin/gcc
/opt/local/bin/gfortran
/opt/local/bin/ar

sunil@sunilmac ~ % which python
/opt/local/bin/python

sunil@sunilmac ~ % which python3
/opt/local/bin/python3

sunil@sunilmac ~ % port select --list python3                                              
Available versions for python3:
	none
	python311
	python312
	python313
	python39 (active)

sunil@sunilmac ~ % port select --list gcc    
Available versions for gcc:
	mp-gcc12 (active)
	mp-gcc13
	none

sunil@sunilmac ~ % g++ -v
Using built-in specs.
COLLECT_GCC=g++
COLLECT_LTO_WRAPPER=/opt/local/libexec/gcc/aarch64-apple-darwin23/12.4.0/lto-wrapper
Target: aarch64-apple-darwin23
Configured with: /opt/local/var/macports/build/_opt_bblocal_var_buildworker_ports_build_ports_lang_gcc12/gcc12/work/gcc-12.4.0/configure --prefix=/opt/local --build=aarch64-apple-darwin23 --enable-languages=c,c++,objc,obj-c++,lto,fortran,jit --libdir=/opt/local/lib/gcc12 --includedir=/opt/local/include/gcc12 --infodir=/opt/local/share/info --mandir=/opt/local/share/man --datarootdir=/opt/local/share/gcc-12 --with-local-prefix=/opt/local --with-system-zlib --disable-nls --program-suffix=-mp-12 --with-gxx-include-dir=/opt/local/include/gcc12/c++/ --with-gmp=/opt/local --with-mpfr=/opt/local --with-mpc=/opt/local --with-isl=/opt/local --with-zstd=/opt/local --enable-checking=release --disable-multilib --enable-lto --enable-libstdcxx-time --with-build-config=bootstrap-debug --with-as=/opt/local/bin/as --with-ld=/opt/local/bin/ld-classic --with-ar=/opt/local/bin/ar --with-bugurl=https://trac.macports.org/newticket --enable-host-shared --with-darwin-extra-rpath=/opt/local/lib/libgcc --with-libiconv-prefix=/opt/local --disable-tls --with-gxx-libcxx-include-dir=/opt/local/libexec/gcc12/libc++/include/c++/v1 --with-pkgversion='MacPorts gcc12 12.4.0_1+stdlib_flag' --with-sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX14.sdk
Thread model: posix
Supported LTO compression algorithms: zlib zstd
gcc version 12.4.0 (MacPorts gcc12 12.4.0_1+stdlib_flag)


sunil@sunilmac ~ % port echo requested
gawk                           @5.3.0_0 
gawk                           @5.3.1_0 
gcc12                          @12.3.0_4+stdlib_flag 
gcc12                          @12.4.0_1+stdlib_flag 
gcc13                          @13.3.0_2+stdlib_flag 
gdb                            @13.2_0 
gdb                            @15.1_0 
ghostscript                    @10.03.0_0+x11 
ghostscript                    @10.04.0_0+x11 
gnuplot                        @5.4.8_0+aquaterm+luaterm+pangocairo+wxwidgets+x11 
gnuplot                        @6.0.2_0+aquaterm+luaterm+pangocairo+qt5+wxwidgets 
pkgconfig                      @0.29.2_0 
py39-matplotlib                @3.8.4_0+cairo+webagg 
py39-numpy                     @1.26.4_0+gfortran 
py39-Pillow                    @9.5.0_1 
py39-python-install            @0.0.3_6 
py39-tkinter                   @3.9.19_0 
py311-matplotlib               @3.10.1_0+cairo 
py311-numpy                    @1.26.4_3+accelerate+gfortran 
py311-Pillow                   @9.5.0_1 
py311-tkinter                  @3.11.11_0 
tk                             @8.6.16_0+x11 
watch                          @4.0.0_1 
xterm                          @388_0 
zsh-syntax-highlighting        @0.8.0_0 
sunil@sunilmac ~ %

sunil@sunilmac ~ % port select --summary
Name       Selected   Options
====       ========   =======
clang      none       mp-clang-17 mp-clang-19 none
cython     none       cython39 none
fonttools  none       fonttools-311 fonttools-39 none
gcc        mp-gcc12   mp-gcc12 mp-gcc13 none
llvm       none       mp-llvm-17 mp-llvm-19 none
pygments   none       py311-pygments py312-pygments none
python     python312  python311 python312 python313 python39 none
python3    python39   python311 python312 python313 python39 none
wxWidgets  none       wxWidgets-3.0 none
sunil@sunilmac ~ %

sunil@sunilmac ~ % c++ -v
Apple clang version 16.0.0 (clang-1600.0.26.6)
Target: arm64-apple-darwin23.6.0
Thread model: posix
InstalledDir: /Library/Developer/CommandLineTools/usr/bin
3

Dear @sunil ,

Have you had a chance to look at the this post ?

Best regards, Luigi

4

Dear Luigi
I think I did, but I tried again and got this.

sunil@sunilmac geoviewer % make
g++ -MM -I. -I.. -I/opt/local/Library/Frameworks/Python.framework/Versions/3.13/include/python3.13 -I/opt/local/Library/Frameworks/Python.framework/Versions/3.13/include/python3.13 -I/opt/local/include -I/opt/local/Library/Frameworks/Python.framework/Versions/3.13/include/python3.13 -I/opt/local/Library/Frameworks/Python.framework/Versions/3.13/include/python3.13 -I/opt/local/include viewerobject.cc > viewerobject.d
g++ -MM -I. -I.. -I/opt/local/Library/Frameworks/Python.framework/Versions/3.13/include/python3.13 -I/opt/local/Library/Frameworks/Python.framework/Versions/3.13/include/python3.13 -I/opt/local/include -I/opt/local/Library/Frameworks/Python.framework/Versions/3.13/include/python3.13 -I/opt/local/Library/Frameworks/Python.framework/Versions/3.13/include/python3.13 -I/opt/local/include pyutils.cc > pyutils.d
g++ -MM -I. -I.. -I/opt/local/Library/Frameworks/Python.framework/Versions/3.13/include/python3.13 -I/opt/local/Library/Frameworks/Python.framework/Versions/3.13/include/python3.13 -I/opt/local/include -I/opt/local/Library/Frameworks/Python.framework/Versions/3.13/include/python3.13 -I/opt/local/Library/Frameworks/Python.framework/Versions/3.13/include/python3.13 -I/opt/local/include gobject.cc > gobject.d
g++ -MM -I. -I.. -I/opt/local/Library/Frameworks/Python.framework/Versions/3.13/include/python3.13 -I/opt/local/Library/Frameworks/Python.framework/Versions/3.13/include/python3.13 -I/opt/local/include -I/opt/local/Library/Frameworks/Python.framework/Versions/3.13/include/python3.13 -I/opt/local/Library/Frameworks/Python.framework/Versions/3.13/include/python3.13 -I/opt/local/include gmesh.cc > gmesh.d
g++ -MM -I. -I.. -I/opt/local/Library/Frameworks/Python.framework/Versions/3.13/include/python3.13 -I/opt/local/Library/Frameworks/Python.framework/Versions/3.13/include/python3.13 -I/opt/local/include -I/opt/local/Library/Frameworks/Python.framework/Versions/3.13/include/python3.13 -I/opt/local/Library/Frameworks/Python.framework/Versions/3.13/include/python3.13 -I/opt/local/include geoviewer.cc > geoviewer.d
g++ -MM -I. -I.. -I/opt/local/Library/Frameworks/Python.framework/Versions/3.13/include/python3.13 -I/opt/local/Library/Frameworks/Python.framework/Versions/3.13/include/python3.13 -I/opt/local/include -I/opt/local/Library/Frameworks/Python.framework/Versions/3.13/include/python3.13 -I/opt/local/Library/Frameworks/Python.framework/Versions/3.13/include/python3.13 -I/opt/local/include geometryobject.cc > geometryobject.d
/Library/Developer/CommandLineTools/usr/bin/make -C viewer
g++ -MM -std=c++11 -I. -I.. voxellayer.cc > voxellayer.d
g++ -MM -std=c++11 -I. -I.. viewer.cc > viewer.d
g++ -MM -std=c++11 -I. -I.. usrbinlayer.cc > usrbinlayer.d
g++ -MM -std=c++11 -I. -I.. userdumplayer.cc > userdumplayer.d
g++ -MM -std=c++11 -I. -I.. palettelayer.cc > palettelayer.d
g++ -MM -std=c++11 -I. -I.. nox.cc > nox.d
g++ -MM -std=c++11 -I. -I.. layer.cc > layer.d
g++ -MM -std=c++11 -I. -I.. latticelayer.cc > latticelayer.d
g++ -MM -std=c++11 -I. -I.. imagelayer.cc > imagelayer.d
g++ -MM -std=c++11 -I. -I.. exportlayer.cc > exportlayer.d
g++ -MM -std=c++11 -I. -I.. decorationlayer.cc > decorationlayer.d
g++ -MM -std=c++11 -I. -I.. d3layer.cc > d3layer.d
g++ -MM -std=c++11 -I. -I.. d2layer.cc > d2layer.d
g++ -c d2layer.cc -m64 -g -DDarwin -std=c++11 -O3 -funroll-loops -fno-math-errno -DNDEBUG -D_DEBUG=0 -ftree-vectorize -DTHREAD  -pedantic -W -Wall -Wcast-qual -Wextra -Wformat -Wpointer-arith -Wshadow -Wno-write-strings -Wcast-align -Wredundant-decls -Wno-long-long -Wno-non-virtual-dtor -Wno-variadic-macros -Woverloaded-virtual -Wpointer-arith -Wshadow -Wunused -Wuninitialized -Wwrite-strings -Wshadow -pipe -pthread -Wno-class-memaccess -fwrapv -fstack-protector -Wno-vla -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -fstrict-aliasing -I. -I..
clang: error: no input files
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_wchar.h:90,
                 from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/wchar.h:67,
                 from /opt/local/include/gcc12/c++/cwchar:44,
                 from /opt/local/include/gcc12/c++/bits/postypes.h:40,
                 from /opt/local/include/gcc12/c++/iosfwd:40,
                 from /opt/local/include/gcc12/c++/system_error:40,
                 from /opt/local/include/gcc12/c++/mutex:41,
                 from layer.h:11,
                 from d2layer.h:13,
                 from d2layer.cc:9:
/opt/local/lib/gcc12/gcc/aarch64-apple-darwin23/12.4.0/include-fixed/stdio.h:83:8: error: 'FILE' does not name a type
   83 | extern FILE *__stdinp;

thanks
Sunil

5

Dear @sunil ,

I’m afraid that something is broken in your environment.

This may happen when the system, CLT or MacPorts are updated and it is painful to find the reason.

As first solution, I would suggest wiping all your ports with the following commands

sudo port -fp uninstall installed

and then reinstalled the required MacPorts ports following the instruction in Flair website.

Remember to issue the command make clean in geoviewer directory before recompiling.

I am sorry that it is a long procedure but I don’t have a more straightforward solution. This depends because we need different layers of software to compile Flair on Mac.

Cheers, Luigi

6

Hi Luigi,
I removed all ports, did a fresh install of all ports, removed the flair directory and untared afresh and compiled, but that failed. Then I tried your suggesrtions to Mary for python313, and that too failed with the following errors.

/opt/local/lib/gcc13/gcc/aarch64-apple-darwin23/13.3.0/include-fixed/stdio.h:83:8: error: 'FILE' does not name a type
   83 | extern FILE *__stdinp;
      |        ^~~~
/opt/local/lib/gcc13/gcc/aarch64-apple-darwin23/13.3.0/include-fixed/stdio.h:81:1: note: 'FILE' is defined in header '<cstdio>'; did you forget to '#include <cstdio>'?
   80 | #include <sys/_types/_seek_set.h>
  +++ |+#include <cstdio>
   81 |

I then tried python311, but that too failed similalry.
What do you sugest?
thanks for helping me with this.
Ciao.

7

Hello @sunil,

Some colleagues had a similar problem. Unfortunately, we don’t know the reason for this problem, and I was not able to reproduce it.

For them, the solution was to update to Sequoia and follow the instructions in this post.

Giving a second look at your initial post, I notice that there is an error in the output of the command
pkgutil --pkg-info=com.apple.pkg.CLTools_Executables.

Not sure if this is linked to the problem, but you can try to remove the CLT with
sudo rm -rf /Library/Developer/CommandLineTools
and reinstall back with
xcode-select --install.

I’m sorry I don’t have a more clean solution at this time.

Best, Luigi

8

Many thanks Luigi,
Updates to this Mac is controlled by the IT group and they are often delayed by several months, but luckily for me, I was able to update to Sequoia 15.3.2, and combined with your proposed method, I managed to install flair 3.4.
Thanks a lot for your support on this.