CGAL explicitly requested and not found or not functional #193
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Unfortunately, we don't have binaries for Apple silicon yet which means that fastjet has to be compiled by pip locally. |
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The error message is more than 1300 lines. Here it is. Error log: |
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Can you try after installing the following? |
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I had all of them installed already. I still did a |
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Okay. Can you try the following just in case it works better? |
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That also does not help. I get the same error. |
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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! |
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It looks like it can't find the brew installed gmp. Perhaps something like the following could help However, we override these in setup.py... |
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@chrispap95 I tried the one with I also edited the lines in I still don't see any changes in the log. |
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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 gcc -o test test.c -I`brew --prefix gmp`/include -L`brew --prefix gmp`/libIf this fails as well, then I have really no idea how to get this working. |
Yes, the last line failed.
This did not fail. So, maybe we know where the problem is?
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Okay, very interesting. So these flags seem to work but we need to figure out how to pass them to You could try this by changing to the branch |
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Hmm, this does not work. Here are the initial lines of the log I got. log: |
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It seems like this is related. |
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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? |
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Thanks a lot @chrispap95 for the help. Do you have a sample |
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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. |
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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 At the moment I have a name: fastjet-dev
channels:
- conda-forge
dependencies:
- python=3.11
- autoconf
- automake
- cgal-cpp
- gmp
- libtool
- make
- patch
- pybind11
- swigremoval of the ... and a #!/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 but I'm curious if this is possible at all to do with just conda-forge. |
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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, $0 requires the GNU libtool and libtoolize scripts,"
echo "renamed glibtol and glibtoolize respectively by Apple to avoid"
echo "conflict with Apple-provided libtool."
echo ""
echo "They should be already installed, together with Apple developer tools,"
echo "in /usr/bin. If you see this message, they are not."
echo ""
echo "The GNU version can be retrieved from http://ftp.gnu.org/gnu/libtool/."
echo "If they are (re)installed from sources in a different location,"
echo "autogen.sh should then be modified accordingly."
exit
fi
LIBTOOL=glibtool
LIBTOOLIZE=glibtoolize
fifrom the export CXXFLAGS="-I${CONDA_PREFIX}/include"
export LDFLAGS="-L${CONDA_PREFIX}/lib"
unset HOMEBREW_PREFIX
python -m pip install --upgrade --verbose .is used. The overriding of |
This was referenced Sep 15, 2024
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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.
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. |
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(There's a way in homebrew to expose the non-g-prefixed tools, as well) |
@henryiii Yup. c.f. https://gitlab.com/fastjet/fastjet/-/merge_requests/5 where I correct this.
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.
Yeah, |
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Trying to
pip install fastjeton Mac M2, but getting errors like CGAL not found.Steps taken:
brew install cgal. This installs CGAL 5.5.2.pip install --upgrade pip wheelbrew install cgal gmp wget.But so far nothing helped. Any ideas?
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