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/home/vishweshk/.conda/envs/triads/bin/cmake -E cmake_progress_report /home/vishweshk/dynamicTriad/secondTry/DynamicTriad/core/mygraph-build/CMakeFiles/CMakeTmp/CMakeFiles 1
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Detecting CXX [-std=c++98] compiler features compiled with the following output:
Change Dir: /home/vishweshk/dynamicTriad/secondTry/DynamicTriad/core/mygraph-build/CMakeFiles/CMakeTmp
Run Build Command:"/usr/bin/make" "cmTryCompileExec902547240/fast"
/usr/bin/make -f CMakeFiles/cmTryCompileExec902547240.dir/build.make CMakeFiles/cmTryCompileExec902547240.dir/build
make[1]: Entering directory '/home/vishweshk/dynamicTriad/secondTry/DynamicTriad/core/mygraph-build/CMakeFiles/CMakeTmp'
/home/vishweshk/.conda/envs/triads/bin/cmake -E cmake_progress_report /home/vishweshk/dynamicTriad/secondTry/DynamicTriad/core/mygraph-build/CMakeFiles/CMakeTmp/CMakeFiles 1
Building CXX object CMakeFiles/cmTryCompileExec902547240.dir/feature_tests.cxx.o
/usr/bin/c++ -std=c++98 -o CMakeFiles/cmTryCompileExec902547240.dir/feature_tests.cxx.o -c /home/vishweshk/dynamicTriad/secondTry/DynamicTriad/core/mygraph-build/CMakeFiles/feature_tests.cxx
Linking CXX executable cmTryCompileExec902547240
/home/vishweshk/.conda/envs/triads/bin/cmake -E cmake_link_script CMakeFiles/cmTryCompileExec902547240.dir/link.txt --verbose=1
/usr/bin/c++ CMakeFiles/cmTryCompileExec902547240.dir/feature_tests.cxx.o -o cmTryCompileExec902547240 -rdynamic
make[1]: Leaving directory '/home/vishweshk/dynamicTriad/secondTry/DynamicTriad/core/mygraph-build/CMakeFiles/CMakeTmp'
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from dynamictriad.
The BOOST_INCLUDE_DIR looks weird, but the "No suitable boost_python variant" might be explained by the incompatible versions (see here.
I guess the problems are caused by either the incompatibility between the boost and the CMake versions, or the incompatibility of my outdated CMakeLIsts.txt.
I think you should do some research and try to find if there's a more suitable version of CMake, and I'll try to reproduce the problem if you post your CMake version here.
from dynamictriad.
Hi,
Thanks for the help.
I deprecated my version for boost 1.69 and used graph tool 2.28 , the installation finally came through.
However , while running the scripts/demo.sh on the latest tensorflow 2.1.0-dev20200102, the follow error pop s up
Using TensorFlow backend.
WARNING:tensorflow:Falling back to tensorflow client, its recommended to install the cloud tpu client directly with pip install cloud-tpu-client .
....
....
....
....
Traceback (most recent call last):
File "/home/vishweshk/.conda/envs/random/lib/python2.7/runpy.py", line 174, in _run_module_as_main
"__main__", fname, loader, pkg_name)
File "/home/vishweshk/.conda/envs/random/lib/python2.7/runpy.py", line 72, in _run_code
exec code in run_globals
File "/home/vishweshk/dynamicTriad/secondTry/DynamicTriad/__main__.py", line 5, in <module>
main()
File "./core/__init__.py", line 119, in main
tm.pretrain_begin_iteration()
File "./core/algorithm/dynamic_triad.py", line 261, in pretrain_begin_iteration
neg1_int, neg1_float = self.__emcoef(self._neg[1])
File "./core/algorithm/dynamic_triad.py", line 340, in __emcoef
cimpl_res = self.__emcoef_cimpl(data)
File "./core/algorithm/dynamic_triad.py", line 312, in __emcoef_cimpl
emb, theta = [K.get_value(v) for v in self.pretrain['vars']]
File "./core/algorithm/dynamic_triad.py", line 59, in pretrain
lf, pr, vs, cache = self.make_pretrain()
File "./core/algorithm/dynamic_triad.py", line 158, in make_pretrain
cstr = {embedding: constraints.get({'class_name': 'maxnorm', 'config': {'max_value': 1, 'axis': 2}}),
File "/home/vishweshk/.conda/envs/random/lib/python2.7/site-packages/tensorflow_core/python/ops/variables.py", line 1090, in __hash__
raise TypeError("Variable is unhashable if Tensor equality is enabled. "
TypeError: Variable is unhashable if Tensor equality is enabled. Instead, use tensor.experimental_ref() as the key.
Using the stable release(tensorflow==2.1) causes it to produce the following error
Traceback (most recent call last):
File "/home/vishweshk/.conda/envs/random/lib/python2.7/runpy.py", line 174, in _run_module_as_main
"__main__", fname, loader, pkg_name)
File "/home/vishweshk/.conda/envs/random/lib/python2.7/runpy.py", line 72, in _run_code
exec code in run_globals
File "/home/vishweshk/dynamicTriad/secondTry/DynamicTriad/__main__.py", line 5, in <module>
main()
File "./core/__init__.py", line 119, in main
tm.pretrain_begin_iteration()
File "./core/algorithm/dynamic_triad.py", line 261, in pretrain_begin_iteration
neg1_int, neg1_float = self.__emcoef(self._neg[1])
File "./core/algorithm/dynamic_triad.py", line 340, in __emcoef
cimpl_res = self.__emcoef_cimpl(data)
File "./core/algorithm/dynamic_triad.py", line 312, in __emcoef_cimpl
emb, theta = [K.get_value(v) for v in self.pretrain['vars']]
File "./core/algorithm/dynamic_triad.py", line 59, in pretrain
lf, pr, vs, cache = self.make_pretrain()
File "./core/algorithm/dynamic_triad.py", line 108, in make_pretrain
dist_pos = K.gather_nd(embedding, posedge1) - K.gather_nd(embedding, posedge2)
File "./core/kerasext/keras_backend_patches/tensorflow_patches.py", line 5, in gather_nd
return tf.gather_nd(param, indices)
File "/home/vishweshk/.conda/envs/random/lib/python2.7/site-packages/tensorflow_core/python/util/dispatch.py", line 180, in wrapper
return target(*args, **kwargs)
File "/home/vishweshk/.conda/envs/random/lib/python2.7/site-packages/tensorflow_core/python/ops/array_ops.py", line 4436, in gather_nd_v2
return gather_nd(params, indices, name=name, batch_dims=batch_dims)
File "/home/vishweshk/.conda/envs/random/lib/python2.7/site-packages/tensorflow_core/python/util/dispatch.py", line 180, in wrapper
return target(*args, **kwargs)
File "/home/vishweshk/.conda/envs/random/lib/python2.7/site-packages/tensorflow_core/python/ops/array_ops.py", line 4426, in gather_nd
return params.gather_nd(indices, name=name)
File "/home/vishweshk/.conda/envs/random/lib/python2.7/site-packages/tensorflow_core/python/ops/resource_variable_ops.py", line 665, in gather_nd
self._handle, indices, dtype=self._dtype, name=name)
File "/home/vishweshk/.conda/envs/random/lib/python2.7/site-packages/tensorflow_core/python/ops/gen_resource_variable_ops.py", line 638, in resource_gather_nd
name=name)
File "/home/vishweshk/.conda/envs/random/lib/python2.7/site-packages/tensorflow_core/python/framework/op_def_library.py", line 742, in _apply_op_helper
attrs=attr_protos, op_def=op_def)
File "/home/vishweshk/.conda/envs/random/lib/python2.7/site-packages/tensorflow_core/python/framework/func_graph.py", line 595, in _create_op_internal
compute_device)
File "/home/vishweshk/.conda/envs/random/lib/python2.7/site-packages/tensorflow_core/python/framework/ops.py", line 3322, in _create_op_internal
op_def=op_def)
File "/home/vishweshk/.conda/envs/random/lib/python2.7/site-packages/tensorflow_core/python/framework/ops.py", line 1786, in __init__
control_input_ops)
File "/home/vishweshk/.conda/envs/random/lib/python2.7/site-packages/tensorflow_core/python/framework/ops.py", line 1622, in _create_c_op
raise ValueError(str(e))
ValueError: Duplicate node name in graph: 'GatherNd'
Could you help me out ?
this is the response i get with conda list
# packages in environment at /home/vishweshk/.conda/envs/random:
#
# Name Version Build Channel
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astroid 1.6.5 py27_0
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at-spi2-atk 2.26.2 h9b4a0fc_1 ostrokach-forge
at-spi2-core 2.28.0 h9b4a0fc_1 ostrokach-forge
atk 2.25.90 hf2eb9ee_1001 conda-forge
atomicwrites 1.3.0 py27_1
attrs 19.2.0 py_0
babel 2.7.0 py_0
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backports.weakref 1.0.post1 py27_1000 conda-forge
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beautifulsoup4 4.8.0 py27_0
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cachetools 3.1.1 <pip>
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distributed 1.28.1 py27_0
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eigen 3.3.7 hc9558a2_1001 conda-forge
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pkginfo 1.5.0.1 py27_0
pluggy 0.13.0 py27_0
ply 3.11 py27_0
prometheus_client 0.7.1 py_0
prompt_toolkit 1.0.15 py27_0
protobuf 3.11.2 py27he1b5a44_0 conda-forge
psutil 5.6.3 py27h7b6447c_0
ptyprocess 0.6.0 py27_0
py 1.8.0 py27_0
py-lief 0.9.0 py27h7725739_2
pyasn1 0.4.8 <pip>
pyasn1-modules 0.2.8 <pip>
pycairo 1.18.1 py27h2a1e443_0
pycodestyle 2.5.0 py27_0
pycosat 0.6.3 py27h14c3975_0
pycparser 2.19 py27_0
pycrypto 2.6.1 py27h14c3975_9
pycurl 7.43.0.3 py27h1ba5d50_0
pyflakes 2.1.1 py27_0
pygments 2.4.2 py_0
pygobject 3.28.3 py27h89f6ae1_1001 conda-forge
pylint 1.9.2 py27_0
pyodbc 4.0.27 py27he6710b0_0
pyopenssl 19.0.0 py27_0
pyparsing 2.4.2 py_0
pyqt 5.9.2 py27h05f1152_2
pyrsistent 0.15.4 py27h7b6447c_0
pysocks 1.7.1 py27_0
pytables 3.5.2 py27h71ec239_1
pytest 4.6.2 py27_0
python 2.7.16 h9bab390_7
python-dateutil 2.8.0 py27_0
python-libarchive-c 2.8 py27_13
pytz 2019.3 py_0
pywavelets 1.0.3 py27hdd07704_1
pyyaml 5.1.2 py27h7b6447c_0
pyzmq 18.1.0 py27he6710b0_0
qt 5.9.7 h5867ecd_1
qtawesome 0.6.0 py_0
qtconsole 4.5.5 py_0
qtpy 1.9.0 py_0
readline 7.0 h7b6447c_5
regex 2020.1.8 <pip>
requests 2.22.0 py27_0
requests-oauthlib 1.3.0 <pip>
rhash 1.3.8 h1ba5d50_0 anaconda
ripgrep 0.10.0 hc07d326_0
rope 0.14.0 py_0
rsa 4.0 <pip>
ruamel_yaml 0.15.46 py27h14c3975_0
scandir 1.10.0 py27h7b6447c_0
scikit-image 0.14.2 py27he6710b0_0
scikit-learn 0.20.3 py27hd81dba3_0
scipy 1.2.1 py27h7c811a0_0
scipy 1.2.2 <pip>
seaborn 0.9.0 py27_0
send2trash 1.5.0 py27_0
setuptools 41.4.0 py27_0
setuptools 44.0.0 <pip>
simplegeneric 0.8.1 py27_2
singledispatch 3.4.0.3 py27_0
sip 4.19.8 py27hf484d3e_0
six 1.12.0 py27_0
snappy 1.1.7 hbae5bb6_3
snowballstemmer 2.0.0 py_0
sortedcollections 1.1.2 py27_0
sortedcontainers 2.1.0 py27_0
soupsieve 1.9.3 py27_0
sparsehash 2.0.3 hf484d3e_1000 conda-forge
sphinx 1.8.5 py27_0
sphinxcontrib 1.0 py27_1
sphinxcontrib-websupport 1.1.2 py_0
spyder 3.3.6 py27_0
spyder-kernels 0.5.2 py27_0
sqlalchemy 1.3.9 py27h7b6447c_0
sqlite 3.30.0 h7b6447c_0
ssl_match_hostname 3.7.0.1 py27_0
statsmodels 0.10.1 py27hdd07704_0
subprocess32 3.5.4 py27h7b6447c_0
sympy 1.4 py27_0
tb-nightly 2.2.0a20200106 <pip>
tbb 2019.4 hfd86e86_0
tblib 1.4.0 py_0
tensorboard 1.13.1 py27_0 conda-forge
tensorboard 2.1.0 <pip>
tensorflow 2.1.0 <pip>
tensorflow 1.13.2 h76b4ce7_0 conda-forge
tensorflow-base 1.13.2 py27h76b4ce7_0 conda-forge
tensorflow-estimator 2.1.0 <pip>
tensorflow-estimator 1.13.0 py_0
termcolor 1.1.0 py_2 conda-forge
terminado 0.8.2 py27_0
testpath 0.4.2 py27_0
tf-estimator-nightly 2.1.0.dev2020012309 <pip>
tf-nightly 2.1.0.dev20200102 <pip>
tk 8.6.8 hbc83047_0
toolz 0.10.0 py_0
tornado 5.1.1 py27h7b6447c_0
tqdm 4.36.1 py_0
traceback2 1.4.0 py27_0
traitlets 4.3.3 py27_0
typing 3.7.4.1 py27_0
unicodecsv 0.14.1 py27_0
unittest2 1.1.0 py27_0
unixodbc 2.3.7 h14c3975_0
urllib3 1.24.2 py27_0
wcwidth 0.1.7 py27_0
webencodings 0.5.1 py27_1
werkzeug 0.16.0 py_0
wheel 0.33.6 py27_0
widgetsnbextension 3.5.1 py27_0
wrapt 1.11.2 py27h7b6447c_0
wurlitzer 1.0.3 py27_0
xlrd 1.2.0 py27_0
xlsxwriter 1.2.1 py_0
xlwt 1.3.0 py27_0
xorg-fixesproto 5.0 h14c3975_1002 conda-forge
xorg-inputproto 2.3.2 h14c3975_1002 conda-forge
xorg-kbproto 1.0.7 h14c3975_1002 conda-forge
xorg-libice 1.0.10 h516909a_0 conda-forge
xorg-libsm 1.2.3 h84519dc_1000 conda-forge
xorg-libx11 1.6.9 h516909a_0 conda-forge
xorg-libxext 1.3.4 h516909a_0 conda-forge
xorg-libxfixes 5.0.3 h516909a_1004 conda-forge
xorg-libxi 1.7.10 h516909a_0 conda-forge
xorg-libxrender 0.9.10 h516909a_1002 conda-forge
xorg-libxtst 1.2.3 h516909a_1002 conda-forge
xorg-recordproto 1.14.2 h516909a_1002 conda-forge
xorg-renderproto 0.11.1 h14c3975_1002 conda-forge
xorg-xextproto 7.3.0 h14c3975_1002 conda-forge
xorg-xproto 7.0.31 h14c3975_1007 conda-forge
xz 5.2.4 h14c3975_4
yaml 0.1.7 had09818_2
zeromq 4.3.1 he6710b0_3
zict 1.0.0 py_0
zipp 0.6.0 py_0
zlib 1.2.11 h7b6447c_3
zstd 1.3.7 h0b5b093_0
And with pip freeze
absl-py==0.9.0
alabaster==0.7.12
anaconda-client==1.7.2
anaconda-project==0.8.3
asn1crypto==1.0.1
astor==0.7.1
astroid==1.6.5
astropy==2.0.9
atomicwrites==1.3.0
attrs==19.2.0
Babel==2.7.0
backports-abc==0.5
backports.functools-lru-cache==1.5
backports.os==0.1.1
backports.shutil-get-terminal-size==1.0.0
backports.ssl-match-hostname==3.7.0.1
backports.weakref==1.0.post1
beautifulsoup4==4.8.0
bitarray==1.0.1
bkcharts==0.2
bleach==3.1.0
bokeh==1.3.4
boto==2.49.0
Bottleneck==1.2.1
cachetools==3.1.1
cdecimal==2.3
certifi==2019.11.28
cffi==1.12.3
chardet==3.0.4
Click==7.0
cloudpickle==1.2.2
clyent==1.2.2
colorama==0.4.1
configparser==4.0.2
contextlib2==0.6.0
cryptography==2.7
cycler==0.10.0
Cython==0.29.13
cytoolz==0.10.0
dask==1.2.2
decorator==4.4.0
defusedxml==0.6.0
dill==0.3.1.1
distributed==1.28.1
docutils==0.15.2
entrypoints==0.3
enum34==1.1.6
et-xmlfile==1.0.1
fastcache==1.1.0
filelock==3.0.12
Flask==1.1.1
funcsigs==1.0.2
functools32==3.2.3.post2
future==0.17.1
futures==3.3.0
gast==0.2.2
gevent==1.4.0
glob2==0.7
gmpy2==2.0.8
google-auth==1.10.2
google-auth-oauthlib==0.4.1
google-pasta==0.1.8
greenlet==0.4.15
grin==1.2.1
grpcio==1.25.0
h5py==2.10.0
HeapDict==1.0.1
html5lib==1.0.1
idna==2.8
imageio==2.6.0
imagesize==1.1.0
importlib-metadata==0.23
ipaddress==1.0.22
ipykernel==4.10.0
ipython==5.8.0
ipython-genutils==0.2.0
ipywidgets==7.5.1
isort==4.3.21
itsdangerous==1.1.0
jdcal==1.4.1
jedi==0.15.1
Jinja2==2.10.3
jsonschema==3.0.2
jupyter==1.0.0
jupyter-client==5.3.3
jupyter-console==5.2.0
jupyter-core==4.5.0
jupyterlab==0.33.11
jupyterlab-launcher==0.11.2
Keras==2.3.0
Keras-Applications==1.0.8
Keras-Preprocessing==1.1.0
kiwisolver==1.1.0
lazy-object-proxy==1.4.2
libarchive-c==2.8
lief==0.9.0
linecache2==1.0.0
llvmlite==0.29.0
locket==0.2.0
lxml==4.4.1
Markdown==3.1.1
MarkupSafe==1.1.1
matplotlib==2.2.3
mccabe==0.6.1
mistune==0.8.4
mkl-fft==1.0.14
mkl-random==1.1.0
mkl-service==2.3.0
mock==3.0.5
more-itertools==5.0.0
mpmath==1.1.0
msgpack==0.6.1
multipledispatch==0.6.0
nbconvert==5.6.0
nbformat==4.4.0
networkx==2.2
nltk==3.4.5
nose==1.3.7
notebook==5.7.8
numba==0.45.1+0.ga9c107beb.dirty
numexpr==2.7.0
numpy==1.16.5
numpydoc==0.9.1
oauthlib==3.1.0
olefile==0.46
openpyxl==2.6.3
opt-einsum==2.3.2
packaging==19.2
pandas==0.24.2
pandocfilters==1.4.2
parso==0.5.1
partd==1.0.0
path.py==11.5.0
pathlib2==2.3.5
patsy==0.5.1
pep8==1.7.1
pexpect==4.7.0
pickleshare==0.7.5
Pillow==6.2.0
pkginfo==1.5.0.1
pluggy==0.13.0
ply==3.11
prometheus-client==0.7.1
prompt-toolkit==1.0.15
protobuf==3.11.2
psutil==5.6.3
ptyprocess==0.6.0
py==1.8.0
pyasn1==0.4.8
pyasn1-modules==0.2.8
pycairo==1.18.1
pycodestyle==2.5.0
pycosat==0.6.3
pycparser==2.19
pycrypto==2.6.1
pycurl==7.43.0.3
pyflakes==2.1.1
Pygments==2.4.2
pygobject==3.28.3
pylint==1.9.2
pyodbc==4.0.27
pyOpenSSL==19.0.0
pyparsing==2.4.2
pyrsistent==0.15.4
PySocks==1.7.1
pytest==4.6.2
python-dateutil==2.8.0
pytz==2019.3
PyWavelets==1.0.3
PyYAML==5.1.2
pyzmq==18.1.0
QtAwesome==0.6.0
qtconsole==4.5.5
QtPy==1.9.0
regex==2020.1.8
requests==2.22.0
requests-oauthlib==1.3.0
rope==0.14.0
rsa==4.0
ruamel-yaml==0.15.46
scandir==1.10.0
scikit-image==0.14.2
scikit-learn==0.20.3
scipy==1.2.2
seaborn==0.9.0
Send2Trash==1.5.0
simplegeneric==0.8.1
singledispatch==3.4.0.3
six==1.12.0
snowballstemmer==2.0.0
sortedcollections==1.1.2
sortedcontainers==2.1.0
soupsieve==1.9.3
Sphinx==1.8.5
sphinxcontrib-websupport==1.1.2
spyder==3.3.6
spyder-kernels==0.5.2
SQLAlchemy==1.3.9
statsmodels==0.10.1
subprocess32==3.5.4
sympy==1.4
tables==3.5.2
tb-nightly==2.2.0a20200106
tblib==1.4.0
tensorboard==2.1.0
tensorflow==2.1.0
tensorflow-estimator==2.1.0
termcolor==1.1.0
terminado==0.8.2
testpath==0.4.2
tf-estimator-nightly==2.1.0.dev2020012309
toolz==0.10.0
tornado==5.1.1
tqdm==4.36.1
traceback2==1.4.0
traitlets==4.3.3
typing==3.7.4.1
unicodecsv==0.14.1
unittest2==1.1.0
urllib3==1.24.2
wcwidth==0.1.7
webencodings==0.5.1
Werkzeug==0.16.0
widgetsnbextension==3.5.1
wrapt==1.11.2
wurlitzer==1.0.3
xlrd==1.2.0
XlsxWriter==1.2.1
xlwt==1.3.0
zict==1.0.0
zipp==0.6.0
from dynamictriad.
Switched to a dockerized container, and built from scratch in it. Got it working.
from dynamictriad.
Switched to a dockerized container, and built from scratch in it. Got it working.
Hi,
Congratulations on successfully getting it to work, I'm still having a lot of problems with the build process.
So I would like to ask you if you can share the docker image.
If it is convenient, your sharing will benefit the public, thank you very much.
from dynamictriad.
Related Issues (20)
- -validation none Error! HOT 3
- About academic dataset HOT 5
- error while executing scripts/test.py HOT 1
- About online training HOT 3
- should I use CPU or GPU ? HOT 3
- boost_pylib HOT 1
- CMakeLists.txt has not been tested/written for your compiler HOT 3
- Dataset problem HOT 1
- experimental results HOT 1
- Build errors HOT 17
- Could you explain more about how to do the link prediction evaluation in the paper? HOT 1
- error when load pickle running demo.sh HOT 1
- Baseline Methods HOT 1
- bash build.sh error HOT 6
- question on using personal datasets
- two questions about the paper HOT 2
- About the performance of DynamicTriad on Academic Full dataset
- C++ error HOT 2
- error at bash build.sh HOT 8
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from dynamictriad.