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dusty-nv
Build error while execute ./scripts/docker_build_ml.sh tensorflow in nVidia Jason Nano device
From error message, any command or instruction I need to perform?
Thanks for help.
ERROR: Command errored out with exit status 1: /usr/bin/python3 -u -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-install-8j3g4s5v/h5py/setup.py'"'"'; file='"'"'/tmp/pip-install-8j3g4s5v/h5py/setup.py'"'"';f=getattr(tokenize, '"'"'open'"'"', open)(file);code=f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, file, '"'"'exec'"'"'))' install --record /tmp/pip-record-yl2dyow0/install-record.txt --single-version-externally-managed --compile --install-headers /usr/local/include/python3.8/h5py Check the logs for full command output.
Error compiling Cython file: ------------------------------------------------------------ ... # License: Standard 3-clause BSD; see "license.txt" for full license terms # and contributor agreement.
from defs cimport *
from _objects cimport class ObjectID
^
------------------------------------------------------------
h5py/h5t.pxd:12:22: Expected an identifier
Error compiling Cython file:
------------------------------------------------------------
...
Low-level type-conversion routines.
"""
from h5 import get_config
from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t
from h5t cimport H5PY_OBJ, typewrap, py_create, TypeID
^
------------------------------------------------------------
h5py/_conv.pyx:18:0: 'h5py/h5t/H5PY_OBJ.pxd' not found
Error compiling Cython file:
------------------------------------------------------------
...
Low-level type-conversion routines.
"""
from h5 import get_config
from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t
from h5t cimport H5PY_OBJ, typewrap, py_create, TypeID
^
------------------------------------------------------------
h5py/_conv.pyx:18:0: 'h5py/h5t/typewrap.pxd' not found
Error compiling Cython file:
------------------------------------------------------------
...
Low-level type-conversion routines.
"""
from h5 import get_config
from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t
from h5t cimport H5PY_OBJ, typewrap, py_create, TypeID
^
------------------------------------------------------------
h5py/_conv.pyx:18:0: 'h5py/h5t/py_create.pxd' not found
Error compiling Cython file:
------------------------------------------------------------
...
Low-level type-conversion routines.
"""
from h5 import get_config
from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t
from h5t cimport H5PY_OBJ, typewrap, py_create, TypeID
^
------------------------------------------------------------
h5py/_conv.pyx:18:0: 'h5py/h5t/TypeID.pxd' not found
Error compiling Cython file:
------------------------------------------------------------
...
cdef struct vlen_t:
size_t len
void* ptr
cdef int conv_vlen2ndarray(void* ipt, void* opt, np.dtype elem_dtype,
TypeID intype, TypeID outtype) except -1:
^
------------------------------------------------------------
h5py/_conv.pyx:680:8: 'TypeID' is not a type identifier
Error compiling Cython file:
------------------------------------------------------------
...
cdef struct vlen_t:
size_t len
void* ptr
cdef int conv_vlen2ndarray(void* ipt, void* opt, np.dtype elem_dtype,
TypeID intype, TypeID outtype) except -1:
^
------------------------------------------------------------
h5py/_conv.pyx:680:23: 'TypeID' is not a type identifier
Error compiling Cython file:
------------------------------------------------------------
...
return 0
cdef int conv_ndarray2vlen(void* ipt, void* opt,
TypeID intype, TypeID outtype) except -1:
^
------------------------------------------------------------
h5py/_conv.pyx:788:8: 'TypeID' is not a type identifier
Error compiling Cython file:
------------------------------------------------------------
...
return 0
cdef int conv_ndarray2vlen(void* ipt, void* opt,
TypeID intype, TypeID outtype) except -1:
^
------------------------------------------------------------
h5py/_conv.pyx:788:23: 'TypeID' is not a type identifier
Error compiling Cython file:
------------------------------------------------------------
...
size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i,
void *bkg_i, hid_t dxpl) except -1:
cdef int command = cdata[0].command
cdef size_t src_size, dst_size
cdef TypeID supertype
^
------------------------------------------------------------
h5py/_conv.pyx:620:9: 'TypeID' is not a type identifier
Error compiling Cython file:
------------------------------------------------------------
...
void *bkg_i, hid_t dxpl) except -1:
cdef int command = cdata[0].command
cdef size_t src_size, dst_size
cdef TypeID supertype
cdef TypeID outtype
^
------------------------------------------------------------
h5py/_conv.pyx:621:9: 'TypeID' is not a type identifier
Error compiling Cython file:
------------------------------------------------------------
...
size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i,
void *bkg_i, hid_t dxpl) except -1:
cdef int command = cdata[0].command
cdef size_t src_size, dst_size
cdef TypeID supertype
^
------------------------------------------------------------
h5py/_conv.pyx:718:9: 'TypeID' is not a type identifier
Error compiling Cython file:
------------------------------------------------------------
...
void *bkg_i, hid_t dxpl) except -1:
cdef int command = cdata[0].command
cdef size_t src_size, dst_size
cdef TypeID supertype
cdef TypeID outtype
^
------------------------------------------------------------
h5py/_conv.pyx:719:9: 'TypeID' is not a type identifier
Error compiling Cython file:
------------------------------------------------------------
...
pass
elif command == H5T_CONV_CONV:
# need to pass element dtype to converter
supertype = typewrap(H5Tget_super(src_id))
^
------------------------------------------------------------
h5py/_conv.pyx:640:20: 'typewrap' is not a constant, variable or function identifier
Error compiling Cython file:
------------------------------------------------------------
...
elif command == H5T_CONV_CONV:
# need to pass element dtype to converter
supertype = typewrap(H5Tget_super(src_id))
dt = supertype.dtype
outtype = py_create(dt)
^
------------------------------------------------------------
h5py/_conv.pyx:642:18: 'py_create' is not a constant, variable or function identifier
Error compiling Cython file:
------------------------------------------------------------
...
cdef char* buf = <char*>buf_i
if command == H5T_CONV_INIT:
cdata[0].need_bkg = H5T_BKG_NO
if not H5Tequal(src_id, H5PY_OBJ) or H5Tget_class(dst_id) != H5T_VLEN:
^
------------------------------------------------------------
h5py/_conv.pyx:730:32: 'H5PY_OBJ' is not a constant, variable or function identifier
Error compiling Cython file:
------------------------------------------------------------
...
if command == H5T_CONV_INIT:
cdata[0].need_bkg = H5T_BKG_NO
if not H5Tequal(src_id, H5PY_OBJ) or H5Tget_class(dst_id) != H5T_VLEN:
return -2
supertype = typewrap(H5Tget_super(dst_id))
^
------------------------------------------------------------
h5py/_conv.pyx:732:20: 'typewrap' is not a constant, variable or function identifier
Error compiling Cython file:
------------------------------------------------------------
...
if not H5Tequal(src_id, H5PY_OBJ) or H5Tget_class(dst_id) != H5T_VLEN:
return -2
supertype = typewrap(H5Tget_super(dst_id))
for i from 0 <= i < nl:
memcpy(&pdata_elem, pdata+i, sizeof(pdata_elem))
if supertype != py_create((<np.ndarray> pdata_elem).dtype, 1):
^
------------------------------------------------------------
h5py/_conv.pyx:735:28: 'py_create' is not a constant, variable or function identifier
Error compiling Cython file:
------------------------------------------------------------
...
if nl == 0:
return 0
# need to pass element dtype to converter
memcpy(&pdata_elem, pdata, sizeof(pdata_elem))
supertype = py_create((<np.ndarray> pdata_elem).dtype)
^
------------------------------------------------------------
h5py/_conv.pyx:753:20: 'py_create' is not a constant, variable or function identifier
Error compiling Cython file:
------------------------------------------------------------
...
return 0
# need to pass element dtype to converter
memcpy(&pdata_elem, pdata, sizeof(pdata_elem))
supertype = py_create((<np.ndarray> pdata_elem).dtype)
outtype = typewrap(H5Tget_super(dst_id))
^
------------------------------------------------------------
h5py/_conv.pyx:754:18: 'typewrap' is not a constant, variable or function identifier
Error compiling Cython file:
------------------------------------------------------------
...
enum = H5Tenum_create(H5T_STD_I32LE)
vlentype = H5Tvlen_create(H5T_STD_I32LE)
pyobj = H5PY_OBJ
^
------------------------------------------------------------
h5py/_conv.pyx:860:12: 'H5PY_OBJ' is not a constant, variable or function identifier
Traceback (most recent call last):
File "<string>", line 1, in <module>
File "/tmp/pip-install-8j3g4s5v/h5py/setup.py", line 140, in <module>
setup(
File "/usr/lib/python3/dist-packages/setuptools/__init__.py", line 144, 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 61, in run
return orig.install.run(self)
File "/usr/lib/python3.8/distutils/command/install.py", line 589, in run
self.run_command('build')
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/python3.8/distutils/command/build.py", line 135, in run
self.run_command(cmd_name)
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 "/tmp/pip-install-8j3g4s5v/h5py/setup_build.py", line 207, in run
self.extensions = cythonize(self._make_extensions(config),
File "/usr/local/lib/python3.8/dist-packages/Cython/Build/Dependencies.py", line 1134, in cythonize
cythonize_one(*args)
File "/usr/local/lib/python3.8/dist-packages/Cython/Build/Dependencies.py", line 1301, in cythonize_one
raise CompileError(None, pyx_file)
Cython.Compiler.Errors.CompileError: /tmp/pip-install-8j3g4s5v/h5py/h5py/_conv.pyx
Error compiling Cython file:
...
License: Standard 3-clause BSD; see "license.txt" for full license terms
and contributor agreement.
from defs cimport *
from _objects cimport class ObjectID ^
h5py/h5t.pxd:12:22: Expected an identifier
Error compiling Cython file:
... Low-level type-conversion routines. """
from h5 import get_config from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t from h5t cimport H5PY_OBJ, typewrap, py_create, TypeID ^
h5py/_conv.pyx:18:0: 'h5py/h5t/H5PY_OBJ.pxd' not found
Error compiling Cython file:
... Low-level type-conversion routines. """
from h5 import get_config from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t from h5t cimport H5PY_OBJ, typewrap, py_create, TypeID ^
h5py/_conv.pyx:18:0: 'h5py/h5t/typewrap.pxd' not found
Error compiling Cython file:
... Low-level type-conversion routines. """
from h5 import get_config from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t from h5t cimport H5PY_OBJ, typewrap, py_create, TypeID ^
h5py/_conv.pyx:18:0: 'h5py/h5t/py_create.pxd' not found
Error compiling Cython file:
... Low-level type-conversion routines. """
from h5 import get_config from h5r cimport Reference, RegionReference, hobj_ref_t, hdset_reg_ref_t from h5t cimport H5PY_OBJ, typewrap, py_create, TypeID ^
h5py/_conv.pyx:18:0: 'h5py/h5t/TypeID.pxd' not found
Error compiling Cython file:
... cdef struct vlen_t: size_t len void* ptr
cdef int conv_vlen2ndarray(void* ipt, void* opt, np.dtype elem_dtype, TypeID intype, TypeID outtype) except -1: ^
h5py/_conv.pyx:680:8: 'TypeID' is not a type identifier
Error compiling Cython file:
... cdef struct vlen_t: size_t len void* ptr
cdef int conv_vlen2ndarray(void* ipt, void* opt, np.dtype elem_dtype, TypeID intype, TypeID outtype) except -1: ^
h5py/_conv.pyx:680:23: 'TypeID' is not a type identifier
Error compiling Cython file:
...
return 0
cdef int conv_ndarray2vlen(void* ipt, void* opt, TypeID intype, TypeID outtype) except -1: ^
h5py/_conv.pyx:788:8: 'TypeID' is not a type identifier
Error compiling Cython file:
...
return 0
cdef int conv_ndarray2vlen(void* ipt, void* opt, TypeID intype, TypeID outtype) except -1: ^
h5py/_conv.pyx:788:23: 'TypeID' is not a type identifier
Error compiling Cython file:
... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1:
cdef int command = cdata[0].command
cdef size_t src_size, dst_size
cdef TypeID supertype
^
h5py/_conv.pyx:620:9: 'TypeID' is not a type identifier
Error compiling Cython file:
... void *bkg_i, hid_t dxpl) except -1:
cdef int command = cdata[0].command
cdef size_t src_size, dst_size
cdef TypeID supertype
cdef TypeID outtype
^
h5py/_conv.pyx:621:9: 'TypeID' is not a type identifier
Error compiling Cython file:
... size_t nl, size_t buf_stride, size_t bkg_stride, void *buf_i, void *bkg_i, hid_t dxpl) except -1:
cdef int command = cdata[0].command
cdef size_t src_size, dst_size
cdef TypeID supertype
^
h5py/_conv.pyx:718:9: 'TypeID' is not a type identifier
Error compiling Cython file:
... void *bkg_i, hid_t dxpl) except -1:
cdef int command = cdata[0].command
cdef size_t src_size, dst_size
cdef TypeID supertype
cdef TypeID outtype
^
h5py/_conv.pyx:719:9: 'TypeID' is not a type identifier
Error compiling Cython file:
... pass
elif command == H5T_CONV_CONV:
# need to pass element dtype to converter
supertype = typewrap(H5Tget_super(src_id))
^
h5py/_conv.pyx:640:20: 'typewrap' is not a constant, variable or function identifier
Error compiling Cython file:
... elif command == H5T_CONV_CONV:
# need to pass element dtype to converter
supertype = typewrap(H5Tget_super(src_id))
dt = supertype.dtype
outtype = py_create(dt)
^
h5py/_conv.pyx:642:18: 'py_create' is not a constant, variable or function identifier
Error compiling Cython file:
... cdef char* buf = <char*>buf_i
if command == H5T_CONV_INIT:
cdata[0].need_bkg = H5T_BKG_NO
if not H5Tequal(src_id, H5PY_OBJ) or H5Tget_class(dst_id) != H5T_VLEN:
^
h5py/_conv.pyx:730:32: 'H5PY_OBJ' is not a constant, variable or function identifier
Error compiling Cython file:
... if command == H5T_CONV_INIT:
cdata[0].need_bkg = H5T_BKG_NO
if not H5Tequal(src_id, H5PY_OBJ) or H5Tget_class(dst_id) != H5T_VLEN:
return -2
supertype = typewrap(H5Tget_super(dst_id))
^
h5py/_conv.pyx:732:20: 'typewrap' is not a constant, variable or function identifier
Error compiling Cython file:
... if not H5Tequal(src_id, H5PY_OBJ) or H5Tget_class(dst_id) != H5T_VLEN: return -2 supertype = typewrap(H5Tget_super(dst_id)) for i from 0 <= i < nl: memcpy(&pdata_elem, pdata+i, sizeof(pdata_elem)) if supertype != py_create((<np.ndarray> pdata_elem).dtype, 1): ^
h5py/_conv.pyx:735:28: 'py_create' is not a constant, variable or function identifier
Error compiling Cython file:
... if nl == 0: return 0
# need to pass element dtype to converter
memcpy(&pdata_elem, pdata, sizeof(pdata_elem))
supertype = py_create((<np.ndarray> pdata_elem).dtype)
^
h5py/_conv.pyx:753:20: 'py_create' is not a constant, variable or function identifier
Error compiling Cython file:
... return 0
# need to pass element dtype to converter
memcpy(&pdata_elem, pdata, sizeof(pdata_elem))
supertype = py_create((<np.ndarray> pdata_elem).dtype)
outtype = typewrap(H5Tget_super(dst_id))
^
h5py/_conv.pyx:754:18: 'typewrap' is not a constant, variable or function identifier
Error compiling Cython file:
...
enum = H5Tenum_create(H5T_STD_I32LE)
vlentype = H5Tvlen_create(H5T_STD_I32LE)
pyobj = H5PY_OBJ
^
h5py/_conv.pyx:860:12: 'H5PY_OBJ' is not a constant, variable or function identifier
Traceback (most recent call last):
File "
@CarkusL @JackiePei61 try pip3 install 'Cython<3' in the container first
These dockerfiles/ect have been refactored are are passing builds on JetPack 4.6 / JetPack 5.1
https://github.com/dusty-nv/jetson-containers/tree/master/packages/l4t/l4t-tensorflow
