A fast, scalable and light-weight C++ Fréchet and DTW distance library, exposed to python and focused on clustering of polygonal curves.
Home Page: https://pypi.org/project/Fred-Frechet/
License: MIT License
Hi, I am unable to install the package because of boost_python in ubuntu 18.04. I think it maybe because of I installed miniconda3. I tried changing the python path in install boost 1.74.0 and also "-DPYTHON_EXECUTABLE" in setup.py, but it still does not work. The full error message can be found in the following.
cd py && /usr/bin/python3 ./setup.py install --user
running install
running bdist_egg
running egg_info
writing Fred.egg-info/PKG-INFO
writing dependency_links to Fred.egg-info/dependency_links.txt
writing requirements to Fred.egg-info/requires.txt
writing top-level names to Fred.egg-info/top_level.txt
reading manifest file 'Fred.egg-info/SOURCES.txt'
writing manifest file 'Fred.egg-info/SOURCES.txt'
installing library code to build/bdist.linux-x86_64/egg
running install_lib
running build_py
running build_ext
CMake Error at /home/ubuntu/miniconda3/envs/tra/lib/cmake/Boost-1.74.0/BoostConfig.cmake:141 (find_package):
Could not find a package configuration file provided by "boost_python"
(requested version 1.74.0) with any of the following names:
boost_pythonConfig.cmake
boost_python-config.cmake
Add the installation prefix of "boost_python" to CMAKE_PREFIX_PATH or set
"boost_python_DIR" to a directory containing one of the above files. If
"boost_python" provides a separate development package or SDK, be sure it
has been installed.
Call Stack (most recent call first):
/home/ubuntu/miniconda3/envs/tra/lib/cmake/Boost-1.74.0/BoostConfig.cmake:258 (boost_find_component)
/home/ubuntu/cmake-3.17.5-Linux-x86_64/share/cmake-3.17/Modules/FindBoost.cmake:444 (find_package)
CMakeLists.txt:21 (find_package)
-- Configuring incomplete, errors occurred!
See also "/home/ubuntu/Program/Fred/py/build/temp.linux-x86_64-3.8/CMakeFiles/CMakeOutput.log".
Traceback (most recent call last):
File "./setup.py", line 77, in <module>
setup(
File "/usr/lib/python3/dist-packages/setuptools/__init__.py", line 129, in setup
return distutils.core.setup(**attrs)
File "/usr/lib/python3.8/distutils/core.py", line 148, in setup
dist.run_commands()
File "/usr/lib/python3.8/distutils/dist.py", line 966, in run_commands
self.run_command(cmd)
File "/usr/lib/python3.8/distutils/dist.py", line 985, in run_command
cmd_obj.run()
File "/usr/lib/python3/dist-packages/setuptools/command/install.py", line 67, in run
self.do_egg_install()
File "/usr/lib/python3/dist-packages/setuptools/command/install.py", line 109, in do_egg_install
self.run_command('bdist_egg')
File "/usr/lib/python3.8/distutils/cmd.py", line 313, in run_command
self.distribution.run_command(command)
File "/usr/lib/python3.8/distutils/dist.py", line 985, in run_command
cmd_obj.run()
File "/usr/lib/python3/dist-packages/setuptools/command/bdist_egg.py", line 172, in run
cmd = self.call_command('install_lib', warn_dir=0)
File "/usr/lib/python3/dist-packages/setuptools/command/bdist_egg.py", line 158, in call_command
self.run_command(cmdname)
File "/usr/lib/python3.8/distutils/cmd.py", line 313, in run_command
self.distribution.run_command(command)
File "/usr/lib/python3.8/distutils/dist.py", line 985, in run_command
cmd_obj.run()
File "/usr/lib/python3/dist-packages/setuptools/command/install_lib.py", line 24, in run
self.build()
File "/usr/lib/python3.8/distutils/command/install_lib.py", line 109, in build
self.run_command('build_ext')
File "/usr/lib/python3.8/distutils/cmd.py", line 313, in run_command
self.distribution.run_command(command)
File "/usr/lib/python3.8/distutils/dist.py", line 985, in run_command
cmd_obj.run()
File "./setup.py", line 36, in run
self.build_extension(ext)
File "./setup.py", line 72, in build_extension
subprocess.check_call(['cmake', "{}/..".format(ext.sourcedir)] + cmake_args,
File "/usr/lib/python3.8/subprocess.py", line 364, in check_call
raise CalledProcessError(retcode, cmd)
subprocess.CalledProcessError: Command '['cmake', '/home/ubuntu/Program/Fred/py/..', '-DBPY=python38', '-DBNPY=numpy38', '-DBOOST_ROOT=~/boost', '-DBOOST_LIBRARYDIR=~/boost/lib', '-DCMAKE_LIBRARY_OUTPUT_DIRECTORY=/home/ubuntu/Program/Fred/py/build/lib.linux-x86_64-3.8/Fred', '-DPYTHON_EXECUTABLE=/home/ubuntu/miniconda3/envs/tra/bin/python', '-DCMAKE_BUILD_TYPE=Release']' returned non-zero exit status 1.
Makefile:9: recipe for target 'install' failed
make: *** [install] Error 1Fred/include/simplification.hpp
Line 113 in 98b8f5a
The referenced line should be executed one time less. On the last iteration of the loop 'ell' becomes -1, which is a bug. As a workaround this line can be prefixed with something like 'if (i < l - 1)' or 'if (ell)' like below:
curve_size_t ell = l;
result.push_back(curve.back());
curve_size_t predecessor = predecessors[curve.complexity() - 1][--ell];
for (curve_size_t i = 0; i < l; ++i) {
result.push_back(curve[predecessor]);
if (i < l - 1) // or if (ell)
predecessor = predecessors[predecessor][--ell];
}
In the README.md, multiple call of discrete_klcenter and discrete_klmedian should be fred.discrete_klcenter_multi and fred.discrete_klmedian_multi respectively.
Is it possible to provide examples of using fred.discrete_klcenter_multi and fred.discrete_klmedian_multi in the mini-example?
clustering = fred.discrete_klcenter(2,, 100, curves)
should be
clustering = fred.discrete_klcenter(2, 100, curves).
By the way, how long does it take you to finish the clustering using the large curve data?
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