hdbscan
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Published
20 hours ago •
scikit-learn-contrib
scikit-learn-contrib
Failed: pipenv install hdbscan
Getting the following error while trying to install hdbscan using pipenv. I am using python version 3.8 and pip version 21
Building wheels for collected packages: hdbscan Building wheel for hdbscan (pyproject.toml): started Building wheel for hdbscan (pyproject.toml): finished with status 'error' Failed to build hdbscan
error: subprocess-exited-with-error
× Building wheel for hdbscan (pyproject.toml) did not run successfully. │ exit code: 1 ╰─> [124 lines of output] running bdist_wheel running build running build_py warning: build_py: byte-compiling is disabled, skipping.
running build_ext
cythoning hdbscan/_hdbscan_tree.pyx to hdbscan/_hdbscan_tree.c
cythoning hdbscan/_hdbscan_linkage.pyx to hdbscan/_hdbscan_linkage.c
cythoning hdbscan/_hdbscan_boruvka.pyx to hdbscan/_hdbscan_boruvka.c
cythoning hdbscan/_hdbscan_reachability.pyx to hdbscan/_hdbscan_reachability.c
cythoning hdbscan/_prediction_utils.pyx to hdbscan/_prediction_utils.c
cythoning hdbscan/dist_metrics.pyx to hdbscan/dist_metrics.c
building 'hdbscan._hdbscan_tree' extension
In file included from hdbscan/_hdbscan_tree.c:6:
In file included from /Library/Developer/CommandLineTools/Library/Frameworks/Python3.framework/Versions/3.8/include/python3.8/Python.h:11:
In file included from /Library/Developer/CommandLineTools/usr/lib/clang/12.0.0/include/limits.h:21:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/limits.h:63:
/Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/sys/cdefs.h:807:2: error: Unsupported architecture
#error Unsupported architecture
^
In file included from hdbscan/_hdbscan_tree.c:6:
In file included from /Library/Developer/CommandLineTools/Library/Frameworks/Python3.framework/Versions/3.8/include/python3.8/Python.h:11:
In file included from /Library/Developer/CommandLineTools/usr/lib/clang/12.0.0/include/limits.h:21:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/limits.h:64:
/Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/machine/limits.h:8:2: error: architecture not supported
#error architecture not supported
^
In file included from hdbscan/_hdbscan_tree.c:6:
In file included from /Library/Developer/CommandLineTools/Library/Frameworks/Python3.framework/Versions/3.8/include/python3.8/Python.h:25:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/stdio.h:64:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/_stdio.h:71:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/_types.h:27:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/sys/_types.h:33:
/Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/machine/_types.h:34:2: error: architecture not supported
#error architecture not supported
^
In file included from hdbscan/_hdbscan_tree.c:6:
In file included from /Library/Developer/CommandLineTools/Library/Frameworks/Python3.framework/Versions/3.8/include/python3.8/Python.h:25:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/stdio.h:64:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/_stdio.h:71:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/_types.h:27:
/Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/sys/_types.h:55:9: error: unknown type name '__int64_t'
typedef __int64_t __darwin_blkcnt_t; /* total blocks */
^
/Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/sys/_types.h:56:9: error: unknown type name '__int32_t'; did you mean '__int128_t'?
typedef __int32_t __darwin_blksize_t; /* preferred block size */
^
note: '__int128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/sys/_types.h:57:9: error: unknown type name '__int32_t'; did you mean '__int128_t'?
typedef __int32_t __darwin_dev_t; /* dev_t */
^
note: '__int128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/sys/_types.h:60:9: error: unknown type name '__uint32_t'; did you mean '__uint128_t'?
typedef __uint32_t __darwin_gid_t; /* [???] process and group IDs */
^
note: '__uint128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/sys/_types.h:61:9: error: unknown type name '__uint32_t'; did you mean '__uint128_t'?
typedef __uint32_t __darwin_id_t; /* [XSI] pid_t, uid_t, or gid_t*/
^
note: '__uint128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/sys/_types.h:62:9: error: unknown type name '__uint64_t'
typedef __uint64_t __darwin_ino64_t; /* [???] Used for 64 bit inodes */
^
/Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/sys/_types.h:68:9: error: unknown type name '__darwin_natural_t'
typedef __darwin_natural_t __darwin_mach_port_name_t; /* Used by mach */
^
/Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/sys/_types.h:70:9: error: unknown type name '__uint16_t'; did you mean '__uint128_t'?
typedef __uint16_t __darwin_mode_t; /* [???] Some file attributes */
^
note: '__uint128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/sys/_types.h:71:9: error: unknown type name '__int64_t'
typedef __int64_t __darwin_off_t; /* [???] Used for file sizes */
^
/Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/sys/_types.h:72:9: error: unknown type name '__int32_t'; did you mean '__int128_t'?
typedef __int32_t __darwin_pid_t; /* [???] process and group IDs */
^
note: '__int128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/sys/_types.h:73:9: error: unknown type name '__uint32_t'; did you mean '__uint128_t'?
typedef __uint32_t __darwin_sigset_t; /* [???] signal set */
^
note: '__uint128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/sys/_types.h:74:9: error: unknown type name '__int32_t'; did you mean '__int128_t'?
typedef __int32_t __darwin_suseconds_t; /* [???] microseconds */
^
note: '__int128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/sys/_types.h:75:9: error: unknown type name '__uint32_t'; did you mean '__uint128_t'?
typedef __uint32_t __darwin_uid_t; /* [???] user IDs */
^
note: '__uint128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/sys/_types.h:76:9: error: unknown type name '__uint32_t'; did you mean '__uint128_t'?
typedef __uint32_t __darwin_useconds_t; /* [???] microseconds */
^
note: '__uint128_t' declared here
In file included from hdbscan/_hdbscan_tree.c:6:
In file included from /Library/Developer/CommandLineTools/Library/Frameworks/Python3.framework/Versions/3.8/include/python3.8/Python.h:25:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/stdio.h:64:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/_stdio.h:71:
/Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/_types.h:43:9: error: unknown type name '__uint32_t'; did you mean '__uint128_t'?
typedef __uint32_t __darwin_wctype_t;
^
note: '__uint128_t' declared here
In file included from hdbscan/_hdbscan_tree.c:6:
In file included from /Library/Developer/CommandLineTools/Library/Frameworks/Python3.framework/Versions/3.8/include/python3.8/Python.h:25:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/stdio.h:64:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/_stdio.h:75:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/sys/_types/_va_list.h:31:
/Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk/usr/include/machine/types.h:37:2: error: architecture not supported
#error architecture not supported
^
fatal error: too many errors emitted, stopping now [-ferror-limit=]
20 errors generated.
/private/var/folders/tj/btx5cf3n1wv5xf_bv27133_r0000gn/T/pip-build-env-c_c_z_23/overlay/lib/python3.8/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /private/var/folders/tj/btx5cf3n1wv5xf_bv27133_r0000gn/T/pip-install-4i4yb_wm/hdbscan_5a5a1ad8023646e79a483ec5fa428aa2/hdbscan/_hdbscan_tree.pyx
tree = Parsing.p_module(s, pxd, full_module_name)
/private/var/folders/tj/btx5cf3n1wv5xf_bv27133_r0000gn/T/pip-build-env-c_c_z_23/overlay/lib/python3.8/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /private/var/folders/tj/btx5cf3n1wv5xf_bv27133_r0000gn/T/pip-install-4i4yb_wm/hdbscan_5a5a1ad8023646e79a483ec5fa428aa2/hdbscan/_hdbscan_linkage.pyx
tree = Parsing.p_module(s, pxd, full_module_name)
/private/var/folders/tj/btx5cf3n1wv5xf_bv27133_r0000gn/T/pip-build-env-c_c_z_23/overlay/lib/python3.8/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /private/var/folders/tj/btx5cf3n1wv5xf_bv27133_r0000gn/T/pip-install-4i4yb_wm/hdbscan_5a5a1ad8023646e79a483ec5fa428aa2/hdbscan/_hdbscan_boruvka.pyx
tree = Parsing.p_module(s, pxd, full_module_name)
/private/var/folders/tj/btx5cf3n1wv5xf_bv27133_r0000gn/T/pip-build-env-c_c_z_23/overlay/lib/python3.8/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /private/var/folders/tj/btx5cf3n1wv5xf_bv27133_r0000gn/T/pip-install-4i4yb_wm/hdbscan_5a5a1ad8023646e79a483ec5fa428aa2/hdbscan/_hdbscan_reachability.pyx
tree = Parsing.p_module(s, pxd, full_module_name)
/private/var/folders/tj/btx5cf3n1wv5xf_bv27133_r0000gn/T/pip-build-env-c_c_z_23/overlay/lib/python3.8/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /private/var/folders/tj/btx5cf3n1wv5xf_bv27133_r0000gn/T/pip-install-4i4yb_wm/hdbscan_5a5a1ad8023646e79a483ec5fa428aa2/hdbscan/_prediction_utils.pyx
tree = Parsing.p_module(s, pxd, full_module_name)
/private/var/folders/tj/btx5cf3n1wv5xf_bv27133_r0000gn/T/pip-build-env-c_c_z_23/overlay/lib/python3.8/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /private/var/folders/tj/btx5cf3n1wv5xf_bv27133_r0000gn/T/pip-install-4i4yb_wm/hdbscan_5a5a1ad8023646e79a483ec5fa428aa2/hdbscan/dist_metrics.pxd
tree = Parsing.p_module(s, pxd, full_module_name)
error: command '/usr/bin/clang' failed with exit code 1
[end of output]
note: This error originates from a subprocess, and is likely not a problem with pip. ERROR: Failed building wheel for hdbscan ERROR: Could not build wheels for hdbscan, which is required to install pyproject.toml-based projects
It's saying stuff about architecture not supported, what architectures are you on? Perhaps because you're on an M1? Not that I know how to fix that, but it might be important.
Yes, I am on M1 and getting this issue when running docker build -t ber-topic . --platform=linux/amd64
