core dump when runs graphsage with ppi data

[better629]

euler version: euler_gl-0.1.2-py2.7 I generate ppi example with ppi_data.py. And then run the command

python -m tf_euler \
>   --data_dir ppi \
>   --max_id 56944 --feature_idx 1 --feature_dim 50 --label_idx 0 --label_dim 121 \
>   --model graphsage --mode train

The output is below:

I0917 03:12:03.831502 24604 graph_builder.cc:81] Load Done: ppi/ppi_data.dat
I0917 03:12:03.831904 24554 graph_builder.cc:127] Each Thread Load Finish! Node Count:56944 Edge Count:1612348
I0917 03:12:03.831966 24554 graph_builder.cc:135] Graph Loading Finish!
I0917 03:12:04.269271 24554 graph_builder.cc:147] Graph Load Finish! Node Count:56944 Edge Count:1612348
I0917 03:12:04.511008 24554 graph_builder.cc:159] Done: build all sampler
I0917 03:12:04.511050 24554 graph_builder.cc:162] Graph build finish
WARNING:tensorflow:From /usr/local/lib/python2.7/dist-packages/euler_gl-0.1.2-py2.7.egg/tf_euler/python/encoders.py:354: The name tf.logging.warning is deprecated. Please use tf.compat.v1.logging.warning instead.

W0917 03:12:04.512913 140283727066944 deprecation_wrapper.py:119] From /usr/local/lib/python2.7/dist-packages/euler_gl-0.1.2-py2.7.egg/tf_euler/python/encoders.py:354: The name tf.logging.warning is deprecated. Please use tf.compat.v1.logging.warning instead.

WARNING:tensorflow:use_feature is deprecated and would not have any effect.
W0917 03:12:04.513195 140283727066944 encoders.py:354] use_feature is deprecated and would not have any effect.
Segmentation fault (core dumped)

The py-bt information of core file is

(gdb) py-bt
Traceback (most recent call first):
  File "/usr/local/lib/python2.7/dist-packages/tensorflow/python/framework/ops.py", line 1864, in _create_c_op
    c_op = c_api.TF_FinishOperation(op_desc)
  File "/usr/local/lib/python2.7/dist-packages/tensorflow/python/framework/ops.py", line 2027, in __init__
    control_input_ops)
  File "/usr/local/lib/python2.7/dist-packages/tensorflow/python/framework/ops.py", line 3616, in create_op
    op_def=op_def)
  File "/usr/local/lib/python2.7/dist-packages/tensorflow/python/util/deprecation.py", line 507, in new_func
    return func(*args, **kwargs)
  File "/usr/local/lib/python2.7/dist-packages/tensorflow/python/framework/op_def_library.py", line 788, in _apply_op_helper
    op_def=op_def)
  File "<string>", line 74, in sample_node
  File "/usr/local/lib/python2.7/dist-packages/euler_gl-0.1.2-py2.7.egg/tf_euler/python/run_loop.py", line 104, in run_train
    count=batch_size, node_type=flags_obj.train_node_type)
  File "/usr/local/lib/python2.7/dist-packages/euler_gl-0.1.2-py2.7.egg/tf_euler/python/run_loop.py", line 357, in run_network_embedding
    run_train(model, flags_obj, master, is_chief)
  File "/usr/local/lib/python2.7/dist-packages/euler_gl-0.1.2-py2.7.egg/tf_euler/python/run_loop.py", line 368, in run_local
    run(flags_obj, master='', is_chief=True)
  File "/usr/local/lib/python2.7/dist-packages/euler_gl-0.1.2-py2.7.egg/tf_euler/python/run_loop.py", line 405, in main
    run_local(flags_obj, run_network_embedding)
  File "/usr/local/lib/python2.7/dist-packages/absl/app.py", line 250, in _run_main
    sys.exit(main(argv))
  File "/usr/local/lib/python2.7/dist-packages/absl/app.py", line 299, in run
    _run_main(main, args)
  File "/usr/local/lib/python2.7/dist-packages/tensorflow/python/platform/app.py", line 40, in run
    _run(main=main, argv=argv, flags_parser=_parse_flags_tolerate_undef)
  File "/usr/local/lib/python2.7/dist-packages/euler_gl-0.1.2-py2.7.egg/tf_euler/__main__.py", line 28, in <module>
    tf.app.run(run_loop.main)
  File "/usr/lib/python2.7/runpy.py", line 72, in _run_code
    exec code in run_globals
  File "/usr/lib/python2.7/runpy.py", line 174, in _run_module_as_main
    "__main__", fname, loader, pkg_name)

Do you have any suggestions about the core-dump problem?

Thank you!

[carmanzhang]

I solved the problem, try to use tensorflow 1.12 via pip --no-cache-dir install tensorflow==1.12

[better629]

Yes, the docker install tensorflow with the lastest version default. We should install the version==1.12.0 You should update the pandas packages and so on or that will happen with a tf.estimator package not installed problem during installation.

[Yang-HangWA]

@@better629 @yangsiran Hello, I have met the same problem, have any solution for this problem ?

[better629]

@Yang-HangWA see above