HDF5 库版本与 windows x64 的最新 Tensorflow 版本不匹配错误
HDF5 library version mismatched error with latest Tensorflow build for windows x64
由于 bug 仍然存在于 windows 的 Tensorflow 1.0.1 版本中，我已经安装了最新的夜间构建 tensorflow cpu
不幸的是，对于这个版本，现在内核由于不同的原因崩溃，我得到这个错误：
Warning! ***HDF5 library version mismatched error***
The HDF5 header files used to compile this application do not match
the version used by the HDF5 library to which this application is linked.
Data corruption or segmentation faults may occur if the application continues.
This can happen when an application was compiled by one version of HDF5 but
linked with a different version of static or shared HDF5 library.
You should recompile the application or check your shared library related
settings such as 'LD_LIBRARY_PATH'.
You can, at your own risk, disable this warning by setting the environment
variable 'HDF5_DISABLE_VERSION_CHECK' to a value of '1'.
Headers are 1.8.15, library is 1.8.18
SUMMARY OF THE HDF5 CONFIGURATION
=================================
General Information:
-------------------
HDF5 Version: 1.8.18
Configured on: 2017-03-06
Configured by: Visual Studio 14 2015 Win64
Configure mode: CMAKE 3.7.2
Host system: Windows-10.0.14393
Uname information: Windows
Byte sex: little-endian
Libraries:
Installation point: C:/Program Files/HDF5
Compiling Options:
------------------
Compilation Mode:
C Compiler: C:/Program Files (x86)/Microsoft Visual Studio 14.0/VC/bin/x86_amd64/cl.exe
CFLAGS: /DWIN32 /D_WINDOWS /W3
H5_CFLAGS:
AM_CFLAGS:
CPPFLAGS:
H5_CPPFLAGS:
AM_CPPFLAGS:
Shared C Library: YES
Static C Library: YES
Statically Linked Executables: OFF
LDFLAGS: /machine:x64
AM_LDFLAGS:
Extra libraries: X:inclib-vc14-x64/zlib.lib;X:/inclib-vc14-x64/libsz.lib;X:/inclib-vc14-x64/libaec.lib
Archiver:
Ranlib:
Debugged Packages:
API Tracing: OFF
Languages:
----------
Fortran: OFF
Fortran Compiler:
Fortran 2003 Compiler:
Fortran Flags:
H5 Fortran Flags:
AM Fortran Flags:
Shared Fortran Library: YES
Static Fortran Library: YES
C++: ON
C++ Compiler: C:/Program Files (x86)/Microsoft Visual Studio 14.0/VC/bin/x86_amd64/cl.exe
C++ Flags: /DWIN32 /D_WINDOWS /W3 /GR /EHsc
H5 C++ Flags:
AM C++ Flags:
Shared C++ Library: YES
Static C++ Library: YES
Features:
---------
Parallel HDF5: OFF
High Level library: ON
Threadsafety: OFF
Default API Mapping: v18
With Deprecated Public Symbols: ON
I/O filters (external): DEFLATE DECODE ENCODE
MPE:
Direct VFD:
dmalloc:
Clear file buffers before write: ON
Using memory checker: OFF
Function Stack Tracing: OFF
Strict File Format Checks: OFF
脚本崩溃whentf.contrib.layers.convolution2d被调用
我正在使用 windows 10 x64 并且我已经安装了为其他库发布的所有可用更新
这里是我安装的包列表
alabaster (0.7.10)
anaconda-clean (1.0)
anaconda-client (1.6.2)
anaconda-navigator (1.5)
anaconda-project (0.4.1)
appdirs (1.4.3)
argcomplete (1.8.2)
asn1crypto (0.22.0)
astroid (1.4.9)
astropy (1.3.1)
Babel (2.3.4)
backports.shutil-get-terminal-size (1.0.0)
beautifulsoup4 (4.5.3)
bitarray (0.8.1)
blaze (0.10.1)
bleach (2.0.0)
bokeh (0.12.4)
boto (2.46.1)
Bottleneck (1.2.0)
cffi (1.10.0)
chardet (2.3.0)
chest (0.2.3)
click (6.7)
cloudpickle (0.2.2)
clyent (1.2.2)
colorama (0.3.7)
comtypes (1.1.3)
conda (4.3.14)
conda-build (2.1.7)
conda-verify (2.0.0)
configobj (5.0.6)
contextlib2 (0.5.4)
cryptography (1.8.1)
cycler (0.10.0)
Cython (0.25.2)
cytoolz (0.8.2)
dask (0.14.1)
datashape (0.5.4)
decorator (4.0.11)
dill (0.2.6)
docutils (0.13.1)
dynd (c328ab7)
entrypoints (0.2.2)
et-xmlfile (1.0.1)
fastcache (1.0.2)
filelock (2.0.7)
Flask (0.12)
Flask-Cors (3.0.2)
gevent (1.2.1)
glue-core (0.10.1)
glue-vispy-viewers (0.7.2)
glueviz (0.10.1)
greenlet (0.4.12)
h5py (2.7.0)
HeapDict (1.0.0)
html5lib (0.999999999)
idna (2.5)
imagesize (0.7.1)
ipykernel (4.5.2)
ipython (5.3.0)
ipython-genutils (0.2.0)
ipywidgets (6.0.0)
isort (4.2.5)
itsdangerous (0.24)
jdcal (1.3)
jedi (0.10.0)
Jinja2 (2.9.5)
jsonschema (2.6.0)
jupyter (1.0.0)
jupyter-client (5.0.0)
jupyter-console (5.1.0)
jupyter-core (4.3.0)
lazy-object-proxy (1.2.2)
llvmlite (0.16.0)
locket (0.2.0)
lxml (3.7.3)
MarkupSafe (1.0)
matplotlib (2.0.0)
mccabe (0.6.1)
menuinst (1.4.4)
mistune (0.7.4)
mpmath (0.19)
multipledispatch (0.4.9)
nb-anacondacloud (1.2.0)
nb-conda (2.0.0)
nb-conda-kernels (2.0.0)
nbconvert (5.1.1)
nbformat (4.3.0)
nbpresent (3.0.2)
networkx (1.11)
nltk (3.2.2)
nose (1.3.7)
notebook (4.4.1)
numba (0.31.0)
numexpr (2.6.2)
numpy (1.12.1)
numpydoc (0.6.0)
odo (0.5.0)
olefile (0.44)
opencv-python (3.2.0.6)
openpyxl (2.4.5)
packaging (16.8)
pandas (0.19.2)
pandocfilters (1.4.1)
partd (0.3.7)
path.py (10.1)
pathlib2 (2.2.1)
patsy (0.4.1)
pep8 (1.7.0)
pickleshare (0.7.4)
Pillow (4.0.0)
pip (9.0.1)
pkginfo (1.4.1)
ply (3.10)
prompt-toolkit (1.0.13)
protobuf (3.2.0)
psutil (5.2.0)
py (1.4.33)
pyasn1 (0.2.3)
pycosat (0.6.2)
pycparser (2.17)
pycrypto (2.6.1)
pycurl (7.43.0)
pyflakes (1.5.0)
Pygments (2.2.0)
pylint (1.6.5)
PyOpenGL (3.1.0)
pyOpenSSL (16.2.0)
pyparsing (2.2.0)
pyreadline (2.1)
pytest (3.0.7)
python-dateutil (2.6.0)
pytz (2016.10)
pywin32 (220)
PyYAML (3.12)
pyzmq (16.0.2)
QtAwesome (0.4.4)
qtconsole (4.2.1)
QtPy (1.2.1)
requests (2.13.0)
rope-py3k (0.9.4.post1)
scikit-image (0.12.3)
scikit-learn (0.18.1)
scipy (0.19.0)
seaborn (0.7.1)
setuptools (34.3.2)
simplegeneric (0.8.1)
singledispatch (3.4.0.3)
six (1.10.0)
snowballstemmer (1.2.1)
sockjs-tornado (1.0.3)
Sphinx (1.5.3)
spyder (3.1.3)
SQLAlchemy (1.1.6)
statsmodels (0.8.0)
sympy (1.0)
tables (3.3.0)
tensorflow (1.0.1)
testpath (0.3)
toolz (0.8.2)
tornado (4.4.2)
traitlets (4.3.2)
unicodecsv (0.14.1)
wcwidth (0.1.7)
webencodings (0.5)
Werkzeug (0.12.1)
wheel (0.29.0)
widgetsnbextension (2.0.0)
win-unicode-console (0.5)
wrapt (1.10.10)
xlrd (1.0.0)
XlsxWriter (0.9.6)
xlwings (0.10.4)
xlwt (1.2.0)
您在 conda 环境 中安装了 1.18.15 hdf5 库，Tensorflow 的某些依赖项具有较新的 hdf5 1.8.18 头文件。
尝试将您的 conda hdf5 库 更新到更新的 1.8.18 或使用命令：
set HDF5_DISABLE_VERSION_CHECK=2
这应该会禁用警告但不提供任何正确执行的保证，因此最好将 hdf5 库更新到相同的版本 1.8.18。
我 运行 进入类似的错误信息，如：
Headers are 1.10.3, library is 1.10.4
尝试通过 运行 在 R 中安装 'rhd5' 时：
BiocManager::install("rhdf5")
我通过在 shell 中设置环境变量 "HDF5_DISABLE_VERSION_CHECK" 解决了这个问题：
export HDF5_DISABLE_VERSION_CHECK=1
然后再次进入R，继续安装rhdf5
由于 bug 仍然存在于 windows 的 Tensorflow 1.0.1 版本中，我已经安装了最新的夜间构建 tensorflow cpu
不幸的是，对于这个版本，现在内核由于不同的原因崩溃，我得到这个错误：
Warning! ***HDF5 library version mismatched error***
The HDF5 header files used to compile this application do not match
the version used by the HDF5 library to which this application is linked.
Data corruption or segmentation faults may occur if the application continues.
This can happen when an application was compiled by one version of HDF5 but
linked with a different version of static or shared HDF5 library.
You should recompile the application or check your shared library related
settings such as 'LD_LIBRARY_PATH'.
You can, at your own risk, disable this warning by setting the environment
variable 'HDF5_DISABLE_VERSION_CHECK' to a value of '1'.
Headers are 1.8.15, library is 1.8.18
SUMMARY OF THE HDF5 CONFIGURATION
=================================
General Information:
-------------------
HDF5 Version: 1.8.18
Configured on: 2017-03-06
Configured by: Visual Studio 14 2015 Win64
Configure mode: CMAKE 3.7.2
Host system: Windows-10.0.14393
Uname information: Windows
Byte sex: little-endian
Libraries:
Installation point: C:/Program Files/HDF5
Compiling Options:
------------------
Compilation Mode:
C Compiler: C:/Program Files (x86)/Microsoft Visual Studio 14.0/VC/bin/x86_amd64/cl.exe
CFLAGS: /DWIN32 /D_WINDOWS /W3
H5_CFLAGS:
AM_CFLAGS:
CPPFLAGS:
H5_CPPFLAGS:
AM_CPPFLAGS:
Shared C Library: YES
Static C Library: YES
Statically Linked Executables: OFF
LDFLAGS: /machine:x64
AM_LDFLAGS:
Extra libraries: X:inclib-vc14-x64/zlib.lib;X:/inclib-vc14-x64/libsz.lib;X:/inclib-vc14-x64/libaec.lib
Archiver:
Ranlib:
Debugged Packages:
API Tracing: OFF
Languages:
----------
Fortran: OFF
Fortran Compiler:
Fortran 2003 Compiler:
Fortran Flags:
H5 Fortran Flags:
AM Fortran Flags:
Shared Fortran Library: YES
Static Fortran Library: YES
C++: ON
C++ Compiler: C:/Program Files (x86)/Microsoft Visual Studio 14.0/VC/bin/x86_amd64/cl.exe
C++ Flags: /DWIN32 /D_WINDOWS /W3 /GR /EHsc
H5 C++ Flags:
AM C++ Flags:
Shared C++ Library: YES
Static C++ Library: YES
Features:
---------
Parallel HDF5: OFF
High Level library: ON
Threadsafety: OFF
Default API Mapping: v18
With Deprecated Public Symbols: ON
I/O filters (external): DEFLATE DECODE ENCODE
MPE:
Direct VFD:
dmalloc:
Clear file buffers before write: ON
Using memory checker: OFF
Function Stack Tracing: OFF
Strict File Format Checks: OFF
脚本崩溃whentf.contrib.layers.convolution2d被调用
我正在使用 windows 10 x64 并且我已经安装了为其他库发布的所有可用更新
这里是我安装的包列表
alabaster (0.7.10)
anaconda-clean (1.0)
anaconda-client (1.6.2)
anaconda-navigator (1.5)
anaconda-project (0.4.1)
appdirs (1.4.3)
argcomplete (1.8.2)
asn1crypto (0.22.0)
astroid (1.4.9)
astropy (1.3.1)
Babel (2.3.4)
backports.shutil-get-terminal-size (1.0.0)
beautifulsoup4 (4.5.3)
bitarray (0.8.1)
blaze (0.10.1)
bleach (2.0.0)
bokeh (0.12.4)
boto (2.46.1)
Bottleneck (1.2.0)
cffi (1.10.0)
chardet (2.3.0)
chest (0.2.3)
click (6.7)
cloudpickle (0.2.2)
clyent (1.2.2)
colorama (0.3.7)
comtypes (1.1.3)
conda (4.3.14)
conda-build (2.1.7)
conda-verify (2.0.0)
configobj (5.0.6)
contextlib2 (0.5.4)
cryptography (1.8.1)
cycler (0.10.0)
Cython (0.25.2)
cytoolz (0.8.2)
dask (0.14.1)
datashape (0.5.4)
decorator (4.0.11)
dill (0.2.6)
docutils (0.13.1)
dynd (c328ab7)
entrypoints (0.2.2)
et-xmlfile (1.0.1)
fastcache (1.0.2)
filelock (2.0.7)
Flask (0.12)
Flask-Cors (3.0.2)
gevent (1.2.1)
glue-core (0.10.1)
glue-vispy-viewers (0.7.2)
glueviz (0.10.1)
greenlet (0.4.12)
h5py (2.7.0)
HeapDict (1.0.0)
html5lib (0.999999999)
idna (2.5)
imagesize (0.7.1)
ipykernel (4.5.2)
ipython (5.3.0)
ipython-genutils (0.2.0)
ipywidgets (6.0.0)
isort (4.2.5)
itsdangerous (0.24)
jdcal (1.3)
jedi (0.10.0)
Jinja2 (2.9.5)
jsonschema (2.6.0)
jupyter (1.0.0)
jupyter-client (5.0.0)
jupyter-console (5.1.0)
jupyter-core (4.3.0)
lazy-object-proxy (1.2.2)
llvmlite (0.16.0)
locket (0.2.0)
lxml (3.7.3)
MarkupSafe (1.0)
matplotlib (2.0.0)
mccabe (0.6.1)
menuinst (1.4.4)
mistune (0.7.4)
mpmath (0.19)
multipledispatch (0.4.9)
nb-anacondacloud (1.2.0)
nb-conda (2.0.0)
nb-conda-kernels (2.0.0)
nbconvert (5.1.1)
nbformat (4.3.0)
nbpresent (3.0.2)
networkx (1.11)
nltk (3.2.2)
nose (1.3.7)
notebook (4.4.1)
numba (0.31.0)
numexpr (2.6.2)
numpy (1.12.1)
numpydoc (0.6.0)
odo (0.5.0)
olefile (0.44)
opencv-python (3.2.0.6)
openpyxl (2.4.5)
packaging (16.8)
pandas (0.19.2)
pandocfilters (1.4.1)
partd (0.3.7)
path.py (10.1)
pathlib2 (2.2.1)
patsy (0.4.1)
pep8 (1.7.0)
pickleshare (0.7.4)
Pillow (4.0.0)
pip (9.0.1)
pkginfo (1.4.1)
ply (3.10)
prompt-toolkit (1.0.13)
protobuf (3.2.0)
psutil (5.2.0)
py (1.4.33)
pyasn1 (0.2.3)
pycosat (0.6.2)
pycparser (2.17)
pycrypto (2.6.1)
pycurl (7.43.0)
pyflakes (1.5.0)
Pygments (2.2.0)
pylint (1.6.5)
PyOpenGL (3.1.0)
pyOpenSSL (16.2.0)
pyparsing (2.2.0)
pyreadline (2.1)
pytest (3.0.7)
python-dateutil (2.6.0)
pytz (2016.10)
pywin32 (220)
PyYAML (3.12)
pyzmq (16.0.2)
QtAwesome (0.4.4)
qtconsole (4.2.1)
QtPy (1.2.1)
requests (2.13.0)
rope-py3k (0.9.4.post1)
scikit-image (0.12.3)
scikit-learn (0.18.1)
scipy (0.19.0)
seaborn (0.7.1)
setuptools (34.3.2)
simplegeneric (0.8.1)
singledispatch (3.4.0.3)
six (1.10.0)
snowballstemmer (1.2.1)
sockjs-tornado (1.0.3)
Sphinx (1.5.3)
spyder (3.1.3)
SQLAlchemy (1.1.6)
statsmodels (0.8.0)
sympy (1.0)
tables (3.3.0)
tensorflow (1.0.1)
testpath (0.3)
toolz (0.8.2)
tornado (4.4.2)
traitlets (4.3.2)
unicodecsv (0.14.1)
wcwidth (0.1.7)
webencodings (0.5)
Werkzeug (0.12.1)
wheel (0.29.0)
widgetsnbextension (2.0.0)
win-unicode-console (0.5)
wrapt (1.10.10)
xlrd (1.0.0)
XlsxWriter (0.9.6)
xlwings (0.10.4)
xlwt (1.2.0)
您在 conda 环境 中安装了 1.18.15 hdf5 库，Tensorflow 的某些依赖项具有较新的 hdf5 1.8.18 头文件。
尝试将您的 conda hdf5 库 更新到更新的 1.8.18 或使用命令：
set HDF5_DISABLE_VERSION_CHECK=2
这应该会禁用警告但不提供任何正确执行的保证，因此最好将 hdf5 库更新到相同的版本 1.8.18。
我 运行 进入类似的错误信息，如：
Headers are 1.10.3, library is 1.10.4
尝试通过 运行 在 R 中安装 'rhd5' 时：
BiocManager::install("rhdf5")
我通过在 shell 中设置环境变量 "HDF5_DISABLE_VERSION_CHECK" 解决了这个问题：
export HDF5_DISABLE_VERSION_CHECK=1
然后再次进入R，继续安装rhdf5