fastjet
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Published
20 hours ago •
scikit-hep
scikit-hep
CGAL explicitly requested and not found or not functional
Trying to pip install fastjet on Mac M2, but getting errors like CGAL not found.
checking CGAL_MAKEFILE... not specified
checking whether C++ compiler accepts -frounding-math -Werror... no
checking whether C++ compiler accepts -fp-model strict -Werror... no
checking CGAL in /private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-install-ksirtcyh/fastjet_17e125686bd34276b7e8111b11946b01/CGAL-5.5.1... lib
checking for gmp.h... no
checking for main in -lgmp... no
configure: error: CGAL explicitly requested and not found or not functional
This file contains any messages produced by compilers while
running configure, to aid debugging if configure makes a mistake.
It was created by FastJet configure 3.4.0, which was
generated by GNU Autoconf 2.71. Invocation command line was
Steps taken:
brew install cgal. This installs CGAL 5.5.2.- But fastjet/setup.py:CGAL_ZIP made me think I might need CGAL 5.5.1. So, I tried installing that.
- Also tried
pip install --upgrade pip wheel - Pyjet seems to install fine without any issue even if it requires
brew install cgal gmp wget.
But so far nothing helped. Any ideas?
Unfortunately, we don't have binaries for Apple silicon yet which means that fastjet has to be compiled by pip locally. pyjet doesn't compile the C++ FastJet library so it doesn't suffer from these failure cases. I don't have an M1 or M2 machine so I can't offer a lot of help but I believe some of the other devs have machines with Apple silicon so I think it is possible to install fastjet on them. The CGAL that is used here is within the container that pip is creating and, therefore, has nothing to do with what you have in your system. Is this the full error message? In theory, it should have a more detailed printout below. Can you post all of it?
The error message is more than 1300 lines. Here it is.
Error log:
✦ ❯ pip install fastjet
Collecting fastjet
Using cached fastjet-3.4.0.5.tar.gz (4.0 MB)
Installing build dependencies ... done
Getting requirements to build wheel ... done
Installing backend dependencies ... done
Preparing metadata (pyproject.toml) ... done
Requirement already satisfied: numpy>=1.13.3 in ./.direnv/python-3.10.6/lib/python3.10/site-packages (from fastjet) (1.24.2)
Collecting awkward>=2
Using cached awkward-2.1.2-py3-none-any.whl (596 kB)
Collecting vector
Using cached vector-1.0.0-py3-none-any.whl (170 kB)
Collecting typing-extensions>=4.1.0
Using cached typing_extensions-4.5.0-py3-none-any.whl (27 kB)
Collecting awkward-cpp==13
Using cached awkward_cpp-13-cp310-cp310-macosx_10_9_universal2.whl (1.8 MB)
Collecting packaging
Using cached packaging-23.0-py3-none-any.whl (42 kB)
Building wheels for collected packages: fastjet
Building wheel for fastjet (pyproject.toml) ... error
error: subprocess-exited-with-error
× Building wheel for fastjet (pyproject.toml) did not run successfully.
│ exit code: 1
╰─> [1333 lines of output]
/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-build-env-4375zgzn/overlay/lib/python3.10/site-packages/setuptools/config/setupcfg.py:516: SetuptoolsDeprecationWarning: The license_file parameter is deprecated, use license_files instead.
warnings.warn(msg, warning_class)
running bdist_wheel
running build
running build_py
creating build
creating build/lib.macosx-12.6-arm64-cpython-310
creating build/lib.macosx-12.6-arm64-cpython-310/fastjet
copying src/fastjet/version.py -> build/lib.macosx-12.6-arm64-cpython-310/fastjet
copying src/fastjet/_singleevent.py -> build/lib.macosx-12.6-arm64-cpython-310/fastjet
copying src/fastjet/__init__.py -> build/lib.macosx-12.6-arm64-cpython-310/fastjet
copying src/fastjet/_pyjet.py -> build/lib.macosx-12.6-arm64-cpython-310/fastjet
copying src/fastjet/_multievent.py -> build/lib.macosx-12.6-arm64-cpython-310/fastjet
copying src/fastjet/_generalevent.py -> build/lib.macosx-12.6-arm64-cpython-310/fastjet
copying src/fastjet/_utils.py -> build/lib.macosx-12.6-arm64-cpython-310/fastjet
running egg_info
writing src/fastjet.egg-info/PKG-INFO
writing dependency_links to src/fastjet.egg-info/dependency_links.txt
writing requirements to src/fastjet.egg-info/requires.txt
writing top-level names to src/fastjet.egg-info/top_level.txt
listing git files failed - pretending there aren't any
reading manifest file 'src/fastjet.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
warning: no previously-included files matching '.git' found anywhere in distribution
warning: no previously-included files matching '.gitmodules' found anywhere in distribution
warning: no previously-included files found matching '.cirrus.yml'
adding license file 'LICENSE'
writing manifest file 'src/fastjet.egg-info/SOURCES.txt'
running build_ext
patching file pyinterface/fastjet.i
patching file src/ClusterSequence.cc
Hunk #1 succeeded at 1017 with fuzz 1.
./autogen.sh: line 34: [: too many arguments
processing .
Running libtoolize...
glibtoolize: putting auxiliary files in '.'.
glibtoolize: copying file './ltmain.sh'
glibtoolize: putting macros in 'm4'.
glibtoolize: copying file 'm4/libtool.m4'
glibtoolize: copying file 'm4/ltoptions.m4'
glibtoolize: copying file 'm4/ltsugar.m4'
glibtoolize: copying file 'm4/ltversion.m4'
glibtoolize: copying file 'm4/lt~obsolete.m4'
glibtoolize: Consider adding 'AC_CONFIG_MACRO_DIRS([m4])' to configure.ac,
glibtoolize: and rerunning glibtoolize and aclocal.
Running aclocal -I m4 ...
Running automake --gnu ...
configure.ac:50: installing './compile'
configure.ac:491: installing './config.guess'
configure.ac:491: installing './config.sub'
configure.ac:3: installing './install-sh'
configure.ac:3: installing './missing'
parallel-tests: installing './test-driver'
example/Makefile.am: installing './depcomp'
pyinterface/Makefile.am:82: warning: eval AM_LIBTOOLFLAGS = "--silent": non-POSIX variable name
pyinterface/Makefile.am:82: (probably a GNU make extension)
pyinterface/Makefile.am:87: warning: eval AM_LIBTOOLFLAGS = "": non-POSIX variable name
pyinterface/Makefile.am:87: (probably a GNU make extension)
pyinterface/Makefile.am:67: installing './py-compile'
Running autoconf ...
configure.ac:88: warning: The macro `AC_STDC_HEADERS' is obsolete.
configure.ac:88: You should run autoupdate.
./lib/autoconf/oldnames.m4:75: AC_STDC_HEADERS is expanded from...
configure.ac:88: the top level
configure.ac:88: warning: The macro `AC_HEADER_STDC' is obsolete.
configure.ac:88: You should run autoupdate.
./lib/autoconf/headers.m4:704: AC_HEADER_STDC is expanded from...
./lib/autoconf/oldnames.m4:75: AC_STDC_HEADERS is expanded from...
configure.ac:88: the top level
configure.ac:303: warning: The macro `AM_ENABLE_SHARED' is obsolete.
configure.ac:303: You should run autoupdate.
m4/ltoptions.m4:205: AM_ENABLE_SHARED is expanded from...
configure.ac:303: the top level
configure.ac:342: warning: The macro `AC_HELP_STRING' is obsolete.
configure.ac:342: You should run autoupdate.
./lib/autoconf/general.m4:204: AC_HELP_STRING is expanded from...
./lib/autoconf/general.m4:1553: AC_ARG_WITH is expanded from...
m4/CGAL.m4:15: ACX_CHECK_CGAL is expanded from...
configure.ac:342: the top level
configure.ac:342: warning: The macro `AC_ERROR' is obsolete.
configure.ac:342: You should run autoupdate.
./lib/autoconf/oldnames.m4:34: AC_ERROR is expanded from...
m4/CGAL.m4:15: ACX_CHECK_CGAL is expanded from...
configure.ac:342: the top level
configure.ac:491: warning: The macro `AC_PROG_LIBTOOL' is obsolete.
configure.ac:491: You should run autoupdate.
m4/libtool.m4:100: AC_PROG_LIBTOOL is expanded from...
configure.ac:491: the top level
configure.ac:647: warning: The macro `SWIG_ENABLE_CXX' is obsolete.
configure.ac:647: You should run autoupdate.
m4/ax_swig_enable_cxx.m4:48: SWIG_ENABLE_CXX is expanded from...
configure.ac:647: the top level
configure.ac:648: warning: The macro `SWIG_PYTHON' is obsolete.
configure.ac:648: You should run autoupdate.
m4/ax_swig_python.m4:57: SWIG_PYTHON is expanded from...
configure.ac:648: the top level
processing ./plugins/SISCone/siscone
Running libtoolize...
glibtoolize: putting auxiliary files in '.'.
glibtoolize: copying file './ltmain.sh'
glibtoolize: putting macros in 'm4'.
glibtoolize: copying file 'm4/libtool.m4'
glibtoolize: copying file 'm4/ltoptions.m4'
glibtoolize: copying file 'm4/ltsugar.m4'
glibtoolize: copying file 'm4/ltversion.m4'
glibtoolize: copying file 'm4/lt~obsolete.m4'
glibtoolize: Consider adding 'AC_CONFIG_MACRO_DIRS([m4])' to configure.ac,
glibtoolize: and rerunning glibtoolize and aclocal.
Running aclocal -I m4 ...
Running automake --gnu ...
configure.ac:21: installing './compile'
configure.ac:73: installing './config.guess'
configure.ac:73: installing './config.sub'
configure.ac:3: installing './install-sh'
configure.ac:3: installing './missing'
examples/Makefile.am: installing './depcomp'
Running autoconf ...
configure.ac:36: warning: The macro `AC_STDC_HEADERS' is obsolete.
configure.ac:36: You should run autoupdate.
./lib/autoconf/oldnames.m4:75: AC_STDC_HEADERS is expanded from...
configure.ac:36: the top level
configure.ac:36: warning: The macro `AC_HEADER_STDC' is obsolete.
configure.ac:36: You should run autoupdate.
./lib/autoconf/headers.m4:704: AC_HEADER_STDC is expanded from...
./lib/autoconf/oldnames.m4:75: AC_STDC_HEADERS is expanded from...
configure.ac:36: the top level
configure.ac:73: warning: The macro `AC_PROG_LIBTOOL' is obsolete.
configure.ac:73: You should run autoupdate.
m4/libtool.m4:100: AC_PROG_LIBTOOL is expanded from...
configure.ac:73: the top level
configure.ac:98: warning: AC_OUTPUT should be used without arguments.
configure.ac:98: You should run autoupdate.
Running ./configure --prefix=/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-install-wociuxbv/fastjet_0ce230ccca8c4a1697ccdb59887ef7c7/src/fastjet/_fastjet_core --disable-auto-ptr --enable-allcxxplugins --enable-cgal-header-only --enable-cgal --with-cgaldir=/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-install-wociuxbv/fastjet_0ce230ccca8c4a1697ccdb59887ef7c7/CGAL-5.5.1 --enable-swig --enable-pyext LDFLAGS=-Wl,-rpath,$$ORIGIN/_fastjet_core/lib:$$ORIGIN ...
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a race-free mkdir -p... ./install-sh -c -d
checking for gawk... no
checking for mawk... no
checking for nawk... no
checking for awk... awk
checking whether make sets $(MAKE)... yes
checking whether make supports nested variables... yes
checking whether UID '65698565' is supported by ustar format... no
checking whether GID '1527229786' is supported by ustar format... no
checking how to create a ustar tar archive... none
checking whether make supports the include directive... yes (GNU style)
checking for gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables...
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether the compiler supports GNU C... yes
checking whether gcc accepts -g... yes
checking for gcc option to enable C11 features... none needed
checking whether gcc understands -c and -o together... yes
checking dependency style of gcc... gcc3
checking for stdio.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for strings.h... yes
checking for sys/stat.h... yes
checking for sys/types.h... yes
checking for unistd.h... yes
checking for int... yes
checking for long... yes
checking for g++... g++
checking whether the compiler supports GNU C++... yes
checking whether g++ accepts -g... yes
checking for g++ option to enable C++11 features... none needed
checking dependency style of g++... gcc3
checking for g++... yes
checking whether ln -s works... yes
checking for a sed that does not truncate output... /usr/bin/sed
checking whether make sets $(MAKE)... (cached) yes
checking for grep that handles long lines and -e... /usr/bin/grep
checking for egrep... /usr/bin/grep -E
checking if g++ supports -Woverloaded-virtual flag... yes
checking if g++ -O3 -Bstatic -lgmp -Bdynamic -std=c++17 supports the "[[deprecated]]" keyword... yes
checking if g++ -O3 -Bstatic -lgmp -Bdynamic -std=c++17 supports the "__attribute__((deprecated))" keyword... yes
checking if g++ -O3 -Bstatic -lgmp -Bdynamic -std=c++17 supports the "override" keyword... no
checking if g++ -g -Woverloaded-virtual -O3 -Bstatic -lgmp -Bdynamic -std=c++17 supports the "[[deprecated]]" keyword... no
checking if g++ -g -Woverloaded-virtual -O3 -Bstatic -lgmp -Bdynamic -std=c++17 supports the "__attribute__((deprecated))" keyword... no
checking if g++ -g -Woverloaded-virtual -O3 -Bstatic -lgmp -Bdynamic -std=c++17 supports the "override" keyword... no
checking if g++ -g -Woverloaded-virtual -O3 -Bstatic -lgmp -Bdynamic -std=c++17 supports the "explicit" keyword for operators... no
checking for execinfo.h... yes
checking for cos in -lm... yes
checking CGAL_MAKEFILE... not specified
checking whether C++ compiler accepts -frounding-math -Werror... no
checking whether C++ compiler accepts -fp-model strict -Werror... no
checking CGAL in /private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-install-wociuxbv/fastjet_0ce230ccca8c4a1697ccdb59887ef7c7/CGAL-5.5.1... lib
checking for gmp.h... no
checking for main in -lgmp... no
configure: error: CGAL explicitly requested and not found or not functional
This file contains any messages produced by compilers while
running configure, to aid debugging if configure makes a mistake.
It was created by FastJet configure 3.4.0, which was
generated by GNU Autoconf 2.71. Invocation command line was
$ ./configure --prefix=/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-install-wociuxbv/fastjet_0ce230ccca8c4a1697ccdb59887ef7c7/src/fastjet/_fastjet_core --disable-auto-ptr --enable-allcxxplugins --enable-cgal-header-only --enable-cgal --with-cgaldir=/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-install-wociuxbv/fastjet_0ce230ccca8c4a1697ccdb59887ef7c7/CGAL-5.5.1 --enable-swig --enable-pyext 'LDFLAGS=-Wl,-rpath,$$ORIGIN/_fastjet_core/lib:$$ORIGIN'
## --------- ##
## Platform. ##
## --------- ##
hostname = xxxhome
uname -m = arm64
uname -r = 21.6.0
uname -s = Darwin
uname -v = Darwin Kernel Version 21.6.0: Mon Dec 19 20:45:43 PST 2022; root:xnu-8020.240.18~2/RELEASE_ARM64_T8110
/usr/bin/uname -p = arm
/bin/uname -X = unknown
/bin/arch = unknown
/usr/bin/arch -k = unknown
/usr/convex/getsysinfo = unknown
/usr/bin/hostinfo = Mach kernel version:
Darwin Kernel Version 21.6.0: Mon Dec 19 20:45:43 PST 2022; root:xnu-8020.240.18~2/RELEASE_ARM64_T8110
Kernel configured for up to 8 processors.
8 processors are physically available.
8 processors are logically available.
Processor type: arm64e (ARM64E)
Processors active: 0 1 2 3 4 5 6 7
Primary memory available: 24.00 gigabytes
Default processor set: 605 tasks, 4660 threads, 8 processors
Load average: 2.80, Mach factor: 5.19
/bin/machine = unknown
/usr/bin/oslevel = unknown
/bin/universe = unknown
PATH: /private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-build-env-4375zgzn/overlay/bin/
PATH: /private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-build-env-4375zgzn/normal/bin/
PATH: /Users/username/dev/.direnv/python-3.10.6/bin/
PATH: /opt/homebrew/opt/
PATH: /opt/homebrew/opt/qt@5/bin/
PATH: /opt/homebrew/opt/imagemagick@6/bin/
PATH: /Users/username/.pyenv/shims/
PATH: /usr/local/bin/charm/
PATH: /usr/local/sbin/
PATH: /opt/homebrew/bin/
PATH: /opt/homebrew/sbin/
PATH: /opt/homebrew/share/google-cloud-sdk/bin/
PATH: /usr/local/bin/
PATH: /usr/bin/
PATH: /bin/
PATH: /usr/sbin/
PATH: /sbin/
PATH: /Library/TeX/texbin/
PATH: /Users/username/.local/bin/
## ----------- ##
## Core tests. ##
## ----------- ##
configure:3037: looking for aux files: config.guess config.sub ltmain.sh compile missing install-sh
configure:3050: trying ./
configure:3079: ./config.guess found
configure:3079: ./config.sub found
configure:3079: ./ltmain.sh found
configure:3079: ./compile found
configure:3079: ./missing found
configure:3061: ./install-sh found
configure:3209: checking for a BSD-compatible install
configure:3282: result: /usr/bin/install -c
configure:3293: checking whether build environment is sane
configure:3348: result: yes
configure:3507: checking for a race-free mkdir -p
configure:3551: result: ./install-sh -c -d
configure:3558: checking for gawk
configure:3593: result: no
configure:3558: checking for mawk
configure:3593: result: no
configure:3558: checking for nawk
configure:3593: result: no
configure:3558: checking for awk
configure:3579: found /usr/bin/awk
configure:3590: result: awk
configure:3601: checking whether make sets $(MAKE)
configure:3624: result: yes
configure:3654: checking whether make supports nested variables
configure:3672: result: yes
configure:3757: checking whether UID '65698565' is supported by ustar format
configure:3763: result: no
configure:3767: checking whether GID '1527229786' is supported by ustar format
configure:3773: result: no
configure:3778: checking how to create a ustar tar archive
configure:3832: tardir=conftest.dir && eval false >conftest.tar
configure:3835: $? = 1
configure:3861: result: none
configure:3951: checking whether make supports the include directive
configure:3966: make -f confmf.GNU && cat confinc.out
this is the am__doit target
configure:3969: $? = 0
configure:3988: result: yes (GNU style)
configure:4064: checking for gcc
configure:4085: found /usr/bin/gcc
configure:4096: result: gcc
configure:4449: checking for C compiler version
configure:4458: gcc --version >&5
Apple clang version 14.0.0 (clang-1400.0.29.202)
Target: arm64-apple-darwin21.6.0
Thread model: posix
InstalledDir: /Library/Developer/CommandLineTools/usr/bin
configure:4469: $? = 0
configure:4458: gcc -v >&5
Apple clang version 14.0.0 (clang-1400.0.29.202)
Target: arm64-apple-darwin21.6.0
Thread model: posix
InstalledDir: /Library/Developer/CommandLineTools/usr/bin
configure:4469: $? = 0
configure:4458: gcc -V >&5
clang: error: argument to '-V' is missing (expected 1 value)
clang: error: no input files
configure:4469: $? = 1
configure:4458: gcc -qversion >&5
clang: error: unknown argument '-qversion'; did you mean '--version'?
clang: error: no input files
configure:4469: $? = 1
configure:4458: gcc -version >&5
clang: error: unknown argument '-version'; did you mean '--version'?
clang: error: no input files
configure:4469: $? = 1
configure:4489: checking whether the C compiler works
configure:4511: gcc -Wl,-rpath,$$ORIGIN/_fastjet_core/lib:$$ORIGIN conftest.c >&5
configure:4515: $? = 0
configure:4565: result: yes
configure:4568: checking for C compiler default output file name
configure:4570: result: a.out
configure:4576: checking for suffix of executables
configure:4583: gcc -o conftest -Wl,-rpath,$$ORIGIN/_fastjet_core/lib:$$ORIGIN conftest.c >&5
configure:4587: $? = 0
configure:4610: result:
configure:4632: checking whether we are cross compiling
configure:4640: gcc -o conftest -Wl,-rpath,$$ORIGIN/_fastjet_core/lib:$$ORIGIN conftest.c >&5
configure:4644: $? = 0
configure:4651: ./conftest
configure:4655: $? = 0
configure:4670: result: no
configure:4675: checking for suffix of object files
configure:4698: gcc -c conftest.c >&5
configure:4702: $? = 0
configure:4724: result: o
configure:4728: checking whether the compiler supports GNU C
configure:4748: gcc -c conftest.c >&5
configure:4748: $? = 0
configure:4758: result: yes
configure:4769: checking whether gcc accepts -g
configure:4790: gcc -c -g conftest.c >&5
configure:4790: $? = 0
configure:4834: result: yes
configure:4854: checking for gcc option to enable C11 features
configure:4869: gcc -c -g -O2 conftest.c >&5
configure:4869: $? = 0
configure:4887: result: none needed
configure:5003: checking whether gcc understands -c and -o together
configure:5026: gcc -c conftest.c -o conftest2.o
configure:5029: $? = 0
configure:5026: gcc -c conftest.c -o conftest2.o
configure:5029: $? = 0
configure:5041: result: yes
configure:5060: checking dependency style of gcc
configure:5172: result: gcc3
configure:5192: checking for stdio.h
configure:5192: gcc -c -g -O2 conftest.c >&5
configure:5192: $? = 0
configure:5192: result: yes
configure:5192: checking for stdlib.h
configure:5192: gcc -c -g -O2 conftest.c >&5
configure:5192: $? = 0
configure:5192: result: yes
configure:5192: checking for string.h
configure:5192: gcc -c -g -O2 conftest.c >&5
configure:5192: $? = 0
configure:5192: result: yes
configure:5192: checking for inttypes.h
configure:5192: gcc -c -g -O2 conftest.c >&5
configure:5192: $? = 0
configure:5192: result: yes
configure:5192: checking for stdint.h
configure:5192: gcc -c -g -O2 conftest.c >&5
configure:5192: $? = 0
configure:5192: result: yes
configure:5192: checking for strings.h
configure:5192: gcc -c -g -O2 conftest.c >&5
configure:5192: $? = 0
configure:5192: result: yes
configure:5192: checking for sys/stat.h
configure:5192: gcc -c -g -O2 conftest.c >&5
configure:5192: $? = 0
configure:5192: result: yes
configure:5192: checking for sys/types.h
configure:5192: gcc -c -g -O2 conftest.c >&5
configure:5192: $? = 0
configure:5192: result: yes
configure:5192: checking for unistd.h
configure:5192: gcc -c -g -O2 conftest.c >&5
configure:5192: $? = 0
configure:5192: result: yes
configure:5217: checking for int
configure:5217: gcc -c -g -O2 conftest.c >&5
configure:5217: $? = 0
configure:5217: gcc -c -g -O2 conftest.c >&5
conftest.c:52:18: error: expected expression
if (sizeof ((int)))
^
1 error generated.
configure:5217: $? = 1
configure: failed program was:
| /* confdefs.h */
| #define PACKAGE_NAME "FastJet"
| #define PACKAGE_TARNAME "fastjet"
| #define PACKAGE_VERSION "3.4.0"
| #define PACKAGE_STRING "FastJet 3.4.0"
| #define PACKAGE_BUGREPORT ""
| #define PACKAGE_URL ""
| #define PACKAGE "fastjet"
| #define VERSION "3.4.0"
| #define HAVE_STDIO_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_STRING_H 1
| #define HAVE_INTTYPES_H 1
| #define HAVE_STDINT_H 1
| #define HAVE_STRINGS_H 1
| #define HAVE_SYS_STAT_H 1
| #define HAVE_SYS_TYPES_H 1
| #define HAVE_UNISTD_H 1
| #define STDC_HEADERS 1
| /* end confdefs.h. */
| #include <stddef.h>
| #ifdef HAVE_STDIO_H
| # include <stdio.h>
| #endif
| #ifdef HAVE_STDLIB_H
| # include <stdlib.h>
| #endif
| #ifdef HAVE_STRING_H
| # include <string.h>
| #endif
| #ifdef HAVE_INTTYPES_H
| # include <inttypes.h>
| #endif
| #ifdef HAVE_STDINT_H
| # include <stdint.h>
| #endif
| #ifdef HAVE_STRINGS_H
| # include <strings.h>
| #endif
| #ifdef HAVE_SYS_TYPES_H
| # include <sys/types.h>
| #endif
| #ifdef HAVE_SYS_STAT_H
| # include <sys/stat.h>
| #endif
| #ifdef HAVE_UNISTD_H
| # include <unistd.h>
| #endif
| int
| main (void)
| {
| if (sizeof ((int)))
| return 0;
| ;
| return 0;
| }
configure:5217: result: yes
configure:5223: checking for long
configure:5223: gcc -c -g -O2 conftest.c >&5
configure:5223: $? = 0
configure:5223: gcc -c -g -O2 conftest.c >&5
conftest.c:52:19: error: expected expression
if (sizeof ((long)))
^
1 error generated.
configure:5223: $? = 1
configure: failed program was:
| /* confdefs.h */
| #define PACKAGE_NAME "FastJet"
| #define PACKAGE_TARNAME "fastjet"
| #define PACKAGE_VERSION "3.4.0"
| #define PACKAGE_STRING "FastJet 3.4.0"
| #define PACKAGE_BUGREPORT ""
| #define PACKAGE_URL ""
| #define PACKAGE "fastjet"
| #define VERSION "3.4.0"
| #define HAVE_STDIO_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_STRING_H 1
| #define HAVE_INTTYPES_H 1
| #define HAVE_STDINT_H 1
| #define HAVE_STRINGS_H 1
| #define HAVE_SYS_STAT_H 1
| #define HAVE_SYS_TYPES_H 1
| #define HAVE_UNISTD_H 1
| #define STDC_HEADERS 1
| /* end confdefs.h. */
| #include <stddef.h>
| #ifdef HAVE_STDIO_H
| # include <stdio.h>
| #endif
| #ifdef HAVE_STDLIB_H
| # include <stdlib.h>
| #endif
| #ifdef HAVE_STRING_H
| # include <string.h>
| #endif
| #ifdef HAVE_INTTYPES_H
| # include <inttypes.h>
| #endif
| #ifdef HAVE_STDINT_H
| # include <stdint.h>
| #endif
| #ifdef HAVE_STRINGS_H
| # include <strings.h>
| #endif
| #ifdef HAVE_SYS_TYPES_H
| # include <sys/types.h>
| #endif
| #ifdef HAVE_SYS_STAT_H
| # include <sys/stat.h>
| #endif
| #ifdef HAVE_UNISTD_H
| # include <unistd.h>
| #endif
| int
| main (void)
| {
| if (sizeof ((long)))
| return 0;
| ;
| return 0;
| }
configure:5223: result: yes
configure:5307: checking for g++
configure:5328: found /usr/bin/g++
configure:5339: result: g++
configure:5366: checking for C++ compiler version
configure:5375: g++ --version >&5
Apple clang version 14.0.0 (clang-1400.0.29.202)
Target: arm64-apple-darwin21.6.0
Thread model: posix
InstalledDir: /Library/Developer/CommandLineTools/usr/bin
configure:5386: $? = 0
configure:5375: g++ -v >&5
Apple clang version 14.0.0 (clang-1400.0.29.202)
Target: arm64-apple-darwin21.6.0
Thread model: posix
InstalledDir: /Library/Developer/CommandLineTools/usr/bin
configure:5386: $? = 0
configure:5375: g++ -V >&5
clang: error: argument to '-V' is missing (expected 1 value)
clang: error: no input files
configure:5386: $? = 1
configure:5375: g++ -qversion >&5
clang: error: unknown argument '-qversion'; did you mean '--version'?
clang: error: no input files
configure:5386: $? = 1
configure:5390: checking whether the compiler supports GNU C++
configure:5410: g++ -c -O3 -Bstatic -lgmp -Bdynamic -std=c++17 conftest.cpp >&5
clang: warning: -lgmp: 'linker' input unused [-Wunused-command-line-argument]
configure:5410: $? = 0
configure:5420: result: yes
configure:5431: checking whether g++ accepts -g
configure:5452: g++ -c -g conftest.cpp >&5
configure:5452: $? = 0
configure:5496: result: yes
configure:5516: checking for g++ option to enable C++11 features
configure:5531: g++ -c -O3 -Bstatic -lgmp -Bdynamic -std=c++17 conftest.cpp >&5
clang: warning: -lgmp: 'linker' input unused [-Wunused-command-line-argument]
conftest.cpp:187:25: warning: empty parentheses interpreted as a function declaration [-Wvexing-parse]
cxx11test::delegate d2();
^~
conftest.cpp:187:25: note: remove parentheses to declare a variable
cxx11test::delegate d2();
^~
1 warning generated.
configure:5531: $? = 0
configure:5549: result: none needed
configure:5615: checking dependency style of g++
configure:5727: result: gcc3
configure:5747: checking for g++
configure:5768: found /usr/bin/g++
configure:5780: result: yes
configure:5793: checking whether ln -s works
configure:5797: result: yes
configure:5804: checking for a sed that does not truncate output
configure:5874: result: /usr/bin/sed
configure:5879: checking whether make sets $(MAKE)
configure:5902: result: yes
configure:5914: checking for grep that handles long lines and -e
configure:5978: result: /usr/bin/grep
configure:5986: checking for egrep
configure:6054: result: /usr/bin/grep -E
configure:6080: checking if g++ supports -Woverloaded-virtual flag
configure:6095: g++ -c -Woverloaded-virtual conftest.cpp >&5
configure:6095: $? = 0
configure:6109: result: yes
configure:6196: checking if g++ -O3 -Bstatic -lgmp -Bdynamic -std=c++17 supports the "[[deprecated]]" keyword
configure:6210: g++ -c -O3 -Bstatic -lgmp -Bdynamic -std=c++17 -Werror=attributes conftest.cpp >&5
clang: warning: -lgmp: 'linker' input unused [-Wunused-command-line-argument]
conftest.cpp:21:73: warning: 'test' is deprecated [-Wdeprecated-declarations]
class A{public: [[deprecated]] void test() {}}; int main(void){ A a; a.test(); return 0;}
^
conftest.cpp:21:20: note: 'test' has been explicitly marked deprecated here
class A{public: [[deprecated]] void test() {}}; int main(void){ A a; a.test(); return 0;}
^
1 warning generated.
configure:6210: $? = 0
configure:6229: result: yes
configure:6232: checking if g++ -O3 -Bstatic -lgmp -Bdynamic -std=c++17 supports the "__attribute__((deprecated))" keyword
configure:6246: g++ -c -O3 -Bstatic -lgmp -Bdynamic -std=c++17 -Werror=attributes conftest.cpp >&5
clang: warning: -lgmp: 'linker' input unused [-Wunused-command-line-argument]
conftest.cpp:22:84: warning: 'test' is deprecated [-Wdeprecated-declarations]
class A{public: void test() __attribute__((deprecated)) {}};int main(void){ A a; a.test(); return 0;}
^
conftest.cpp:22:44: note: 'test' has been explicitly marked deprecated here
class A{public: void test() __attribute__((deprecated)) {}};int main(void){ A a; a.test(); return 0;}
^
1 warning generated.
configure:6246: $? = 0
configure:6265: result: yes
configure:6268: checking if g++ -O3 -Bstatic -lgmp -Bdynamic -std=c++17 supports the "override" keyword
configure:6282: g++ -c -O3 -Bstatic -lgmp -Bdynamic -std=c++17 -Werror conftest.cpp >&5
clang: error: -lgmp: 'linker' input unused [-Werror,-Wunused-command-line-argument]
configure:6282: $? = 1
configure: failed program was:
| /* confdefs.h */
| #define PACKAGE_NAME "FastJet"
| #define PACKAGE_TARNAME "fastjet"
| #define PACKAGE_VERSION "3.4.0"
| #define PACKAGE_STRING "FastJet 3.4.0"
| #define PACKAGE_BUGREPORT ""
| #define PACKAGE_URL ""
| #define PACKAGE "fastjet"
| #define VERSION "3.4.0"
| #define HAVE_STDIO_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_STRING_H 1
| #define HAVE_INTTYPES_H 1
| #define HAVE_STDINT_H 1
| #define HAVE_STRINGS_H 1
| #define HAVE_SYS_STAT_H 1
| #define HAVE_SYS_TYPES_H 1
| #define HAVE_UNISTD_H 1
| #define STDC_HEADERS 1
| #define HAVE_CXX14_DEPRECATED /**/
| #define HAVE_GNUCXX_DEPRECATED /**/
| /* end confdefs.h. */
| class A{public: virtual void test(){}}; class B : public A{public: virtual void test() override{}}; int main(void){ B b; b.test(); return 0;}
configure:6301: result: no
configure:6304: checking if g++ -g -Woverloaded-virtual -O3 -Bstatic -lgmp -Bdynamic -std=c++17 supports the "[[deprecated]]" keyword
configure:6318: g++ -c -g -Woverloaded-virtual -O3 -Bstatic -lgmp -Bdynamic -std=c++17 -Werror -Wno-error=deprecated-declarations conftest.cpp >&5
clang: error: -lgmp: 'linker' input unused [-Werror,-Wunused-command-line-argument]
configure:6318: $? = 1
configure: failed program was:
| /* confdefs.h */
| #define PACKAGE_NAME "FastJet"
| #define PACKAGE_TARNAME "fastjet"
| #define PACKAGE_VERSION "3.4.0"
| #define PACKAGE_STRING "FastJet 3.4.0"
| #define PACKAGE_BUGREPORT ""
| #define PACKAGE_URL ""
| #define PACKAGE "fastjet"
| #define VERSION "3.4.0"
| #define HAVE_STDIO_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_STRING_H 1
| #define HAVE_INTTYPES_H 1
| #define HAVE_STDINT_H 1
| #define HAVE_STRINGS_H 1
| #define HAVE_SYS_STAT_H 1
| #define HAVE_SYS_TYPES_H 1
| #define HAVE_UNISTD_H 1
| #define STDC_HEADERS 1
| #define HAVE_CXX14_DEPRECATED /**/
| #define HAVE_GNUCXX_DEPRECATED /**/
| /* end confdefs.h. */
| class A{public: [[deprecated]] void test() {}}; int main(void){ A a; a.test(); return 0;}
configure:6337: result: no
configure:6340: checking if g++ -g -Woverloaded-virtual -O3 -Bstatic -lgmp -Bdynamic -std=c++17 supports the "__attribute__((deprecated))" keyword
configure:6354: g++ -c -g -Woverloaded-virtual -O3 -Bstatic -lgmp -Bdynamic -std=c++17 -Werror -Wno-error=deprecated-declarations conftest.cpp >&5
clang: error: -lgmp: 'linker' input unused [-Werror,-Wunused-command-line-argument]
configure:6354: $? = 1
configure: failed program was:
| /* confdefs.h */
| #define PACKAGE_NAME "FastJet"
| #define PACKAGE_TARNAME "fastjet"
| #define PACKAGE_VERSION "3.4.0"
| #define PACKAGE_STRING "FastJet 3.4.0"
| #define PACKAGE_BUGREPORT ""
| #define PACKAGE_URL ""
| #define PACKAGE "fastjet"
| #define VERSION "3.4.0"
| #define HAVE_STDIO_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_STRING_H 1
| #define HAVE_INTTYPES_H 1
| #define HAVE_STDINT_H 1
| #define HAVE_STRINGS_H 1
| #define HAVE_SYS_STAT_H 1
| #define HAVE_SYS_TYPES_H 1
| #define HAVE_UNISTD_H 1
| #define STDC_HEADERS 1
| #define HAVE_CXX14_DEPRECATED /**/
| #define HAVE_GNUCXX_DEPRECATED /**/
| /* end confdefs.h. */
| class A{public: __attribute__((__deprecated__)) void test() {}};int main(void){ A a; a.test(); return 0;}
configure:6373: result: no
configure:6376: checking if g++ -g -Woverloaded-virtual -O3 -Bstatic -lgmp -Bdynamic -std=c++17 supports the "override" keyword
configure:6390: g++ -c -g -Woverloaded-virtual -O3 -Bstatic -lgmp -Bdynamic -std=c++17 -Werror conftest.cpp >&5
clang: error: -lgmp: 'linker' input unused [-Werror,-Wunused-command-line-argument]
configure:6390: $? = 1
configure: failed program was:
| /* confdefs.h */
| #define PACKAGE_NAME "FastJet"
| #define PACKAGE_TARNAME "fastjet"
| #define PACKAGE_VERSION "3.4.0"
| #define PACKAGE_STRING "FastJet 3.4.0"
| #define PACKAGE_BUGREPORT ""
| #define PACKAGE_URL ""
| #define PACKAGE "fastjet"
| #define VERSION "3.4.0"
| #define HAVE_STDIO_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_STRING_H 1
| #define HAVE_INTTYPES_H 1
| #define HAVE_STDINT_H 1
| #define HAVE_STRINGS_H 1
| #define HAVE_SYS_STAT_H 1
| #define HAVE_SYS_TYPES_H 1
| #define HAVE_UNISTD_H 1
| #define STDC_HEADERS 1
| #define HAVE_CXX14_DEPRECATED /**/
| #define HAVE_GNUCXX_DEPRECATED /**/
| /* end confdefs.h. */
| class A{public: virtual void test(){}}; class B : public A{public: virtual void test() override{}}; int main(void){ B b; b.test(); return 0;}
configure:6409: result: no
configure:6412: checking if g++ -g -Woverloaded-virtual -O3 -Bstatic -lgmp -Bdynamic -std=c++17 supports the "explicit" keyword for operators
configure:6426: g++ -c -g -Woverloaded-virtual -O3 -Bstatic -lgmp -Bdynamic -std=c++17 -Werror conftest.cpp >&5
clang: error: -lgmp: 'linker' input unused [-Werror,-Wunused-command-line-argument]
configure:6426: $? = 1
configure: failed program was:
| /* confdefs.h */
| #define PACKAGE_NAME "FastJet"
| #define PACKAGE_TARNAME "fastjet"
| #define PACKAGE_VERSION "3.4.0"
| #define PACKAGE_STRING "FastJet 3.4.0"
| #define PACKAGE_BUGREPORT ""
| #define PACKAGE_URL ""
| #define PACKAGE "fastjet"
| #define VERSION "3.4.0"
| #define HAVE_STDIO_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_STRING_H 1
| #define HAVE_INTTYPES_H 1
| #define HAVE_STDINT_H 1
| #define HAVE_STRINGS_H 1
| #define HAVE_SYS_STAT_H 1
| #define HAVE_SYS_TYPES_H 1
| #define HAVE_UNISTD_H 1
| #define STDC_HEADERS 1
| #define HAVE_CXX14_DEPRECATED /**/
| #define HAVE_GNUCXX_DEPRECATED /**/
| /* end confdefs.h. */
| class A{public: explicit operator bool(){return true;}}; int main(void){ A a; bool b=bool(a); if (b) b=false; return 0;}
configure:6445: result: no
configure:6484: checking for execinfo.h
configure:6484: gcc -c -g -O2 conftest.c >&5
configure:6484: $? = 0
configure:6484: result: yes
configure:6492: checking for cos in -lm
configure:6515: gcc -o conftest -g -O2 -Wl,-rpath,$$ORIGIN/_fastjet_core/lib:$$ORIGIN conftest.c -lm >&5
conftest.c:28:6: warning: incompatible redeclaration of library function 'cos' [-Wincompatible-library-redeclaration]
char cos ();
^
conftest.c:28:6: note: 'cos' is a builtin with type 'double (double)'
1 warning generated.
configure:6515: $? = 0
configure:6525: result: yes
configure:6621: checking CGAL_MAKEFILE
configure:6665: result: not specified
configure:6684: checking whether C++ compiler accepts -frounding-math -Werror
configure:6704: g++ -c -frounding-math -Werror conftest.cpp >&5
error: overriding currently unsupported rounding mode on this target [-Werror,-Wunsupported-floating-point-opt]
1 error generated.
configure:6704: $? = 1
configure: failed program was:
| /* confdefs.h */
| #define PACKAGE_NAME "FastJet"
| #define PACKAGE_TARNAME "fastjet"
| #define PACKAGE_VERSION "3.4.0"
| #define PACKAGE_STRING "FastJet 3.4.0"
| #define PACKAGE_BUGREPORT ""
| #define PACKAGE_URL ""
| #define PACKAGE "fastjet"
| #define VERSION "3.4.0"
| #define HAVE_STDIO_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_STRING_H 1
| #define HAVE_INTTYPES_H 1
| #define HAVE_STDINT_H 1
| #define HAVE_STRINGS_H 1
| #define HAVE_SYS_STAT_H 1
| #define HAVE_SYS_TYPES_H 1
| #define HAVE_UNISTD_H 1
| #define STDC_HEADERS 1
| #define HAVE_CXX14_DEPRECATED /**/
| #define HAVE_GNUCXX_DEPRECATED /**/
| #define HAVE_EXECINFO_H 1
| #define HAVE_LIBM 1
| /* end confdefs.h. */
|
| int
| main (void)
| {
|
| ;
| return 0;
| }
configure:6715: result: no
configure:6723: checking whether C++ compiler accepts -fp-model strict -Werror
configure:6743: g++ -c -fp-model strict -Werror conftest.cpp >&5
clang: error: unknown argument: '-fp-model'
clang: error: no such file or directory: 'strict'
configure:6743: $? = 1
configure: failed program was:
| /* confdefs.h */
| #define PACKAGE_NAME "FastJet"
| #define PACKAGE_TARNAME "fastjet"
| #define PACKAGE_VERSION "3.4.0"
| #define PACKAGE_STRING "FastJet 3.4.0"
| #define PACKAGE_BUGREPORT ""
| #define PACKAGE_URL ""
| #define PACKAGE "fastjet"
| #define VERSION "3.4.0"
| #define HAVE_STDIO_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_STRING_H 1
| #define HAVE_INTTYPES_H 1
| #define HAVE_STDINT_H 1
| #define HAVE_STRINGS_H 1
| #define HAVE_SYS_STAT_H 1
| #define HAVE_SYS_TYPES_H 1
| #define HAVE_UNISTD_H 1
| #define STDC_HEADERS 1
| #define HAVE_CXX14_DEPRECATED /**/
| #define HAVE_GNUCXX_DEPRECATED /**/
| #define HAVE_EXECINFO_H 1
| #define HAVE_LIBM 1
| /* end confdefs.h. */
|
| int
| main (void)
| {
|
| ;
| return 0;
| }
configure:6754: result: no
configure:6774: checking CGAL in /private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-install-wociuxbv/fastjet_0ce230ccca8c4a1697ccdb59887ef7c7/CGAL-5.5.1
configure:6794: result: lib
configure:6859: checking for gmp.h
configure:6859: gcc -c -g -O2 -I/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-install-wociuxbv/fastjet_0ce230ccca8c4a1697ccdb59887ef7c7/CGAL-5.5.1/include conftest.c >&5
conftest.c:53:10: fatal error: 'gmp.h' file not found
#include <gmp.h>
^~~~~~~
1 error generated.
configure:6859: $? = 1
configure: failed program was:
| /* confdefs.h */
| #define PACKAGE_NAME "FastJet"
| #define PACKAGE_TARNAME "fastjet"
| #define PACKAGE_VERSION "3.4.0"
| #define PACKAGE_STRING "FastJet 3.4.0"
| #define PACKAGE_BUGREPORT ""
| #define PACKAGE_URL ""
| #define PACKAGE "fastjet"
| #define VERSION "3.4.0"
| #define HAVE_STDIO_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_STRING_H 1
| #define HAVE_INTTYPES_H 1
| #define HAVE_STDINT_H 1
| #define HAVE_STRINGS_H 1
| #define HAVE_SYS_STAT_H 1
| #define HAVE_SYS_TYPES_H 1
| #define HAVE_UNISTD_H 1
| #define STDC_HEADERS 1
| #define HAVE_CXX14_DEPRECATED /**/
| #define HAVE_GNUCXX_DEPRECATED /**/
| #define HAVE_EXECINFO_H 1
| #define HAVE_LIBM 1
| /* end confdefs.h. */
| #include <stddef.h>
| #ifdef HAVE_STDIO_H
| # include <stdio.h>
| #endif
| #ifdef HAVE_STDLIB_H
| # include <stdlib.h>
| #endif
| #ifdef HAVE_STRING_H
| # include <string.h>
| #endif
| #ifdef HAVE_INTTYPES_H
| # include <inttypes.h>
| #endif
| #ifdef HAVE_STDINT_H
| # include <stdint.h>
| #endif
| #ifdef HAVE_STRINGS_H
| # include <strings.h>
| #endif
| #ifdef HAVE_SYS_TYPES_H
| # include <sys/types.h>
| #endif
| #ifdef HAVE_SYS_STAT_H
| # include <sys/stat.h>
| #endif
| #ifdef HAVE_UNISTD_H
| # include <unistd.h>
| #endif
| #include <gmp.h>
configure:6859: result: no
configure:6866: checking for main in -lgmp
configure:6886: gcc -o conftest -g -O2 -I/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-install-wociuxbv/fastjet_0ce230ccca8c4a1697ccdb59887ef7c7/CGAL-5.5.1/include -L/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-install-wociuxbv/fastjet_0ce230ccca8c4a1697ccdb59887ef7c7/CGAL-5.5.1/lib -Wl,-rpath,/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-install-wociuxbv/fastjet_0ce230ccca8c4a1697ccdb59887ef7c7/CGAL-5.5.1/lib -Wl,-rpath,$$ORIGIN/_fastjet_core/lib:$$ORIGIN conftest.c -lgmp -lm >&5
ld: library not found for -lgmp
clang: error: linker command failed with exit code 1 (use -v to see invocation)
configure:6886: $? = 1
configure: failed program was:
| /* confdefs.h */
| #define PACKAGE_NAME "FastJet"
| #define PACKAGE_TARNAME "fastjet"
| #define PACKAGE_VERSION "3.4.0"
| #define PACKAGE_STRING "FastJet 3.4.0"
| #define PACKAGE_BUGREPORT ""
| #define PACKAGE_URL ""
| #define PACKAGE "fastjet"
| #define VERSION "3.4.0"
| #define HAVE_STDIO_H 1
| #define HAVE_STDLIB_H 1
| #define HAVE_STRING_H 1
| #define HAVE_INTTYPES_H 1
| #define HAVE_STDINT_H 1
| #define HAVE_STRINGS_H 1
| #define HAVE_SYS_STAT_H 1
| #define HAVE_SYS_TYPES_H 1
| #define HAVE_UNISTD_H 1
| #define STDC_HEADERS 1
| #define HAVE_CXX14_DEPRECATED /**/
| #define HAVE_GNUCXX_DEPRECATED /**/
| #define HAVE_EXECINFO_H 1
| #define HAVE_LIBM 1
| /* end confdefs.h. */
|
|
| int
| main (void)
| {
| return main ();
| ;
| return 0;
| }
configure:6896: result: no
configure:6914: error: CGAL explicitly requested and not found or not functional
## ---------------- ##
## Cache variables. ##
## ---------------- ##
ac_cv_c_compiler_gnu=yes
ac_cv_cxx_compiler_gnu=yes
ac_cv_env_CCC_set=
ac_cv_env_CCC_value=
ac_cv_env_CC_set=
ac_cv_env_CC_value=
ac_cv_env_CFLAGS_set=
ac_cv_env_CFLAGS_value=
ac_cv_env_CPPFLAGS_set=
ac_cv_env_CPPFLAGS_value=
ac_cv_env_CXXCPP_set=
ac_cv_env_CXXCPP_value=
ac_cv_env_CXXFLAGS_set=set
ac_cv_env_CXXFLAGS_value='-O3 -Bstatic -lgmp -Bdynamic -std=c++17'
ac_cv_env_CXX_set=
ac_cv_env_CXX_value=
ac_cv_env_FCFLAGS_set=
ac_cv_env_FCFLAGS_value=
ac_cv_env_FC_set=
ac_cv_env_FC_value=
ac_cv_env_LDFLAGS_set=set
ac_cv_env_LDFLAGS_value='-Wl,-rpath,$$ORIGIN/_fastjet_core/lib:$$ORIGIN'
ac_cv_env_LIBS_set=
ac_cv_env_LIBS_value=
ac_cv_env_LT_SYS_LIBRARY_PATH_set=
ac_cv_env_LT_SYS_LIBRARY_PATH_value=
ac_cv_env_PYTHON_CONFIG_set=
ac_cv_env_PYTHON_CONFIG_value=
ac_cv_env_PYTHON_INCLUDE_set=set
ac_cv_env_PYTHON_INCLUDE_value=-I/Users/username/.pyenv/versions/3.10.6/include/python3.10
ac_cv_env_PYTHON_set=set
ac_cv_env_PYTHON_value=/Users/username/dev/.direnv/python-3.10.6/bin/python
ac_cv_env_build_alias_set=
ac_cv_env_build_alias_value=
ac_cv_env_host_alias_set=
ac_cv_env_host_alias_value=
ac_cv_env_target_alias_set=
ac_cv_env_target_alias_value=
ac_cv_header_execinfo_h=yes
ac_cv_header_gmp_h=no
ac_cv_header_inttypes_h=yes
ac_cv_header_stdint_h=yes
ac_cv_header_stdio_h=yes
ac_cv_header_stdlib_h=yes
ac_cv_header_string_h=yes
ac_cv_header_strings_h=yes
ac_cv_header_sys_stat_h=yes
ac_cv_header_sys_types_h=yes
ac_cv_header_unistd_h=yes
ac_cv_lib_gmp_main=no
ac_cv_lib_m_cos=yes
ac_cv_objext=o
ac_cv_path_EGREP='/usr/bin/grep -E'
ac_cv_path_GREP=/usr/bin/grep
ac_cv_path_SED=/usr/bin/sed
ac_cv_path_install='/usr/bin/install -c'
ac_cv_prog_AWK=awk
ac_cv_prog_ac_ct_CC=gcc
ac_cv_prog_ac_ct_CXX=g++
ac_cv_prog_cc_c11=
ac_cv_prog_cc_g=yes
ac_cv_prog_cc_stdc=
ac_cv_prog_cxx_11=no
ac_cv_prog_cxx_cxx11=
ac_cv_prog_cxx_found=yes
ac_cv_prog_cxx_g=yes
ac_cv_prog_cxx_stdcxx=
ac_cv_prog_make_make_set=yes
ac_cv_type_int=yes
ac_cv_type_long=yes
am_cv_CC_dependencies_compiler_type=gcc3
am_cv_CXX_dependencies_compiler_type=gcc3
am_cv_make_support_nested_variables=yes
am_cv_prog_cc_c_o=yes
am_cv_prog_tar_ustar=none
ax_cv_cxx_flags__fp_model_strict__Werror=no
ax_cv_cxx_flags__frounding_math__Werror=no
## ----------------- ##
## Output variables. ##
## ----------------- ##
ACLOCAL='${SHELL} '\''/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-install-wociuxbv/fastjet_0ce230ccca8c4a1697ccdb59887ef7c7/fastjet-core/missing'\'' aclocal-1.16'
AMDEPBACKSLASH='\'
AMDEP_FALSE='#'
AMDEP_TRUE=''
AMTAR='$${TAR-tar}'
AM_BACKSLASH='\'
AM_CXXFLAGS=' -g -Woverloaded-virtual '
AM_DEFAULT_V='$(AM_DEFAULT_VERBOSITY)'
AM_DEFAULT_VERBOSITY='1'
AM_FCFLAGS=''
AM_FFLAGS=''
AM_V='$(V)'
AR=''
AUTOCONF='${SHELL} '\''/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-install-wociuxbv/fastjet_0ce230ccca8c4a1697ccdb59887ef7c7/fastjet-core/missing'\'' autoconf'
AUTOHEADER='${SHELL} '\''/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-install-wociuxbv/fastjet_0ce230ccca8c4a1697ccdb59887ef7c7/fastjet-core/missing'\'' autoheader'
AUTOMAKE='${SHELL} '\''/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-install-wociuxbv/fastjet_0ce230ccca8c4a1697ccdb59887ef7c7/fastjet-core/missing'\'' automake-1.16'
AWK='awk'
AX_SWIG_PYTHON_CPPFLAGS=''
AX_SWIG_PYTHON_OPT=''
BUILD_INCLUDES_SWIG_FALSE=''
BUILD_INCLUDES_SWIG_TRUE=''
BUILD_PLUGIN_ATLASCONE_FALSE=''
BUILD_PLUGIN_ATLASCONE_TRUE=''
BUILD_PLUGIN_CDFCONES_FALSE=''
BUILD_PLUGIN_CDFCONES_TRUE=''
BUILD_PLUGIN_CMSITERATIVECONE_FALSE=''
BUILD_PLUGIN_CMSITERATIVECONE_TRUE=''
BUILD_PLUGIN_D0RUNICONE_FALSE=''
BUILD_PLUGIN_D0RUNICONE_TRUE=''
BUILD_PLUGIN_D0RUNIICONE_FALSE=''
BUILD_PLUGIN_D0RUNIICONE_TRUE=''
BUILD_PLUGIN_EECAMBRIDGE_FALSE=''
BUILD_PLUGIN_EECAMBRIDGE_TRUE=''
BUILD_PLUGIN_GRIDJET_FALSE=''
BUILD_PLUGIN_GRIDJET_TRUE=''
BUILD_PLUGIN_JADE_FALSE=''
BUILD_PLUGIN_JADE_TRUE=''
BUILD_PLUGIN_NESTEDDEFS_FALSE=''
BUILD_PLUGIN_NESTEDDEFS_TRUE=''
BUILD_PLUGIN_PXCONE_FALSE=''
BUILD_PLUGIN_PXCONE_TRUE=''
BUILD_PLUGIN_SISCONE_FALSE=''
BUILD_PLUGIN_SISCONE_TRUE=''
BUILD_PLUGIN_TRACKJET_FALSE=''
BUILD_PLUGIN_TRACKJET_TRUE=''
BUILD_PYEXT_FALSE=''
BUILD_PYEXT_TRUE=''
CC='gcc'
CCDEPMODE='depmode=gcc3'
CFLAGS='-g -O2'
CGAL_CPPFLAGS=''
CGAL_LIBS=''
CONFIGURE_INVOCATION=''
CONFIG_CXXFLAGS=''
CONFIG_LIBS=' -lm '
CONFIG_LIBS_PLUGINS=''
CONFIG_LIBS_PLUGINS_STATIC=''
CONFIG_RUNPATH_FLAGS=''
CONFIG_SUMMARY=''
CPPFLAGS=''
CSCOPE='cscope'
CTAGS='ctags'
CXX='g++'
CXXCPP=''
CXXDEPMODE='depmode=gcc3'
CXXFLAGS='-O3 -Bstatic -lgmp -Bdynamic -std=c++17'
CYGPATH_W='echo'
D0_CXXFLAGS=''
DEFS=''
DEPDIR='.deps'
DLLTOOL=''
DSYMUTIL=''
DUMPBIN=''
ECHO_C='\c'
ECHO_N=''
ECHO_T=''
EGREP='/usr/bin/grep -E'
ETAGS='etags'
EXEEXT=''
F77=''
FC=''
FCFLAGS=''
FCLIBS=''
FFLAGS=''
FGREP=''
FILECMD=''
FLIBS=''
GREP='/usr/bin/grep'
HAS_RUNPATH_SUPPORT=''
HAS_SHARED='yes'
INSTALL_DATA='${INSTALL} -m 644'
INSTALL_PROGRAM='${INSTALL}'
INSTALL_SCRIPT='${INSTALL}'
INSTALL_STRIP_PROGRAM='$(install_sh) -c -s'
LD=''
LDFLAGS='-Wl,-rpath,$$ORIGIN/_fastjet_core/lib:$$ORIGIN'
LIBOBJS=''
LIBS='-lm '
LIBTOOL=''
LIPO=''
LIST_ALL_PLUGINS=''
LN_S='ln -s'
LTLIBOBJS=''
LT_SYS_LIBRARY_PATH=''
MAKEINFO='${SHELL} '\''/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-install-wociuxbv/fastjet_0ce230ccca8c4a1697ccdb59887ef7c7/fastjet-core/missing'\'' makeinfo'
MANIFEST_TOOL=''
MKDIR_P='./install-sh -c -d'
MONOLITHIC_PLUGINS_FALSE=''
MONOLITHIC_PLUGINS_TRUE=''
NM=''
NMEDIT=''
OBJDUMP=''
OBJEXT='o'
OTOOL64=''
OTOOL=''
PACKAGE='fastjet'
PACKAGE_BUGREPORT=''
PACKAGE_NAME='FastJet'
PACKAGE_STRING='FastJet 3.4.0'
PACKAGE_TARNAME='fastjet'
PACKAGE_URL=''
PACKAGE_VERSION='3.4.0'
PATH_SEPARATOR=':'
PYTHON='/Users/username/dev/.direnv/python-3.10.6/bin/python'
PYTHON_CONFIG=''
PYTHON_EXEC_PREFIX=''
PYTHON_INCLUDE='-I/Users/username/.pyenv/versions/3.10.6/include/python3.10'
PYTHON_PLATFORM=''
PYTHON_PREFIX=''
PYTHON_VERSION=''
RANLIB=''
SED='/usr/bin/sed'
SET_MAKE=''
SHELL='/bin/sh'
STRIP=''
SWIG=''
SWIG_LIB=''
VERSION='3.4.0'
ac_ct_AR=''
ac_ct_CC='gcc'
ac_ct_CXX='g++'
ac_ct_DUMPBIN=''
ac_ct_FC=''
am__EXEEXT_FALSE=''
am__EXEEXT_TRUE=''
am__fastdepCC_FALSE='#'
am__fastdepCC_TRUE=''
am__fastdepCXX_FALSE='#'
am__fastdepCXX_TRUE=''
am__include='include'
am__isrc=''
am__leading_dot='.'
am__nodep='_no'
am__quote=''
am__tar='false'
am__untar='false'
bindir='${exec_prefix}/bin'
build=''
build_alias=''
build_cpu=''
build_os=''
build_vendor=''
cxx_found='yes'
datadir='${datarootdir}'
datarootdir='${prefix}/share'
docdir='${datarootdir}/doc/${PACKAGE_TARNAME}'
dvidir='${docdir}'
exec_prefix='NONE'
host=''
host_alias=''
host_cpu=''
host_os=''
host_vendor=''
htmldir='${docdir}'
includedir='${prefix}/include'
infodir='${datarootdir}/info'
install_sh='${SHELL} /private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-install-wociuxbv/fastjet_0ce230ccca8c4a1697ccdb59887ef7c7/fastjet-core/install-sh'
libdir='${exec_prefix}/lib'
libexecdir='${exec_prefix}/libexec'
localedir='${datarootdir}/locale'
localstatedir='${prefix}/var'
mandir='${datarootdir}/man'
mkdir_p='$(MKDIR_P)'
oldincludedir='/usr/include'
pdfdir='${docdir}'
pkgpyexecdir=''
pkgpythondir=''
prefix='/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-install-wociuxbv/fastjet_0ce230ccca8c4a1697ccdb59887ef7c7/src/fastjet/_fastjet_core'
program_transform_name='s,x,x,'
psdir='${docdir}'
pyexecdir=''
pythondir=''
runstatedir='${localstatedir}/run'
sbindir='${exec_prefix}/sbin'
sharedstatedir='${prefix}/com'
subdirs=''
sysconfdir='${prefix}/etc'
target_alias=''
## ----------- ##
## confdefs.h. ##
## ----------- ##
/* confdefs.h */
#define PACKAGE_NAME "FastJet"
#define PACKAGE_TARNAME "fastjet"
#define PACKAGE_VERSION "3.4.0"
#define PACKAGE_STRING "FastJet 3.4.0"
#define PACKAGE_BUGREPORT ""
#define PACKAGE_URL ""
#define PACKAGE "fastjet"
#define VERSION "3.4.0"
#define HAVE_STDIO_H 1
#define HAVE_STDLIB_H 1
#define HAVE_STRING_H 1
#define HAVE_INTTYPES_H 1
#define HAVE_STDINT_H 1
#define HAVE_STRINGS_H 1
#define HAVE_SYS_STAT_H 1
#define HAVE_SYS_TYPES_H 1
#define HAVE_UNISTD_H 1
#define STDC_HEADERS 1
#define HAVE_CXX14_DEPRECATED /**/
#define HAVE_GNUCXX_DEPRECATED /**/
#define HAVE_EXECINFO_H 1
#define HAVE_LIBM 1
configure: exit 1
Traceback (most recent call last):
File "/Users/username/dev/.direnv/python-3.10.6/lib/python3.10/site-packages/pip/_vendor/pep517/in_process/_in_process.py", line 363, in <module>
main()
File "/Users/username/development/.direnv/python-3.10.6/lib/python3.10/site-packages/pip/_vendor/pep517/in_process/_in_process.py", line 345, in main
json_out['return_val'] = hook(**hook_input['kwargs'])
File "/Users/username/dev/.direnv/python-3.10.6/lib/python3.10/site-packages/pip/_vendor/pep517/in_process/_in_process.py", line 261, in build_wheel
return _build_backend().build_wheel(wheel_directory, config_settings,
File "/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-build-env-4375zgzn/overlay/lib/python3.10/site-packages/setuptools/build_meta.py", line 413, in build_wheel
return self._build_with_temp_dir(['bdist_wheel'], '.whl',
File "/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-build-env-4375zgzn/overlay/lib/python3.10/site-packages/setuptools/build_meta.py", line 398, in _build_with_temp_dir
self.run_setup()
File "/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-build-env-4375zgzn/overlay/lib/python3.10/site-packages/setuptools/build_meta.py", line 335, in run_setup
exec(code, locals())
File "<string>", line 190, in <module>
File "/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-build-env-4375zgzn/overlay/lib/python3.10/site-packages/setuptools/__init__.py", line 108, in setup
return distutils.core.setup(**attrs)
File "/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-build-env-4375zgzn/overlay/lib/python3.10/site-packages/setuptools/_distutils/core.py", line 185, in setup
return run_commands(dist)
File "/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-build-env-4375zgzn/overlay/lib/python3.10/site-packages/setuptools/_distutils/core.py", line 201, in run_commands
dist.run_commands()
File "/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-build-env-4375zgzn/overlay/lib/python3.10/site-packages/setuptools/_distutils/dist.py", line 969, in run_commands
self.run_command(cmd)
File "/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-build-env-4375zgzn/overlay/lib/python3.10/site-packages/setuptools/dist.py", line 1221, in run_command
super().run_command(command)
File "/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-build-env-4375zgzn/overlay/lib/python3.10/site-packages/setuptools/_distutils/dist.py", line 988, in run_command
cmd_obj.run()
File "/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-build-env-4375zgzn/normal/lib/python3.10/site-packages/wheel/bdist_wheel.py", line 343, in run
self.run_command("build")
File "/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-build-env-4375zgzn/overlay/lib/python3.10/site-packages/setuptools/_distutils/cmd.py", line 318, in run_command
self.distribution.run_command(command)
File "/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-build-env-4375zgzn/overlay/lib/python3.10/site-packages/setuptools/dist.py", line 1221, in run_command
super().run_command(command)
File "/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-build-env-4375zgzn/overlay/lib/python3.10/site-packages/setuptools/_distutils/dist.py", line 988, in run_command
cmd_obj.run()
File "/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-build-env-4375zgzn/overlay/lib/python3.10/site-packages/setuptools/_distutils/command/build.py", line 131, in run
self.run_command(cmd_name)
File "/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-build-env-4375zgzn/overlay/lib/python3.10/site-packages/setuptools/_distutils/cmd.py", line 318, in run_command
self.distribution.run_command(command)
File "/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-build-env-4375zgzn/overlay/lib/python3.10/site-packages/setuptools/dist.py", line 1221, in run_command
super().run_command(command)
File "/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-build-env-4375zgzn/overlay/lib/python3.10/site-packages/setuptools/_distutils/dist.py", line 988, in run_command
cmd_obj.run()
File "/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-build-env-4375zgzn/overlay/lib/python3.10/site-packages/setuptools/command/build_ext.py", line 84, in run
_build_ext.run(self)
File "/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-build-env-4375zgzn/overlay/lib/python3.10/site-packages/setuptools/_distutils/command/build_ext.py", line 345, in run
self.build_extensions()
File "<string>", line 97, in build_extensions
File "/Users/username/.pyenv/versions/3.10.6/lib/python3.10/subprocess.py", line 524, in run
raise CalledProcessError(retcode, process.args,
subprocess.CalledProcessError: Command '['./autogen.sh', '--prefix=/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-install-wociuxbv/fastjet_0ce230ccca8c4a1697ccdb59887ef7c7/src/fastjet/_fastjet_core', '--disable-auto-ptr', '--enable-allcxxplugins', '--enable-cgal-header-only', '--enable-cgal', '--with-cgaldir=/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-install-wociuxbv/fastjet_0ce230ccca8c4a1697ccdb59887ef7c7/CGAL-5.5.1', '--enable-swig', '--enable-pyext', 'LDFLAGS=-Wl,-rpath,$$ORIGIN/_fastjet_core/lib:$$ORIGIN']' returned non-zero exit status 1.
[end of output]
note: This error originates from a subprocess, and is likely not a problem with pip.
ERROR: Failed building wheel for fastjet
Failed to build fastjet
ERROR: Could not build wheels for fastjet, which is required to install pyproject.toml-based projects
[notice] A new release of pip available: 22.2.1 -> 23.0.1
[notice] To update, run: pip install --upgrade pip
Can you try after installing the following?
brew install make gcc automake swig gmp mpfr boost
I had all of them installed already. I still did a brew reinstall make gcc automake swig gmp mpfr boost just in case. Error message does not change.
Okay. Can you try the following just in case it works better?
git clone --recursive https://github.com/scikit-hep/fastjet.git
cd fastjet
pip install .
FWIW I get the same error on my M1 MBP running latest Ventura. There's some messiness with the build environment I can't figure out. I ended up just building in a debian python container and bind-mounting fastjet!
It looks like it can't find the brew installed gmp. Perhaps something like the following could help
CXXFLAGS=-I`brew --prefix gmp`/include LDFLAGS=-L`brew --prefix gmp`/lib pip install .
However, we override these in setup.py...
If you are feeling brave you could add them to your local setup.py and try again with pip install .
@chrispap95 I tried the one with CXXFLAGS but I see no difference, probably because this is overridden in setup.py as you pointed out.
I also edited the lines in setup.py at env["CXXFLAGS"] = "-O3 -Bstatic -lgmp -Bdynamic -std=c++17" and "CXXFLAGS=-O3 -Bstatic -Bdynamic -std=c++17",.
I still don't see any changes in the log.
I am afraid I can't do much since I don't have a machine with Apple silicon. Can you try the following? Just to see if it can find gmp.
cat >> test.c << "EOF"
#include <gmp.h>
int main(){return 0;}
EOF
gcc -o test test.c -lgmp
If the last line fails, then try with
gcc -o test test.c -I`brew --prefix gmp`/include -L`brew --prefix gmp`/lib
If this fails as well, then I have really no idea how to get this working.
I am afraid I can't do much since I don't have a machine with Apple silicon. Can you try the following? Just to see if it can find gmp.
cat >> test.c << "EOF" #include <gmp.h> int main(){return 0;} EOF gcc -o test test.c -lgmpIf the last line fails, then try with
Yes, the last line failed.
gcc -o test test.c -I`brew --prefix gmp`/include -L`brew --prefix gmp`/lib
This did not fail. So, maybe we know where the problem is?
If this fails as well, then I have really no idea how to get this working.
Okay, very interesting. So these flags seem to work but we need to figure out how to pass them to pip. How did you add them to setup.py? What I would expect to work is the following: https://github.com/scikit-hep/fastjet/blob/apple_silicon/setup.py
You could try this by changing to the branch apple_silicon and trying again with pip install .
Hmm, this does not work. Here are the initial lines of the log I got.
log:
× Building wheel for fastjet (pyproject.toml) did not run successfully.
│ exit code: 1
╰─> [1345 lines of output]
/private/var/folders/0g/n7p18ft16y3_8bwz00w_1kw81ymyr5/T/pip-build-env-74pl2dyu/overlay/lib/python3.10/site-packages/setuptools/config/setupcfg.py:516: SetuptoolsDeprecationWarning: The license_file parameter is deprecated, use license_files instead.
warnings.warn(msg, warning_class)
running bdist_wheel
running build
running build_py
running egg_info
writing src/fastjet.egg-info/PKG-INFO
writing dependency_links to src/fastjet.egg-info/dependency_links.txt
writing requirements to src/fastjet.egg-info/requires.txt
writing top-level names to src/fastjet.egg-info/top_level.txt
reading manifest template 'MANIFEST.in'
adding license file 'LICENSE'
writing manifest file 'src/fastjet.egg-info/SOURCES.txt'
running build_ext
patching file pyinterface/fastjet.i
Reversed (or previously applied) patch detected! Assume -R? [n]
Apply anyway? [n]
Skipping patch.
1 out of 1 hunk ignored -- saving rejects to file pyinterface/fastjet.i.rej
patching file src/ClusterSequence.cc
Reversed (or previously applied) patch detected! Assume -R? [n]
Apply anyway? [n]
Skipping patch.
2 out of 2 hunks ignored -- saving rejects to file src/ClusterSequence.cc.rej
./autogen.sh: line 34: [: too many arguments
processing .
Running libtoolize...
glibtoolize: putting auxiliary files in '.'.
glibtoolize: copying file './ltmain.sh'
glibtoolize: putting macros in 'm4'.
glibtoolize: copying file 'm4/libtool.m4'
glibtoolize: copying file 'm4/ltoptions.m4'
glibtoolize: copying file 'm4/ltsugar.m4'
glibtoolize: copying file 'm4/ltversion.m4'
glibtoolize: copying file 'm4/lt~obsolete.m4'
glibtoolize: Consider adding 'AC_CONFIG_MACRO_DIRS([m4])' to configure.ac,
glibtoolize: and rerunning glibtoolize and aclocal.
Running aclocal -I m4 ...
Running automake --gnu ...
configure.ac:50: installing './compile'
configure.ac:3: installing './missing'
example/Makefile.am: installing './depcomp'
pyinterface/Makefile.am:82: warning: eval AM_LIBTOOLFLAGS = "--silent": non-POSIX variable name
pyinterface/Makefile.am:82: (probably a GNU make extension)
pyinterface/Makefile.am:87: warning: eval AM_LIBTOOLFLAGS = "": non-POSIX variable name
pyinterface/Makefile.am:87: (probably a GNU make extension)
Running autoconf ...
configure.ac:88: warning: The macro `AC_STDC_HEADERS' is obsolete.
configure.ac:88: You should run autoupdate.
./lib/autoconf/oldnames.m4:75: AC_STDC_HEADERS is expanded from...
configure.ac:88: the top level
configure.ac:88: warning: The macro `AC_HEADER_STDC' is obsolete.
configure.ac:88: You should run autoupdate.
./lib/autoconf/headers.m4:704: AC_HEADER_STDC is expanded from...
./lib/autoconf/oldnames.m4:75: AC_STDC_HEADERS is expanded from...
configure.ac:88: the top level
configure.ac:303: warning: The macro `AM_ENABLE_SHARED' is obsolete.
configure.ac:303: You should run autoupdate.
m4/ltoptions.m4:205: AM_ENABLE_SHARED is expanded from...
configure.ac:303: the top level
configure.ac:342: warning: The macro `AC_HELP_STRING' is obsolete.
configure.ac:342: You should run autoupdate.
./lib/autoconf/general.m4:204: AC_HELP_STRING is expanded from...
./lib/autoconf/general.m4:1553: AC_ARG_WITH is expanded from...
m4/CGAL.m4:15: ACX_CHECK_CGAL is expanded from...
configure.ac:342: the top level
configure.ac:342: warning: The macro `AC_ERROR' is obsolete.
configure.ac:342: You should run autoupdate.
./lib/autoconf/oldnames.m4:34: AC_ERROR is expanded from...
m4/CGAL.m4:15: ACX_CHECK_CGAL is expanded from...
configure.ac:342: the top level
configure.ac:491: warning: The macro `AC_PROG_LIBTOOL' is obsolete.
configure.ac:491: You should run autoupdate.
m4/libtool.m4:100: AC_PROG_LIBTOOL is expanded from...
configure.ac:491: the top level
configure.ac:647: warning: The macro `SWIG_ENABLE_CXX' is obsolete.
configure.ac:647: You should run autoupdate.
m4/ax_swig_enable_cxx.m4:48: SWIG_ENABLE_CXX is expanded from...
configure.ac:647: the top level
configure.ac:648: warning: The macro `SWIG_PYTHON' is obsolete.
configure.ac:648: You should run autoupdate.
m4/ax_swig_python.m4:57: SWIG_PYTHON is expanded from...
configure.ac:648: the top level
processing ./plugins/SISCone/siscone
Running libtoolize...
glibtoolize: putting auxiliary files in '.'.
glibtoolize: copying file './ltmain.sh'
glibtoolize: putting macros in 'm4'.
glibtoolize: copying file 'm4/libtool.m4'
glibtoolize: copying file 'm4/ltoptions.m4'
glibtoolize: copying file 'm4/ltsugar.m4'
glibtoolize: copying file 'm4/ltversion.m4'
glibtoolize: copying file 'm4/lt~obsolete.m4'
glibtoolize: Consider adding 'AC_CONFIG_MACRO_DIRS([m4])' to configure.ac,
glibtoolize: and rerunning glibtoolize and aclocal.
Running aclocal -I m4 ...
Running automake --gnu ...
configure.ac:21: installing './compile'
configure.ac:3: installing './missing'
examples/Makefile.am: installing './depcomp'
Running autoconf ...
configure.ac:36: warning: The macro `AC_STDC_HEADERS' is obsolete.
configure.ac:36: You should run autoupdate.
./lib/autoconf/oldnames.m4:75: AC_STDC_HEADERS is expanded from...
configure.ac:36: the top level
configure.ac:36: warning: The macro `AC_HEADER_STDC' is obsolete.
configure.ac:36: You should run autoupdate.
./lib/autoconf/headers.m4:704: AC_HEADER_STDC is expanded from...
./lib/autoconf/oldnames.m4:75: AC_STDC_HEADERS is expanded from...
configure.ac:36: the top level
configure.ac:73: warning: The macro `AC_PROG_LIBTOOL' is obsolete.
configure.ac:73: You should run autoupdate.
m4/libtool.m4:100: AC_PROG_LIBTOOL is expanded from...
configure.ac:73: the top level
configure.ac:98: warning: AC_OUTPUT should be used without arguments.
configure.ac:98: You should run autoupdate.
Running ./configure --prefix=/Users/username/dev/fastjet/src/fastjet/_fastjet_core --enable-thread-safety --disable-auto-ptr --enable-allcxxplugins --enable-cgal-header-only --enable-cgal --with-cgaldir=/Users/username/dev/fastjet/CGAL-5.5.1 --enable-swig --enable-pyext LDFLAGS=-Wl,-rpath,$$ORIGIN/_fastjet_core/lib:$$ORIGIN,-L`brew --prefix gmp`/lib ...
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a race-free mkdir -p... ./install-sh -c -d
checking for gawk... no
checking for mawk... no
checking for nawk... no
checking for awk... awk
checking whether make sets $(MAKE)... yes
checking whether make supports nested variables... yes
checking whether UID '65698565' is supported by ustar format... no
checking whether GID '1527229786' is supported by ustar format... no
checking how to create a ustar tar archive... none
checking whether make supports the include directive... yes (GNU style)
checking for gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables...
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether the compiler supports GNU C... yes
checking whether gcc accepts -g... yes
checking for gcc option to enable C11 features... none needed
checking whether gcc understands -c and -o together... yes
checking dependency style of gcc... gcc3
checking for stdio.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for strings.h... yes
checking for sys/stat.h... yes
checking for sys/types.h... yes
checking for unistd.h... yes
checking for int... yes
checking for long... yes
checking for g++... g++
checking whether the compiler supports GNU C++... yes
checking whether g++ accepts -g... yes
checking for g++ option to enable C++11 features... none needed
checking dependency style of g++... gcc3
checking for g++... yes
checking whether ln -s works... yes
checking for a sed that does not truncate output... /usr/bin/sed
checking whether make sets $(MAKE)... (cached) yes
checking for grep that handles long lines and -e... /usr/bin/grep
checking for egrep... /usr/bin/grep -E
checking if g++ supports -Woverloaded-virtual flag... yes
configure: WARNING: Thread safety uses C++11 features and may require additional compiler arguments, these have to be specified by the user
checking if g++ -O3 -Bstatic -lgmp -Bdynamic -std=c++17 -I`brew --prefix gmp`/include supports the "[[deprecated]]" keyword... yes
checking if g++ -O3 -Bstatic -lgmp -Bdynamic -std=c++17 -I`brew --prefix gmp`/include supports the "__attribute__((deprecated))" keyword... yes
checking if g++ -O3 -Bstatic -lgmp -Bdynamic -std=c++17 -I`brew --prefix gmp`/include supports the "override" keyword... no
checking if g++ -g -Woverloaded-virtual -O3 -Bstatic -lgmp -Bdynamic -std=c++17 -I`brew --prefix gmp`/include supports the "[[deprecated]]" keyword... no
checking if g++ -g -Woverloaded-virtual -O3 -Bstatic -lgmp -Bdynamic -std=c++17 -I`brew --prefix gmp`/include supports the "__attribute__((deprecated))" keyword... no
checking if g++ -g -Woverloaded-virtual -O3 -Bstatic -lgmp -Bdynamic -std=c++17 -I`brew --prefix gmp`/include supports the "override" keyword... no
checking if g++ -g -Woverloaded-virtual -O3 -Bstatic -lgmp -Bdynamic -std=c++17 -I`brew --prefix gmp`/include supports the "explicit" keyword for operators... no
checking for execinfo.h... yes
checking for cos in -lm... yes
checking CGAL_MAKEFILE... not specified
checking whether C++ compiler accepts -frounding-math -Werror... no
checking whether C++ compiler accepts -fp-model strict -Werror... no
checking CGAL in /Users/username/dev/fastjet/CGAL-5.5.1... lib
checking for gmp.h... no
checking for main in -lgmp... no
configure: error: CGAL explicitly requested and not found or not functional
This file contains any messages produced by compilers while
running configure, to aid debugging if configure makes a mistake.
It was created by FastJet configure 3.4.0, which was
generated by GNU Autoconf 2.71. Invocation command line was
$ ./configure --prefix=/Users/username/dev/fastjet/src/fastjet/_fastjet_core --enable-thread-safety --disable-auto-ptr --enable-allcxxplugins --enable-cgal-header-only --enable-cgal --with-cgaldir=/Users/username/dev/fastjet/CGAL-5.5.1 --enable-swig --enable-pyext 'LDFLAGS=-Wl,-rpath,$$ORIGIN/_fastjet_core/lib:$$ORIGIN,-L`brew --prefix gmp`/lib'
It seems like this is related. https://github.com/microsoft/vcpkg/issues/15956
If the rest of the printout looks the same as before, then I have no idea what to try next, and without a machine available to experiment I can't go wild with trials to fix this. The solution that Lindsey provided doesn't look that bad. Maybe try that instead?
Thanks a lot @chrispap95 for the help. Do you have a sample docker-compose.yaml @lgray for me to get started with?
docker run -it --rm --entrypoint=/bin/bash -v /path/to/fastjet:/root/fastjet python:3.10-bullseye
You'll have to apt install packages and such to build, you might want to make your own Dockerfile for sanity's sake. Since I was doing a one-off I didn't make one.
I recently got access to an Apple silicon (M2) machine that I can use for dev work as well. I haven't done local dev work on an Apple computer for about 12 years at this point (👴) so while I know that brew seems to be the only feasible way to do dev work on a Mac I'm curious if it would be possible to setup a dev environment using only conda-forge. Hopefully some of you can tell me if this is a terrible idea or not.
At the moment I have a dev-macosx-arm64-environment.yml that I'm working on expanding
name: fastjet-dev
channels:
- conda-forge
dependencies:
- python=3.11
- autoconf
- automake
- cgal-cpp
- gmp
- libtool
- make
- patch
- pybind11
- swig
removal of the cgal local download and setup from setup.py
- zip_filename = DIR / pathlib.Path(CGAL_ZIP).parts[-1]
-
- with urllib.request.urlopen(CGAL_ZIP) as http_obj:
- with open(zip_filename, "wb") as file_obj:
- shutil.copyfileobj(http_obj, file_obj)
-
- with zipfile.ZipFile(zip_filename) as zip_obj:
- cgal_dir = DIR / zip_obj.namelist()[0]
- zip_obj.extractall(DIR)
-
...
- f"--with-cgaldir={cgal_dir}",
and a build.sh script to reset the state of the fastjet-core submodule
#!/bin/bash
rm -rf CGAL-5.6*
rm -rf build
cd fastjet-core
git reset --hard fastjet-3.4.2
cd ..
python -m pip install --upgrade --verbose .
So far I'm failing extremely early
...
Detected Mac OSX
On Mac OSX, ./autogen.sh requires the GNU libtool and libtoolize scripts,
renamed glibtol and glibtoolize respectively by Apple to avoid
conflict with Apple-provided libtool.
They should be already installed, together with Apple developer tools,
in /usr/bin. If you see this message, they are not.
...
but I'm curious if this is possible at all to do with just conda-forge.
Using the changes from PR #315, I've found that it is possible to build using conda-forge tooling if the block
# change executable names when running on Macs
# if test x`uname` = xDarwin; then
if [ `uname` == "Darwin" ]; then
echo "Detected Mac OSX"
if [ x$(which glibtool) == "x" ]; then
echo ""
echo "On Mac OSX, $0 requires the GNU libtool and libtoolize scripts,"
echo "renamed glibtol and glibtoolize respectively by Apple to avoid"
echo "conflict with Apple-provided libtool."
echo ""
echo "They should be already installed, together with Apple developer tools,"
echo "in /usr/bin. If you see this message, they are not."
echo ""
echo "The GNU version can be retrieved from http://ftp.gnu.org/gnu/libtool/."
echo "If they are (re)installed from sources in a different location,"
echo "autogen.sh should then be modified accordingly."
exit
fi
LIBTOOL=glibtool
LIBTOOLIZE=glibtoolize
fi
from the FastJet C++ source code's autogen.sh is removed (this should get fixed upstream to be ignored if CONDA_PREFIX is in the environment) and then a build script like
export CXXFLAGS="-I${CONDA_PREFIX}/include"
export LDFLAGS="-L${CONDA_PREFIX}/lib"
unset HOMEBREW_PREFIX
python -m pip install --upgrade --verbose .
is used. The overriding of CXXFLAGS and LDFLAGS isn't good, but until there's a better solution (maybe related to Issue #300) this works for local only builds.
This text is wrong. Apple doesn't rename tools to provide "g
this should get fixed upstream to be ignored if
CONDA_PREFIXis in the environment
I would try glibtool if it exists, then fall back on libtool. Doesn't matter what platform it's on, or if Conda-build / conda-forge is installed.
This text is wrong. Apple doesn't rename tools to provide "g". They don't / can't provide GNU licensed tools. Homebrew provides g-prefixed utilities to avoid conflicting with Apple's BSD utilities.
@henryiii Yup. c.f. https://gitlab.com/fastjet/fastjet/-/merge_requests/5 where I correct this.
I would try glibtool if it exists, then fall back on libtool. Doesn't matter what platform it's on, or if Conda-build / conda-forge is installed.
Hm, maybe you can comment on my MR (https://gitlab.com/fastjet/fastjet/-/merge_requests/5) to provide additional context so that the FastJet team will see it too? I don't disagree necessarily, but that's a departure from their defaults.
edit: I applied your suggestions to the MR. They were a nice improvement!
Though I understand the point of trying for the exceptional case and then fall back to a default, so I'll implement that in the MR tomorrow.
(There's a way in homebrew to expose the non-g-prefixed tools, as well)
Yeah,
export PATH="${HOMEBREW_PREFIX}/opt/<toolname>/libexec/gnubin:${PATH}"