Help! #29

Heporis · 2021-12-05T16:30:13Z

Help me please! wuwuwu~
Building wheel for h5py (setup.py) ... error

Heporis · 2021-12-05T23:30:43Z

How can I install h5py for macOS 10.15.7?

Heporis · 2021-12-06T14:47:24Z

how can I install hdf5 correctly?
Building wheel for h5py (setup.py) ... error

Heporis · 2021-12-06T22:12:12Z

Loading library to get version: libhdf5.dylib
error: dlopen(libhdf5.dylib, 6): image not found

qiuqiangkong · 2021-12-08T09:02:13Z

Try pip install h5py?

Heporis · 2021-12-09T01:19:44Z

Try pip install h5py?

pip install h5py没问题，但是pip install bytesep不行
每次都是Building wheel for h5py (setup.py) ... error

加了HDF5_DIR=/usr/local/Cellar/hdf5/1.12.1后

building 'h5py.defs' extension
creating build/temp.macosx-10.15-x86_64-3.9
creating build/temp.macosx-10.15-x86_64-3.9/private
creating build/temp.macosx-10.15-x86_64-3.9/private/var
creating build/temp.macosx-10.15-x86_64-3.9/private/var/folders
creating build/temp.macosx-10.15-x86_64-3.9/private/var/folders/x1
creating build/temp.macosx-10.15-x86_64-3.9/private/var/folders/x1/1fd67kn91pddn94ch27h08th0000gn
creating build/temp.macosx-10.15-x86_64-3.9/private/var/folders/x1/1fd67kn91pddn94ch27h08th0000gn/T
creating build/temp.macosx-10.15-x86_64-3.9/private/var/folders/x1/1fd67kn91pddn94ch27h08th0000gn/T/pip-install-eb0041po
creating build/temp.macosx-10.15-x86_64-3.9/private/var/folders/x1/1fd67kn91pddn94ch27h08th0000gn/T/pip-install-eb0041po/h5py_9578fe6d3dc8408bb773ea988cd77823
creating build/temp.macosx-10.15-x86_64-3.9/private/var/folders/x1/1fd67kn91pddn94ch27h08th0000gn/T/pip-install-eb0041po/h5py_9578fe6d3dc8408bb773ea988cd77823/h5py
clang -Wno-unused-result -Wsign-compare -Wunreachable-code -fno-common -dynamic -DNDEBUG -g -fwrapv -O3 -Wall -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX10.15.sdk -DH5_USE_16_API -I./h5py -I/usr/local/Cellar/hdf5/1.12.1/include -I/private/var/folders/x1/1fd67kn91pddn94ch27h08th0000gn/T/pip-install-eb0041po/h5py_9578fe6d3dc8408bb773ea988cd77823/lzf -I/usr/local/lib/python3.9/site-packages/numpy/core/include -I/usr/local/include -I/usr/local/opt/openssl@1.1/include -I/usr/local/opt/sqlite/include -I/usr/local/opt/python@3.9/Frameworks/Python.framework/Versions/3.9/include/python3.9 -c /private/var/folders/x1/1fd67kn91pddn94ch27h08th0000gn/T/pip-install-eb0041po/h5py_9578fe6d3dc8408bb773ea988cd77823/h5py/defs.c -o build/temp.macosx-10.15-x86_64-3.9/private/var/folders/x1/1fd67kn91pddn94ch27h08th0000gn/T/pip-install-eb0041po/h5py_9578fe6d3dc8408bb773ea988cd77823/h5py/defs.o
In file included from /private/var/folders/x1/1fd67kn91pddn94ch27h08th0000gn/T/pip-install-eb0041po/h5py_9578fe6d3dc8408bb773ea988cd77823/h5py/defs.c:725:
In file included from ./h5py/api_compat.h:26:
In file included from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:4:
In file included from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12:
In file included from /usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1832:
/usr/local/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: "Using deprecated NumPy API, disable it with "          "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-W#warnings]
#warning "Using deprecated NumPy API, disable it with " \
 ^
/private/var/folders/x1/1fd67kn91pddn94ch27h08th0000gn/T/pip-install-eb0041po/h5py_9578fe6d3dc8408bb773ea988cd77823/h5py/defs.c:16550:56: error: too few arguments to function call, expected 3, have 2
  __pyx_t_1 = H5Oget_info(__pyx_v_loc_id, __pyx_v_oinfo); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 1509, __pyx_L1_error)
              ~~~~~~~~~~~                              ^
/usr/local/Cellar/hdf5/1.12.1/include/H5Opublic.h:497:8: note: 'H5Oget_info3' declared here
H5_DLL herr_t H5Oget_info3(hid_t loc_id, H5O_info2_t *oinfo, unsigned fields);
       ^
/private/var/folders/x1/1fd67kn91pddn94ch27h08th0000gn/T/pip-install-eb0041po/h5py_9578fe6d3dc8408bb773ea988cd77823/h5py/defs.c:16665:95: error: too few arguments to function call, expected 5, have 4
  __pyx_t_1 = H5Oget_info_by_name(__pyx_v_loc_id, __pyx_v_name, __pyx_v_oinfo, __pyx_v_lapl_id); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 1520, __pyx_L1_error)
              ~~~~~~~~~~~~~~~~~~~                                                             ^
/usr/local/Cellar/hdf5/1.12.1/include/H5Opublic.h:557:8: note: 'H5Oget_info_by_name3' declared here
H5_DLL herr_t H5Oget_info_by_name3(hid_t loc_id, const char *name, H5O_info2_t *oinfo, unsigned fields,
       ^
/private/var/folders/x1/1fd67kn91pddn94ch27h08th0000gn/T/pip-install-eb0041po/h5py_9578fe6d3dc8408bb773ea988cd77823/h5py/defs.c:16780:144: error: too few arguments to function call, expected 8, have 7
  __pyx_t_1 = H5Oget_info_by_idx(__pyx_v_loc_id, __pyx_v_group_name, __pyx_v_idx_type, __pyx_v_order, __pyx_v_n, __pyx_v_oinfo, __pyx_v_lapl_id); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 1531, __pyx_L1_error)
              ~~~~~~~~~~~~~~~~~~                                                                                                               ^
/usr/local/Cellar/hdf5/1.12.1/include/H5Opublic.h:631:8: note: 'H5Oget_info_by_idx3' declared here
H5_DLL herr_t H5Oget_info_by_idx3(hid_t loc_id, const char *group_name, H5_index_t idx_type,
       ^
/private/var/folders/x1/1fd67kn91pddn94ch27h08th0000gn/T/pip-install-eb0041po/h5py_9578fe6d3dc8408bb773ea988cd77823/h5py/defs.c:17815:100: error: too few arguments to function call, expected 6, have 5
  __pyx_t_1 = H5Ovisit(__pyx_v_obj_id, __pyx_v_idx_type, __pyx_v_order, __pyx_v_op, __pyx_v_op_data); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 1630, __pyx_L1_error)
              ~~~~~~~~                                                                             ^
/usr/local/Cellar/hdf5/1.12.1/include/H5Opublic.h:1326:8: note: 'H5Ovisit3' declared here
H5_DLL herr_t H5Ovisit3(hid_t obj_id, H5_index_t idx_type, H5_iter_order_t order, H5O_iterate2_t op,
       ^
/private/var/folders/x1/1fd67kn91pddn94ch27h08th0000gn/T/pip-install-eb0041po/h5py_9578fe6d3dc8408bb773ea988cd77823/h5py/defs.c:17930:143: error: too few arguments to function call, expected 8, have 7
  __pyx_t_1 = H5Ovisit_by_name(__pyx_v_loc_id, __pyx_v_obj_name, __pyx_v_idx_type, __pyx_v_order, __pyx_v_op, __pyx_v_op_data, __pyx_v_lapl_id); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 1641, __pyx_L1_error)
              ~~~~~~~~~~~~~~~~                                                                                                                ^
/usr/local/Cellar/hdf5/1.12.1/include/H5Opublic.h:1492:8: note: 'H5Ovisit_by_name3' declared here
H5_DLL herr_t H5Ovisit_by_name3(hid_t loc_id, const char *obj_name, H5_index_t idx_type,
       ^
/private/var/folders/x1/1fd67kn91pddn94ch27h08th0000gn/T/pip-install-eb0041po/h5py_9578fe6d3dc8408bb773ea988cd77823/h5py/defs.c:21840:13: warning: assigning to 'void *' from 'const void *' discards qualifiers [-Wincompatible-pointer-types-discards-qualifiers]
  __pyx_t_1 = H5Pget_driver_info(__pyx_v_plist_id); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 2016, __pyx_L1_error)
            ^ ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/private/var/folders/x1/1fd67kn91pddn94ch27h08th0000gn/T/pip-install-eb0041po/h5py_9578fe6d3dc8408bb773ea988cd77823/h5py/defs.c:34600:68: error: too few arguments to function call, expected 4, have 3
  __pyx_t_1 = H5Sencode(__pyx_v_obj_id, __pyx_v_buf, __pyx_v_nalloc); if (unlikely(PyErr_Occurred())) __PYX_ERR(0, 3303, __pyx_L1_error)
              ~~~~~~~~~                                            ^
/usr/local/Cellar/hdf5/1.12.1/include/H5Spublic.h:373:8: note: 'H5Sencode2' declared here
H5_DLL herr_t H5Sencode2(hid_t obj_id, void *buf, size_t *nalloc, hid_t fapl);
       ^
2 warnings and 6 errors generated.
error: command '/usr/bin/clang' failed with exit code 1

qiuqiangkong · 2021-12-09T02:38:11Z

Try this? *pip install h5py --upgrade* It is suggested to use conda or virtualenv to manage the packages.

…

On Mon, 6 Dec 2021 at 00:30, Heporis ***@***.***> wrote: How to specify the path of hdf5, or pkg-config? Help me please! wuwuwu~ [image: 截屏2021-12-06 上午12 29 33] <https://user-images.githubusercontent.com/51895154/144754880-978d9e26-dce8-4ac6-87d3-4464f8121260.png> — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub <#29>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/ADFXTSO2PHYSWWCMTOLOAO3UPOHSBANCNFSM5JM6OKFQ> . Triage notifications on the go with GitHub Mobile for iOS <https://apps.apple.com/app/apple-store/id1477376905?ct=notification-email&mt=8&pt=524675> or Android <https://play.google.com/store/apps/details?id=com.github.android&referrer=utm_campaign%3Dnotification-email%26utm_medium%3Demail%26utm_source%3Dgithub>.

Heporis · 2021-12-10T19:33:54Z

Try this? pip install h5py --upgrade It is suggested to use conda or virtualenv to manage the packages.
The same error. Tried many times with/without anaconda.
I have installed it successfully on windows subsystem for linux.
Confused macOS.🙄

qiuqiangkong · 2021-12-11T03:53:09Z

The installation works on my Mac. It looks like the problem is caused by some environment settings.

…

On Sat, 11 Dec 2021 at 03:34, Heporis ***@***.***> wrote: Try this? *pip install h5py --upgrade* It is suggested to use conda or virtualenv to manage the packages. The same error. Tried many times with/without anaconda. I have installed it successfully on windows subsystem for linux. Confused macOS.🙄 — You are receiving this because you commented. Reply to this email directly, view it on GitHub <#29 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/ADFXTSJKCIHUEUUASZTAXXLUQJI2ZANCNFSM5JM6OKFQ> . Triage notifications on the go with GitHub Mobile for iOS <https://apps.apple.com/app/apple-store/id1477376905?ct=notification-email&mt=8&pt=524675> or Android <https://play.google.com/store/apps/details?id=com.github.android&referrer=utm_campaign%3Dnotification-email%26utm_medium%3Demail%26utm_source%3Dgithub>.

Heporis closed this as completed Dec 6, 2021

Heporis reopened this Dec 6, 2021

Heporis closed this as completed Jan 29, 2022

Provide feedback

Saved searches

Use saved searches to filter your results more quickly

Help! #29

Help! #29

Heporis commented Dec 5, 2021 •

edited

Loading

Heporis commented Dec 5, 2021

Heporis commented Dec 6, 2021

Heporis commented Dec 6, 2021

qiuqiangkong commented Dec 8, 2021

Heporis commented Dec 9, 2021 •

edited

Loading

qiuqiangkong commented Dec 9, 2021 via email

Heporis commented Dec 10, 2021

qiuqiangkong commented Dec 11, 2021 via email

Help! #29

Help! #29

Comments

Heporis commented Dec 5, 2021 • edited Loading

Heporis commented Dec 5, 2021

Heporis commented Dec 6, 2021

Heporis commented Dec 6, 2021

qiuqiangkong commented Dec 8, 2021

Heporis commented Dec 9, 2021 • edited Loading

qiuqiangkong commented Dec 9, 2021 via email

Heporis commented Dec 10, 2021

qiuqiangkong commented Dec 11, 2021 via email

Heporis commented Dec 5, 2021 •

edited

Loading

Heporis commented Dec 9, 2021 •

edited

Loading