Please provide examples of training and usage with known academic graph datasets. It would be worth to have the recent published TUDATASET benchmark for graph regression and classification, since it collects more than 100 hundred graph datasets.

Thanks for this library, cannot wait to try it!

Hello,

I'm trying to install tensorflow_gnn on macOS Big Sur 11.5.2.

I have bazel and graphviz installed via Homebrew. I cloned the repo locally and installed TensorFlow 2.7.

Then I try to run this command as per the README:

cd tensorflow_gnn && python3 -m pip install .

I get this error:

(TensorFlow) rish $ cd tensorflow_gnn && python3 -m pip install .
Processing /Users/rishabhanand/Desktop/tfgnn-models/tensorflow_gnn
  DEPRECATION: A future pip version will change local packages to be built in-place without first copying to a temporary directory. We recommend you use --use-feature=in-tree-build to test your packages with this new behavior before it becomes the default.
   pip 21.3 will remove support for this functionality. You can find discussion regarding this at https://github.com/pypa/pip/issues/7555.
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Building wheels for collected packages: tensorflow-gnn
  Building wheel for tensorflow-gnn (setup.py) ... error
  ERROR: Command errored out with exit status 1:
   command: /Users/rishabhanand/miniconda3/envs/TensorFlow/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/private/var/folders/s5/g5knq0hd405dd5lx90_lshdc0000gn/T/pip-req-build-kgqd2bkw/setup.py'"'"'; __file__='"'"'/private/var/folders/s5/g5knq0hd405dd5lx90_lshdc0000gn/T/pip-req-build-kgqd2bkw/setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' bdist_wheel -d /private/var/folders/s5/g5knq0hd405dd5lx90_lshdc0000gn/T/pip-wheel-mthpqja5
       cwd: /private/var/folders/s5/g5knq0hd405dd5lx90_lshdc0000gn/T/pip-req-build-kgqd2bkw/
  Complete output (50 lines):
  running bdist_wheel
  running build
  running bazel_build
  Starting local Bazel server and connecting to it...
  Loading:
  Loading: 0 packages loaded
  Loading: 0 packages loaded
  Loading: 0 packages loaded
  DEBUG: /private/var/tmp/_bazel_rishabhanand/079daae8407a39d2a06054d5b945f048/external/tf_runtime/third_party/cuda/dependencies.bzl:51:10: The following command will download NVIDIA proprietary software. By using the software you agree to comply with the terms of the license agreement that accompanies the software. If you do not agree to the terms of the license agreement, do not use the software.
  Loading: 0 packages loaded
  Loading: 0 packages loaded
  Loading: 0 packages loaded
  Loading: 0 packages loaded
  Analyzing: target //package:move_generated_files (1 packages loaded, 0 targets configured)
  ERROR: /private/var/folders/s5/g5knq0hd405dd5lx90_lshdc0000gn/T/pip-req-build-kgqd2bkw/package/BUILD:10:10: no such target '//tensorflow_gnn/sampler:sampling_spec_pb2.py': target 'sampling_spec_pb2.py' not declared in package 'tensorflow_gnn/sampler' defined by /private/var/folders/s5/g5knq0hd405dd5lx90_lshdc0000gn/T/pip-req-build-kgqd2bkw/tensorflow_gnn/sampler/BUILD and referenced by '//package:move_generated_files'
  ERROR: Analysis of target '//package:move_generated_files' failed; build aborted: Analysis failed
  INFO: Elapsed time: 29.988s
  INFO: 0 processes.
  FAILED: Build did NOT complete successfully (10 packages loaded, 10 targets configured)
  ERROR: Build failed. Not running target
  FAILED: Build did NOT complete successfully (10 packages loaded, 10 targets configured)
  Traceback (most recent call last):
    File "<string>", line 1, in <module>
    File "/private/var/folders/s5/g5knq0hd405dd5lx90_lshdc0000gn/T/pip-req-build-kgqd2bkw/setup.py", line 152, in <module>
      setup(
    File "/Users/rishabhanand/miniconda3/envs/TensorFlow/lib/python3.9/site-packages/setuptools/__init__.py", line 153, in setup
      return distutils.core.setup(**attrs)
    File "/Users/rishabhanand/miniconda3/envs/TensorFlow/lib/python3.9/distutils/core.py", line 148, in setup
      dist.run_commands()
    File "/Users/rishabhanand/miniconda3/envs/TensorFlow/lib/python3.9/distutils/dist.py", line 966, in run_commands
      self.run_command(cmd)
    File "/Users/rishabhanand/miniconda3/envs/TensorFlow/lib/python3.9/distutils/dist.py", line 985, in run_command
      cmd_obj.run()
    File "/Users/rishabhanand/miniconda3/envs/TensorFlow/lib/python3.9/site-packages/wheel/bdist_wheel.py", line 299, in run
      self.run_command('build')
    File "/Users/rishabhanand/miniconda3/envs/TensorFlow/lib/python3.9/distutils/cmd.py", line 313, in run_command
      self.distribution.run_command(command)
    File "/Users/rishabhanand/miniconda3/envs/TensorFlow/lib/python3.9/distutils/dist.py", line 985, in run_command
      cmd_obj.run()
    File "/Users/rishabhanand/miniconda3/envs/TensorFlow/lib/python3.9/distutils/command/build.py", line 135, in run
      self.run_command(cmd_name)
    File "/Users/rishabhanand/miniconda3/envs/TensorFlow/lib/python3.9/distutils/cmd.py", line 313, in run_command
      self.distribution.run_command(command)
    File "/Users/rishabhanand/miniconda3/envs/TensorFlow/lib/python3.9/distutils/dist.py", line 985, in run_command
      cmd_obj.run()
    File "/private/var/folders/s5/g5knq0hd405dd5lx90_lshdc0000gn/T/pip-req-build-kgqd2bkw/setup.py", line 86, in run
      subprocess.check_call(
    File "/Users/rishabhanand/miniconda3/envs/TensorFlow/lib/python3.9/subprocess.py", line 373, in check_call
      raise CalledProcessError(retcode, cmd)
  subprocess.CalledProcessError: Command '['/usr/local/bin/bazel', 'run', '-c', 'opt', '--experimental_repo_remote_exec', '--macos_minimum_os=10.9', '//package:move_generated_files']' returned non-zero exit status 1.
  ----------------------------------------
  ERROR: Failed building wheel for tensorflow-gnn
  Running setup.py clean for tensorflow-gnn
Failed to build tensorflow-gnn
Installing collected packages: tensorflow-gnn
    Running setup.py install for tensorflow-gnn ... error
    ERROR: Command errored out with exit status 1:
     command: /Users/rishabhanand/miniconda3/envs/TensorFlow/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/private/var/folders/s5/g5knq0hd405dd5lx90_lshdc0000gn/T/pip-req-build-kgqd2bkw/setup.py'"'"'; __file__='"'"'/private/var/folders/s5/g5knq0hd405dd5lx90_lshdc0000gn/T/pip-req-build-kgqd2bkw/setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' install --record /private/var/folders/s5/g5knq0hd405dd5lx90_lshdc0000gn/T/pip-record-0ma3o1eu/install-record.txt --single-version-externally-managed --compile --install-headers /Users/rishabhanand/miniconda3/envs/TensorFlow/include/python3.9/tensorflow-gnn
         cwd: /private/var/folders/s5/g5knq0hd405dd5lx90_lshdc0000gn/T/pip-req-build-kgqd2bkw/
    Complete output (45 lines):
    running install
    running build
    running bazel_build
    Loading:
    Loading: 0 packages loaded
    DEBUG: /private/var/tmp/_bazel_rishabhanand/079daae8407a39d2a06054d5b945f048/external/tf_runtime/third_party/cuda/dependencies.bzl:51:10: The following command will download NVIDIA proprietary software. By using the software you agree to comply with the terms of the license agreement that accompanies the software. If you do not agree to the terms of the license agreement, do not use the software.
    Analyzing: target //package:move_generated_files (0 packages loaded, 0 targets configured)
    ERROR: /private/var/folders/s5/g5knq0hd405dd5lx90_lshdc0000gn/T/pip-req-build-kgqd2bkw/package/BUILD:10:10: no such target '//tensorflow_gnn/sampler:sampling_spec_pb2.py': target 'sampling_spec_pb2.py' not declared in package 'tensorflow_gnn/sampler' defined by /private/var/folders/s5/g5knq0hd405dd5lx90_lshdc0000gn/T/pip-req-build-kgqd2bkw/tensorflow_gnn/sampler/BUILD and referenced by '//package:move_generated_files'
    ERROR: Analysis of target '//package:move_generated_files' failed; build aborted: Analysis failed
    INFO: Elapsed time: 0.191s
    INFO: 0 processes.
    FAILED: Build did NOT complete successfully (0 packages loaded, 0 targets configured)
    ERROR: Build failed. Not running target
    FAILED: Build did NOT complete successfully (0 packages loaded, 0 targets configured)
    Traceback (most recent call last):
      File "<string>", line 1, in <module>
      File "/private/var/folders/s5/g5knq0hd405dd5lx90_lshdc0000gn/T/pip-req-build-kgqd2bkw/setup.py", line 152, in <module>
        setup(
      File "/Users/rishabhanand/miniconda3/envs/TensorFlow/lib/python3.9/site-packages/setuptools/__init__.py", line 153, in setup
        return distutils.core.setup(**attrs)
      File "/Users/rishabhanand/miniconda3/envs/TensorFlow/lib/python3.9/distutils/core.py", line 148, in setup
        dist.run_commands()
      File "/Users/rishabhanand/miniconda3/envs/TensorFlow/lib/python3.9/distutils/dist.py", line 966, in run_commands
        self.run_command(cmd)
      File "/Users/rishabhanand/miniconda3/envs/TensorFlow/lib/python3.9/distutils/dist.py", line 985, in run_command
        cmd_obj.run()
      File "/Users/rishabhanand/miniconda3/envs/TensorFlow/lib/python3.9/site-packages/setuptools/command/install.py", line 61, in run
        return orig.install.run(self)
      File "/Users/rishabhanand/miniconda3/envs/TensorFlow/lib/python3.9/distutils/command/install.py", line 546, in run
        self.run_command('build')
      File "/Users/rishabhanand/miniconda3/envs/TensorFlow/lib/python3.9/distutils/cmd.py", line 313, in run_command
        self.distribution.run_command(command)
      File "/Users/rishabhanand/miniconda3/envs/TensorFlow/lib/python3.9/distutils/dist.py", line 985, in run_command
        cmd_obj.run()
      File "/Users/rishabhanand/miniconda3/envs/TensorFlow/lib/python3.9/distutils/command/build.py", line 135, in run
        self.run_command(cmd_name)
      File "/Users/rishabhanand/miniconda3/envs/TensorFlow/lib/python3.9/distutils/cmd.py", line 313, in run_command
        self.distribution.run_command(command)
      File "/Users/rishabhanand/miniconda3/envs/TensorFlow/lib/python3.9/distutils/dist.py", line 985, in run_command
        cmd_obj.run()
      File "/private/var/folders/s5/g5knq0hd405dd5lx90_lshdc0000gn/T/pip-req-build-kgqd2bkw/setup.py", line 86, in run
        subprocess.check_call(
      File "/Users/rishabhanand/miniconda3/envs/TensorFlow/lib/python3.9/subprocess.py", line 373, in check_call
        raise CalledProcessError(retcode, cmd)
    subprocess.CalledProcessError: Command '['/usr/local/bin/bazel', 'run', '-c', 'opt', '--experimental_repo_remote_exec', '--macos_minimum_os=10.9', '//package:move_generated_files']' returned non-zero exit status 1.
    ----------------------------------------
ERROR: Command errored out with exit status 1: /Users/rishabhanand/miniconda3/envs/TensorFlow/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/private/var/folders/s5/g5knq0hd405dd5lx90_lshdc0000gn/T/pip-req-build-kgqd2bkw/setup.py'"'"'; __file__='"'"'/private/var/folders/s5/g5knq0hd405dd5lx90_lshdc0000gn/T/pip-req-build-kgqd2bkw/setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' install --record /private/var/folders/s5/g5knq0hd405dd5lx90_lshdc0000gn/T/pip-record-0ma3o1eu/install-record.txt --single-version-externally-managed --compile --install-headers /Users/rishabhanand/miniconda3/envs/TensorFlow/include/python3.9/tensorflow-gnn Check the logs for full command output.
(TensorFlow) rish $ 

Any help here would be greatly appreciated! Are there any other prerequisites I need to run it smoothly / install from source?

Thank you!

ModuleNotFoundError: No module named 'tensorflow_gnn.proto.graph_schema_pb2' when run gat_v2_test.py. Where is the graph_schema_pb2 file? it is py or proto file?

How to use local file tensorflow-2.7.0.tar.gz and DO NOT download from below bazel settings:

"""Dependency on TensorFlow for build."""

load("@bazel_tools//tools/build_defs/repo:http.bzl", "http_archive")

def tf_setup(): """Define tensorflow>=2.7.0 dependency for Bazel build.""" http_archive( name = "org_tensorflow", sha256 = "41b32eeaddcbc02b0583660bcf508469550e4cd0f86b22d2abe72dfebeacde0f", urls = [ "https://github.com/tensorflow/tensorflow/archive/refs/tags/v2.7.0.tar.gz", ], strip_prefix = "tensorflow-2.7.0", )

I am trying to install tensorflow_gnn in my own environment on MacOS Monterey. My Python version is 3.9 and I have Bazel, tensorflow and graphviz installed. The errors are the following:

Building wheels for collected packages: tensorflow-gnn, pygraphviz
  Building wheel for tensorflow-gnn (setup.py) ... error
  error: subprocess-exited-with-error
  
  × python setup.py bdist_wheel did not run successfully.
  │ exit code: 1
  ╰─> [63 lines of output]
      running bdist_wheel
      running build
      running bazel_build
      Loading:
      Loading: 0 packages loaded
      Loading: 0 packages loaded
      Loading: 0 packages loaded
      Loading: 0 packages loaded
      Loading: 0 packages loaded
      Loading: 0 packages loaded
      INFO: Repository org_tensorflow instantiated at:
        /Users/joseperezcano/Desktop/IDAO_2022/tensorflow_gnn/WORKSPACE:7:9: in <toplevel>
        /Users/joseperezcano/Desktop/IDAO_2022/tensorflow_gnn/package/tfdep.bzl:7:17: in tf_setup
      Repository rule http_archive defined at:
        /private/var/tmp/_bazel_joseperezcano/9bb9c29a27614ceb3a61050e6f96bc44/external/bazel_tools/tools/build_defs/repo/http.bzl:364:31: in <toplevel>
      WARNING: Download from https://github.com/tensorflow/tensorflow/archive/refs/tags/v2.6.0.tar.gz failed: class java.io.IOException Proxy address localhost:8080 is not a valid URL
      ERROR: An error occurred during the fetch of repository 'org_tensorflow':
         Traceback (most recent call last):
          File "/private/var/tmp/_bazel_joseperezcano/9bb9c29a27614ceb3a61050e6f96bc44/external/bazel_tools/tools/build_defs/repo/http.bzl", line 111, column 45, in _http_archive_impl
                  download_info = ctx.download_and_extract(
      Error in download_and_extract: java.io.IOException: Error downloading [https://github.com/tensorflow/tensorflow/archive/refs/tags/v2.6.0.tar.gz] to /private/var/tmp/_bazel_joseperezcano/9bb9c29a27614ceb3a61050e6f96bc44/external/org_tensorflow/temp10782059563076960071/v2.6.0.tar.gz: Proxy address localhost:8080 is not a valid URL
      ERROR: /Users/joseperezcano/Desktop/IDAO_2022/tensorflow_gnn/WORKSPACE:7:9: fetching http_archive rule //external:org_tensorflow: Traceback (most recent call last):
          File "/private/var/tmp/_bazel_joseperezcano/9bb9c29a27614ceb3a61050e6f96bc44/external/bazel_tools/tools/build_defs/repo/http.bzl", line 111, column 45, in _http_archive_impl
                  download_info = ctx.download_and_extract(
      Error in download_and_extract: java.io.IOException: Error downloading [https://github.com/tensorflow/tensorflow/archive/refs/tags/v2.6.0.tar.gz] to /private/var/tmp/_bazel_joseperezcano/9bb9c29a27614ceb3a61050e6f96bc44/external/org_tensorflow/temp10782059563076960071/v2.6.0.tar.gz: Proxy address localhost:8080 is not a valid URL
      ERROR: no such package '@org_tensorflow//tensorflow': java.io.IOException: Error downloading [https://github.com/tensorflow/tensorflow/archive/refs/tags/v2.6.0.tar.gz] to /private/var/tmp/_bazel_joseperezcano/9bb9c29a27614ceb3a61050e6f96bc44/external/org_tensorflow/temp10782059563076960071/v2.6.0.tar.gz: Proxy address localhost:8080 is not a valid URL
      INFO: Elapsed time: 12,913s
      INFO: 0 processes.
      FAILED: Build did NOT complete successfully (0 packages loaded)
      ERROR: Build failed. Not running target
      FAILED: Build did NOT complete successfully (0 packages loaded)
      Traceback (most recent call last):
        File "<string>", line 2, in <module>
        File "<pip-setuptools-caller>", line 34, in <module>
        File "/Users/joseperezcano/Desktop/IDAO_2022/tensorflow_gnn/setup.py", line 152, in <module>
          setup(
        File "/Users/joseperezcano/Desktop/IDAO_2022/crystal/lib/python3.9/site-packages/setuptools/__init__.py", line 155, in setup
          return distutils.core.setup(**attrs)
        File "/Users/joseperezcano/Desktop/IDAO_2022/crystal/lib/python3.9/site-packages/setuptools/_distutils/core.py", line 148, in setup
          return run_commands(dist)
        File "/Users/joseperezcano/Desktop/IDAO_2022/crystal/lib/python3.9/site-packages/setuptools/_distutils/core.py", line 163, in run_commands
          dist.run_commands()
        File "/Users/joseperezcano/Desktop/IDAO_2022/crystal/lib/python3.9/site-packages/setuptools/_distutils/dist.py", line 967, in run_commands
          self.run_command(cmd)
        File "/Users/joseperezcano/Desktop/IDAO_2022/crystal/lib/python3.9/site-packages/setuptools/_distutils/dist.py", line 986, in run_command
          cmd_obj.run()
        File "/Users/joseperezcano/Desktop/IDAO_2022/crystal/lib/python3.9/site-packages/wheel/bdist_wheel.py", line 299, in run
          self.run_command('build')
        File "/Users/joseperezcano/Desktop/IDAO_2022/crystal/lib/python3.9/site-packages/setuptools/_distutils/cmd.py", line 313, in run_command
          self.distribution.run_command(command)
        File "/Users/joseperezcano/Desktop/IDAO_2022/crystal/lib/python3.9/site-packages/setuptools/_distutils/dist.py", line 986, in run_command
          cmd_obj.run()
        File "/Users/joseperezcano/Desktop/IDAO_2022/crystal/lib/python3.9/site-packages/setuptools/_distutils/command/build.py", line 135, in run
          self.run_command(cmd_name)
        File "/Users/joseperezcano/Desktop/IDAO_2022/crystal/lib/python3.9/site-packages/setuptools/_distutils/cmd.py", line 313, in run_command
          self.distribution.run_command(command)
        File "/Users/joseperezcano/Desktop/IDAO_2022/crystal/lib/python3.9/site-packages/setuptools/_distutils/dist.py", line 986, in run_command
          cmd_obj.run()
        File "/Users/joseperezcano/Desktop/IDAO_2022/tensorflow_gnn/setup.py", line 86, in run
          subprocess.check_call(
        File "/usr/local/Cellar/[email protected]/3.9.10/Frameworks/Python.framework/Versions/3.9/lib/python3.9/subprocess.py", line 373, in check_call
          raise CalledProcessError(retcode, cmd)
      subprocess.CalledProcessError: Command '['/usr/local/bin/bazel', 'run', '-c', 'opt', '--experimental_repo_remote_exec', '--macos_minimum_os=10.9', '//package:move_generated_files']' returned non-zero exit status 1.
      [end of output]
  
  note: This error originates from a subprocess, and is likely not a problem with pip.
  ERROR: Failed building wheel for tensorflow-gnn
  Running setup.py clean for tensorflow-gnn
  Building wheel for pygraphviz (setup.py) ... error
  error: subprocess-exited-with-error
  
  × python setup.py bdist_wheel did not run successfully.
  │ exit code: 1
  ╰─> [48 lines of output]
      running bdist_wheel
      running build
      running build_py
      creating build
      creating build/lib.macosx-12-x86_64-3.9
      creating build/lib.macosx-12-x86_64-3.9/pygraphviz
      copying pygraphviz/scraper.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz
      copying pygraphviz/graphviz.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz
      copying pygraphviz/__init__.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz
      copying pygraphviz/agraph.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz
      copying pygraphviz/testing.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz
      creating build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      copying pygraphviz/tests/test_unicode.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      copying pygraphviz/tests/test_scraper.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      copying pygraphviz/tests/test_readwrite.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      copying pygraphviz/tests/test_string.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      copying pygraphviz/tests/__init__.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      copying pygraphviz/tests/test_html.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      copying pygraphviz/tests/test_node_attributes.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      copying pygraphviz/tests/test_drawing.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      copying pygraphviz/tests/test_repr_mimebundle.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      copying pygraphviz/tests/test_subgraph.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      copying pygraphviz/tests/test_close.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      copying pygraphviz/tests/test_edge_attributes.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      copying pygraphviz/tests/test_clear.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      copying pygraphviz/tests/test_layout.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      copying pygraphviz/tests/test_attribute_defaults.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      copying pygraphviz/tests/test_graph.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      running egg_info
      warning: no files found matching '*.png' under directory 'doc'
      warning: no files found matching '*.txt' under directory 'doc'
      warning: no files found matching '*.css' under directory 'doc'
      warning: no previously-included files matching '*~' found anywhere in distribution
      warning: no previously-included files matching '*.pyc' found anywhere in distribution
      warning: no previously-included files matching '.svn' found anywhere in distribution
      no previously-included directories found matching 'doc/build'
      writing manifest file 'pygraphviz.egg-info/SOURCES.txt'
      copying pygraphviz/graphviz.i -> build/lib.macosx-12-x86_64-3.9/pygraphviz
      copying pygraphviz/graphviz_wrap.c -> build/lib.macosx-12-x86_64-3.9/pygraphviz
      running build_ext
      creating build/temp.macosx-12-x86_64-3.9
      creating build/temp.macosx-12-x86_64-3.9/pygraphviz
      clang -Wno-unused-result -Wsign-compare -Wunreachable-code -fno-common -dynamic -DNDEBUG -g -fwrapv -O3 -Wall -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk -I/Users/joseperezcano/Desktop/IDAO_2022/crystal/include -I/usr/local/opt/[email protected]/Frameworks/Python.framework/Versions/3.9/include/python3.9 -c pygraphviz/graphviz_wrap.c -o build/temp.macosx-12-x86_64-3.9/pygraphviz/graphviz_wrap.o
      pygraphviz/graphviz_wrap.c:2711:10: fatal error: 'graphviz/cgraph.h' file not found
      #include "graphviz/cgraph.h"
               ^~~~~~~~~~~~~~~~~~~
      1 error generated.
      error: command '/usr/local/opt/llvm/bin/clang' failed with exit code 1
      [end of output]
  
  note: This error originates from a subprocess, and is likely not a problem with pip.
  ERROR: Failed building wheel for pygraphviz
  Running setup.py clean for pygraphviz
Failed to build tensorflow-gnn pygraphviz
Installing collected packages: pygraphviz, pydot, proto-plus, pillow, packaging, orjson, numpy, networkx, mock, kiwisolver, httplib2, googleapis-common-protos, google-crc32c, fonttools, fasteners, fastavro, dill, cycler, cachetools, scipy, pyarrow, oauth2client, matplotlib, libcst, hdfs, grpcio-gcp, google-resumable-media, google-auth, grpc-google-iam-v1, google-apitools, google-api-core, apache-beam, google-cloud-core, tensorflow-cpu, google-cloud-vision, google-cloud-videointelligence, google-cloud-spanner, google-cloud-recommendations-ai, google-cloud-pubsub, google-cloud-language, google-cloud-dlp, google-cloud-datastore, google-cloud-bigtable, google-cloud-bigquery-storage, google-cloud-bigquery, tensorflow-gnn
  Running setup.py install for pygraphviz ... error
  error: subprocess-exited-with-error
  
  × Running setup.py install for pygraphviz did not run successfully.
  │ exit code: 1
  ╰─> [50 lines of output]
      running install
      /Users/joseperezcano/Desktop/IDAO_2022/crystal/lib/python3.9/site-packages/setuptools/command/install.py:34: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools.
        warnings.warn(
      running build
      running build_py
      creating build
      creating build/lib.macosx-12-x86_64-3.9
      creating build/lib.macosx-12-x86_64-3.9/pygraphviz
      copying pygraphviz/scraper.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz
      copying pygraphviz/graphviz.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz
      copying pygraphviz/__init__.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz
      copying pygraphviz/agraph.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz
      copying pygraphviz/testing.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz
      creating build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      copying pygraphviz/tests/test_unicode.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      copying pygraphviz/tests/test_scraper.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      copying pygraphviz/tests/test_readwrite.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      copying pygraphviz/tests/test_string.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      copying pygraphviz/tests/__init__.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      copying pygraphviz/tests/test_html.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      copying pygraphviz/tests/test_node_attributes.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      copying pygraphviz/tests/test_drawing.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      copying pygraphviz/tests/test_repr_mimebundle.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      copying pygraphviz/tests/test_subgraph.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      copying pygraphviz/tests/test_close.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      copying pygraphviz/tests/test_edge_attributes.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      copying pygraphviz/tests/test_clear.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      copying pygraphviz/tests/test_layout.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      copying pygraphviz/tests/test_attribute_defaults.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      copying pygraphviz/tests/test_graph.py -> build/lib.macosx-12-x86_64-3.9/pygraphviz/tests
      running egg_info
      warning: no files found matching '*.png' under directory 'doc'
      warning: no files found matching '*.txt' under directory 'doc'
      warning: no files found matching '*.css' under directory 'doc'
      warning: no previously-included files matching '*~' found anywhere in distribution
      warning: no previously-included files matching '*.pyc' found anywhere in distribution
      warning: no previously-included files matching '.svn' found anywhere in distribution
      no previously-included directories found matching 'doc/build'
      writing manifest file 'pygraphviz.egg-info/SOURCES.txt'
      copying pygraphviz/graphviz.i -> build/lib.macosx-12-x86_64-3.9/pygraphviz
      copying pygraphviz/graphviz_wrap.c -> build/lib.macosx-12-x86_64-3.9/pygraphviz
      running build_ext
      creating build/temp.macosx-12-x86_64-3.9
      creating build/temp.macosx-12-x86_64-3.9/pygraphviz
      clang -Wno-unused-result -Wsign-compare -Wunreachable-code -fno-common -dynamic -DNDEBUG -g -fwrapv -O3 -Wall -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk -I/Users/joseperezcano/Desktop/IDAO_2022/crystal/include -I/usr/local/opt/[email protected]/Frameworks/Python.framework/Versions/3.9/include/python3.9 -c pygraphviz/graphviz_wrap.c -o build/temp.macosx-12-x86_64-3.9/pygraphviz/graphviz_wrap.o
      pygraphviz/graphviz_wrap.c:2711:10: fatal error: 'graphviz/cgraph.h' file not found
      #include "graphviz/cgraph.h"
               ^~~~~~~~~~~~~~~~~~~
      1 error generated.
      error: command '/usr/local/opt/llvm/bin/clang' failed with exit code 1
      [end of output]
  
  note: This error originates from a subprocess, and is likely not a problem with pip.
error: legacy-install-failure

× Encountered error while trying to install package.
╰─> pygraphviz

note: This is an issue with the package mentioned above, not pip.
hint: See above for output from the failure.

When trying to fix the pygraphviz error I also followed this thread and this one. But the errors are still the same.

I know there was an issue in #7 with one line in package/BUILD but that line is no longer in the file in the new version so that is not the problem. Please, any help is appreciated.

When attempting to install from pip I get this error:

Could not find a version that satisfies the requirement tensorflow-cpu>=2.7.0 (from tensorflow-gnn) (from versions: 2.8.0rc0)

Admittedly, I have tensorflow-gpu installed. Is this library supposed to be specific to the cpu version?

bazel 1.0.0

unbutu: Ubuntu 5.4.0-6ubuntu1~16.04.10

tensorflow: 2.7

python: 3.9.6

When i execute the statement "python3 -m pip install ." I got the error as follow:

Requirement already satisfied: absl-py in /usr/local/python3/lib/python3.9/site-packages (from tensorflow-gnn==0.1.0) (1.0.0) Requirement already satisfied: apache-beam[gcp]>=2.32 in /usr/local/python3/lib/python3.9/site-packages (from tensorflow-gnn==0.1.0) (2.34.0) Requirement already satisfied: grpcio in /usr/local/python3/lib/python3.9/site-packages (from tensorflow-gnn==0.1.0) (1.42.0) Requirement already satisfied: matplotlib in /usr/local/python3/lib/python3.9/site-packages (from tensorflow-gnn==0.1.0) (3.5.0) Requirement already satisfied: mock in /usr/local/python3/lib/python3.9/site-packages (from tensorflow-gnn==0.1.0) (4.0.3) Requirement already satisfied: networkx in /usr/local/python3/lib/python3.9/site-packages (from tensorflow-gnn==0.1.0) (2.6.3) Requirement already satisfied: numpy in /usr/local/python3/lib/python3.9/site-packages (from tensorflow-gnn==0.1.0) (1.20.3) Requirement already satisfied: protobuf>=3.17 in /usr/local/python3/lib/python3.9/site-packages (from tensorflow-gnn==0.1.0) (3.19.1) Requirement already satisfied: pyarrow in /usr/local/python3/lib/python3.9/site-packages (from tensorflow-gnn==0.1.0) (5.0.0) Requirement already satisfied: pygraphviz in /usr/local/python3/lib/python3.9/site-packages (from tensorflow-gnn==0.1.0) (1.7) Requirement already satisfied: scipy in /usr/local/python3/lib/python3.9/site-packages (from tensorflow-gnn==0.1.0) (1.7.3) Requirement already satisfied: six in /usr/local/python3/lib/python3.9/site-packages (from tensorflow-gnn==0.1.0) (1.16.0) Requirement already satisfied: tensorflow-cpu>=2.7.0 in /usr/local/python3/lib/python3.9/site-packages (from tensorflow-gnn==0.1.0) (2.7.0) Requirement already satisfied: avro-python3!=1.9.2,<1.10.0,>=1.8.1 in /usr/local/python3/lib/python3.9/site-packages (from apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (1.9.2.1) Requirement already satisfied: crcmod<2.0,>=1.7 in /usr/local/python3/lib/python3.9/site-packages (from apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (1.7) Requirement already satisfied: dill<0.3.2,>=0.3.1.1 in /usr/local/python3/lib/python3.9/site-packages (from apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (0.3.1.1) Requirement already satisfied: fastavro<2,>=0.21.4 in /usr/local/python3/lib/python3.9/site-packages (from apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (1.4.7) Requirement already satisfied: future<1.0.0,>=0.18.2 in /usr/local/python3/lib/python3.9/site-packages (from apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (0.18.2) Requirement already satisfied: hdfs<3.0.0,>=2.1.0 in /usr/local/python3/lib/python3.9/site-packages (from apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (2.6.0) Requirement already satisfied: httplib2<0.20.0,>=0.8 in /usr/local/python3/lib/python3.9/site-packages (from apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (0.19.1) Requirement already satisfied: pymongo<4.0.0,>=3.8.0 in /usr/local/python3/lib/python3.9/site-packages (from apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (3.12.1) Requirement already satisfied: oauth2client<5,>=2.0.1 in /usr/local/python3/lib/python3.9/site-packages (from apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (4.1.3) Requirement already satisfied: pydot<2,>=1.2.0 in /usr/local/python3/lib/python3.9/site-packages (from apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (1.4.2) Requirement already satisfied: python-dateutil<3,>=2.8.0 in /usr/local/python3/lib/python3.9/site-packages (from apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (2.8.2) Requirement already satisfied: pytz>=2018.3 in /usr/local/python3/lib/python3.9/site-packages (from apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (2021.3) Requirement already satisfied: requests<3.0.0,>=2.24.0 in /usr/local/python3/lib/python3.9/site-packages (from apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (2.26.0) Requirement already satisfied: typing-extensions<4,>=3.7.0 in /usr/local/python3/lib/python3.9/site-packages (from apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (3.10.0.2) Requirement already satisfied: orjson<4.0 in /usr/local/python3/lib/python3.9/site-packages (from apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (3.6.4) Requirement already satisfied: cachetools<5,>=3.1.0 in /usr/local/python3/lib/python3.9/site-packages (from apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (4.2.4) Requirement already satisfied: google-apitools<0.5.32,>=0.5.31 in /usr/local/python3/lib/python3.9/site-packages (from apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (0.5.31) Requirement already satisfied: google-auth<3,>=1.18.0 in /usr/local/python3/lib/python3.9/site-packages (from apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (1.35.0) Requirement already satisfied: google-cloud-datastore<2,>=1.8.0 in /usr/local/python3/lib/python3.9/site-packages (from apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (1.15.3) Requirement already satisfied: google-cloud-pubsub<2,>=0.39.0 in /usr/local/python3/lib/python3.9/site-packages (from apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (1.7.0) Requirement already satisfied: google-cloud-bigquery<3,>=1.6.0 in /usr/local/python3/lib/python3.9/site-packages (from apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (2.30.1) Requirement already satisfied: google-cloud-bigquery-storage>=2.6.3 in /usr/local/python3/lib/python3.9/site-packages (from apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (2.10.1) Requirement already satisfied: google-cloud-core<2,>=0.28.1 in /usr/local/python3/lib/python3.9/site-packages (from apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (1.7.2) Requirement already satisfied: google-cloud-bigtable<2,>=0.31.1 in /usr/local/python3/lib/python3.9/site-packages (from apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (1.7.0) Requirement already satisfied: google-cloud-spanner<2,>=1.13.0 in /usr/local/python3/lib/python3.9/site-packages (from apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (1.19.1) Requirement already satisfied: grpcio-gcp<1,>=0.2.2 in /usr/local/python3/lib/python3.9/site-packages (from apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (0.2.2) Requirement already satisfied: google-cloud-dlp<2,>=0.12.0 in /usr/local/python3/lib/python3.9/site-packages (from apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (1.0.0) Requirement already satisfied: google-cloud-language<2,>=1.3.0 in /usr/local/python3/lib/python3.9/site-packages (from apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (1.3.0) Requirement already satisfied: google-cloud-videointelligence<2,>=1.8.0 in /usr/local/python3/lib/python3.9/site-packages (from apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (1.16.1) Requirement already satisfied: google-cloud-vision<2,>=0.38.0 in /usr/local/python3/lib/python3.9/site-packages (from apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (1.0.0) Requirement already satisfied: google-cloud-recommendations-ai<=0.2.0,>=0.1.0 in /usr/local/python3/lib/python3.9/site-packages (from apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (0.2.0) Requirement already satisfied: fasteners>=0.14 in /usr/local/python3/lib/python3.9/site-packages (from google-apitools<0.5.32,>=0.5.31->apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (0.16.3) Requirement already satisfied: pyasn1-modules>=0.2.1 in /usr/local/python3/lib/python3.9/site-packages (from google-auth<3,>=1.18.0->apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (0.2.8) Requirement already satisfied: setuptools>=40.3.0 in /usr/local/python3/lib/python3.9/site-packages (from google-auth<3,>=1.18.0->apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (56.0.0) Requirement already satisfied: rsa<5,>=3.1.4 in /usr/local/python3/lib/python3.9/site-packages (from google-auth<3,>=1.18.0->apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (4.8) Requirement already satisfied: google-resumable-media<3.0dev,>=0.6.0 in /usr/local/python3/lib/python3.9/site-packages (from google-cloud-bigquery<3,>=1.6.0->apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (2.1.0) Requirement already satisfied: google-api-core[grpc]<3.0.0dev,>=1.29.0 in /usr/local/python3/lib/python3.9/site-packages (from google-cloud-bigquery<3,>=1.6.0->apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (1.31.4) Requirement already satisfied: proto-plus>=1.10.0 in /usr/local/python3/lib/python3.9/site-packages (from google-cloud-bigquery<3,>=1.6.0->apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (1.19.8) Requirement already satisfied: packaging>=14.3 in /usr/local/python3/lib/python3.9/site-packages (from google-cloud-bigquery<3,>=1.6.0->apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (21.3) Requirement already satisfied: googleapis-common-protos<2.0dev,>=1.6.0 in /usr/local/python3/lib/python3.9/site-packages (from google-api-core[grpc]<3.0.0dev,>=1.29.0->google-cloud-bigquery<3,>=1.6.0->apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (1.53.0) Requirement already satisfied: libcst>=0.2.5 in /usr/local/python3/lib/python3.9/site-packages (from google-cloud-bigquery-storage>=2.6.3->apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (0.3.23) Requirement already satisfied: grpc-google-iam-v1<0.13dev,>=0.12.3 in /usr/local/python3/lib/python3.9/site-packages (from google-cloud-bigtable<2,>=0.31.1->apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (0.12.3) Requirement already satisfied: google-crc32c<2.0dev,>=1.0 in /usr/local/python3/lib/python3.9/site-packages (from google-resumable-media<3.0dev,>=0.6.0->google-cloud-bigquery<3,>=1.6.0->apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (1.3.0) Requirement already satisfied: docopt in /usr/local/python3/lib/python3.9/site-packages (from hdfs<3.0.0,>=2.1.0->apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (0.6.2) Requirement already satisfied: pyparsing<3,>=2.4.2 in /usr/local/python3/lib/python3.9/site-packages (from httplib2<0.20.0,>=0.8->apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (2.4.7) Requirement already satisfied: typing-inspect>=0.4.0 in /usr/local/python3/lib/python3.9/site-packages (from libcst>=0.2.5->google-cloud-bigquery-storage>=2.6.3->apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (0.7.1) Requirement already satisfied: pyyaml>=5.2 in /usr/local/python3/lib/python3.9/site-packages (from libcst>=0.2.5->google-cloud-bigquery-storage>=2.6.3->apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (6.0) Requirement already satisfied: pyasn1>=0.1.7 in /usr/local/python3/lib/python3.9/site-packages (from oauth2client<5,>=2.0.1->apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (0.4.8) Requirement already satisfied: certifi>=2017.4.17 in /usr/local/python3/lib/python3.9/site-packages (from requests<3.0.0,>=2.24.0->apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (2021.10.8) Requirement already satisfied: urllib3<1.27,>=1.21.1 in /usr/local/python3/lib/python3.9/site-packages (from requests<3.0.0,>=2.24.0->apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (1.26.7) Requirement already satisfied: idna<4,>=2.5 in /usr/local/python3/lib/python3.9/site-packages (from requests<3.0.0,>=2.24.0->apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (3.3) Requirement already satisfied: charset-normalizer~=2.0.0 in /usr/local/python3/lib/python3.9/site-packages (from requests<3.0.0,>=2.24.0->apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (2.0.8) Requirement already satisfied: h5py>=2.9.0 in /usr/local/python3/lib/python3.9/site-packages (from tensorflow-cpu>=2.7.0->tensorflow-gnn==0.1.0) (3.6.0) Requirement already satisfied: keras<2.8,>=2.7.0rc0 in /usr/local/python3/lib/python3.9/site-packages (from tensorflow-cpu>=2.7.0->tensorflow-gnn==0.1.0) (2.7.0) Requirement already satisfied: astunparse>=1.6.0 in /usr/local/python3/lib/python3.9/site-packages (from tensorflow-cpu>=2.7.0->tensorflow-gnn==0.1.0) (1.6.3) Requirement already satisfied: termcolor>=1.1.0 in /usr/local/python3/lib/python3.9/site-packages (from tensorflow-cpu>=2.7.0->tensorflow-gnn==0.1.0) (1.1.0) Requirement already satisfied: gast<0.5.0,>=0.2.1 in /usr/local/python3/lib/python3.9/site-packages (from tensorflow-cpu>=2.7.0->tensorflow-gnn==0.1.0) (0.4.0) Requirement already satisfied: wrapt>=1.11.0 in /usr/local/python3/lib/python3.9/site-packages (from tensorflow-cpu>=2.7.0->tensorflow-gnn==0.1.0) (1.13.3) Requirement already satisfied: wheel<1.0,>=0.32.0 in /usr/local/python3/lib/python3.9/site-packages (from tensorflow-cpu>=2.7.0->tensorflow-gnn==0.1.0) (0.37.0) Requirement already satisfied: google-pasta>=0.1.1 in /usr/local/python3/lib/python3.9/site-packages (from tensorflow-cpu>=2.7.0->tensorflow-gnn==0.1.0) (0.2.0) Requirement already satisfied: flatbuffers<3.0,>=1.12 in /usr/local/python3/lib/python3.9/site-packages (from tensorflow-cpu>=2.7.0->tensorflow-gnn==0.1.0) (2.0) Requirement already satisfied: tensorflow-io-gcs-filesystem>=0.21.0 in /usr/local/python3/lib/python3.9/site-packages (from tensorflow-cpu>=2.7.0->tensorflow-gnn==0.1.0) (0.22.0) Requirement already satisfied: opt-einsum>=2.3.2 in /usr/local/python3/lib/python3.9/site-packages (from tensorflow-cpu>=2.7.0->tensorflow-gnn==0.1.0) (3.3.0) Requirement already satisfied: tensorflow-estimator<2.8,~=2.7.0rc0 in /usr/local/python3/lib/python3.9/site-packages (from tensorflow-cpu>=2.7.0->tensorflow-gnn==0.1.0) (2.7.0) Requirement already satisfied: tensorboard~=2.6 in /usr/local/python3/lib/python3.9/site-packages (from tensorflow-cpu>=2.7.0->tensorflow-gnn==0.1.0) (2.7.0) Requirement already satisfied: keras-preprocessing>=1.1.1 in /usr/local/python3/lib/python3.9/site-packages (from tensorflow-cpu>=2.7.0->tensorflow-gnn==0.1.0) (1.1.2) Requirement already satisfied: libclang>=9.0.1 in /usr/local/python3/lib/python3.9/site-packages (from tensorflow-cpu>=2.7.0->tensorflow-gnn==0.1.0) (12.0.0) Requirement already satisfied: markdown>=2.6.8 in /usr/local/python3/lib/python3.9/site-packages (from tensorboard~=2.6->tensorflow-cpu>=2.7.0->tensorflow-gnn==0.1.0) (3.3.6) Requirement already satisfied: google-auth-oauthlib<0.5,>=0.4.1 in /usr/local/python3/lib/python3.9/site-packages (from tensorboard~=2.6->tensorflow-cpu>=2.7.0->tensorflow-gnn==0.1.0) (0.4.6) Requirement already satisfied: tensorboard-data-server<0.7.0,>=0.6.0 in /usr/local/python3/lib/python3.9/site-packages (from tensorboard~=2.6->tensorflow-cpu>=2.7.0->tensorflow-gnn==0.1.0) (0.6.1) Requirement already satisfied: tensorboard-plugin-wit>=1.6.0 in /usr/local/python3/lib/python3.9/site-packages (from tensorboard~=2.6->tensorflow-cpu>=2.7.0->tensorflow-gnn==0.1.0) (1.8.0) Requirement already satisfied: werkzeug>=0.11.15 in /usr/local/python3/lib/python3.9/site-packages (from tensorboard~=2.6->tensorflow-cpu>=2.7.0->tensorflow-gnn==0.1.0) (2.0.2) Requirement already satisfied: requests-oauthlib>=0.7.0 in /usr/local/python3/lib/python3.9/site-packages (from google-auth-oauthlib<0.5,>=0.4.1->tensorboard~=2.6->tensorflow-cpu>=2.7.0->tensorflow-gnn==0.1.0) (1.3.0) Requirement already satisfied: importlib-metadata>=4.4 in /usr/local/python3/lib/python3.9/site-packages (from markdown>=2.6.8->tensorboard~=2.6->tensorflow-cpu>=2.7.0->tensorflow-gnn==0.1.0) (4.8.2) Requirement already satisfied: zipp>=0.5 in /usr/local/python3/lib/python3.9/site-packages (from importlib-metadata>=4.4->markdown>=2.6.8->tensorboard~=2.6->tensorflow-cpu>=2.7.0->tensorflow-gnn==0.1.0) (3.6.0) Requirement already satisfied: oauthlib>=3.0.0 in /usr/local/python3/lib/python3.9/site-packages (from requests-oauthlib>=0.7.0->google-auth-oauthlib<0.5,>=0.4.1->tensorboard~=2.6->tensorflow-cpu>=2.7.0->tensorflow-gnn==0.1.0) (3.1.1) Requirement already satisfied: mypy-extensions>=0.3.0 in /usr/local/python3/lib/python3.9/site-packages (from typing-inspect>=0.4.0->libcst>=0.2.5->google-cloud-bigquery-storage>=2.6.3->apache-beam[gcp]>=2.32->tensorflow-gnn==0.1.0) (0.4.3) Requirement already satisfied: fonttools>=4.22.0 in /usr/local/python3/lib/python3.9/site-packages (from matplotlib->tensorflow-gnn==0.1.0) (4.28.2) Requirement already satisfied: cycler>=0.10 in /usr/local/python3/lib/python3.9/site-packages (from matplotlib->tensorflow-gnn==0.1.0) (0.11.0) Requirement already satisfied: pillow>=6.2.0 in /usr/local/python3/lib/python3.9/site-packages (from matplotlib->tensorflow-gnn==0.1.0) (8.4.0) Requirement already satisfied: setuptools-scm>=4 in /usr/local/python3/lib/python3.9/site-packages (from matplotlib->tensorflow-gnn==0.1.0) (6.3.2) Requirement already satisfied: kiwisolver>=1.0.1 in /usr/local/python3/lib/python3.9/site-packages (from matplotlib->tensorflow-gnn==0.1.0) (1.3.2) Requirement already satisfied: tomli>=1.0.0 in /usr/local/python3/lib/python3.9/site-packages (from setuptools-scm>=4->matplotlib->tensorflow-gnn==0.1.0) (1.2.2) Building wheels for collected packages: tensorflow-gnn Building wheel for tensorflow-gnn (setup.py) ... error ERROR: Command errored out with exit status 1: command: /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-req-build-nf5s7_74/setup.py'"'"'; file='"'"'/tmp/pip-req-build-nf5s7_74/setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(file) if os.path.exists(file) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, file, '"'"'exec'"'"'))' bdist_wheel -d /tmp/pip-wheel-8jo1b0me cwd: /tmp/pip-req-build-nf5s7_74/ Complete output (35 lines): running bdist_wheel running build running bazel_build Starting local Bazel server and connecting to it... ERROR: Unrecognized option: --experimental_repo_remote_exec INFO: Writing tracer profile to '/root/.cache/bazel/_bazel_root/958b14b9bd3acfff4092d0b52e211899/command.profile.gz' Traceback (most recent call last): File "", line 1, in File "/tmp/pip-req-build-nf5s7_74/setup.py", line 152, in setup( File "/usr/local/python3/lib/python3.9/site-packages/setuptools/init.py", line 153, in setup return distutils.core.setup(**attrs) File "/usr/local/python3/lib/python3.9/distutils/core.py", line 148, in setup dist.run_commands() File "/usr/local/python3/lib/python3.9/distutils/dist.py", line 966, in run_commands self.run_command(cmd) File "/usr/local/python3/lib/python3.9/distutils/dist.py", line 985, in run_command cmd_obj.run() File "/usr/local/python3/lib/python3.9/site-packages/wheel/bdist_wheel.py", line 299, in run self.run_command('build') File "/usr/local/python3/lib/python3.9/distutils/cmd.py", line 313, in run_command self.distribution.run_command(command) File "/usr/local/python3/lib/python3.9/distutils/dist.py", line 985, in run_command cmd_obj.run() File "/usr/local/python3/lib/python3.9/distutils/command/build.py", line 135, in run self.run_command(cmd_name) File "/usr/local/python3/lib/python3.9/distutils/cmd.py", line 313, in run_command self.distribution.run_command(command) File "/usr/local/python3/lib/python3.9/distutils/dist.py", line 985, in run_command cmd_obj.run() File "/tmp/pip-req-build-nf5s7_74/setup.py", line 86, in run subprocess.check_call( File "/usr/local/python3/lib/python3.9/subprocess.py", line 373, in check_call raise CalledProcessError(retcode, cmd) subprocess.CalledProcessError: Command '['/usr/bin/bazel', 'run', '-c', 'opt', '--experimental_repo_remote_exec', '//package:move_generated_files']' returned non-zero exit status 2.

ERROR: Failed building wheel for tensorflow-gnn Running setup.py clean for tensorflow-gnn Failed to build tensorflow-gnn Installing collected packages: tensorflow-gnn Running setup.py install for tensorflow-gnn ... error ERROR: Command errored out with exit status 1: command: /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-req-build-nf5s7_74/setup.py'"'"'; file='"'"'/tmp/pip-req-build-nf5s7_74/setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(file) if os.path.exists(file) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, file, '"'"'exec'"'"'))' install --record /tmp/pip-record-rsfpi3kt/install-record.txt --single-version-externally-managed --compile --install-headers /usr/local/python3/include/python3.9/tensorflow-gnn cwd: /tmp/pip-req-build-nf5s7_74/ Complete output (36 lines): running install running build running bazel_build ERROR: Unrecognized option: --experimental_repo_remote_exec INFO: Writing tracer profile to '/root/.cache/bazel/_bazel_root/958b14b9bd3acfff4092d0b52e211899/command.profile.gz' Traceback (most recent call last): File "", line 1, in File "/tmp/pip-req-build-nf5s7_74/setup.py", line 152, in setup( File "/usr/local/python3/lib/python3.9/site-packages/setuptools/init.py", line 153, in setup return distutils.core.setup(**attrs) File "/usr/local/python3/lib/python3.9/distutils/core.py", line 148, in setup dist.run_commands() File "/usr/local/python3/lib/python3.9/distutils/dist.py", line 966, in run_commands self.run_command(cmd) File "/usr/local/python3/lib/python3.9/distutils/dist.py", line 985, in run_command cmd_obj.run() File "/usr/local/python3/lib/python3.9/site-packages/setuptools/command/install.py", line 61, in run return orig.install.run(self) File "/usr/local/python3/lib/python3.9/distutils/command/install.py", line 546, in run self.run_command('build') File "/usr/local/python3/lib/python3.9/distutils/cmd.py", line 313, in run_command self.distribution.run_command(command) File "/usr/local/python3/lib/python3.9/distutils/dist.py", line 985, in run_command cmd_obj.run() File "/usr/local/python3/lib/python3.9/distutils/command/build.py", line 135, in run self.run_command(cmd_name) File "/usr/local/python3/lib/python3.9/distutils/cmd.py", line 313, in run_command self.distribution.run_command(command) File "/usr/local/python3/lib/python3.9/distutils/dist.py", line 985, in run_command cmd_obj.run() File "/tmp/pip-req-build-nf5s7_74/setup.py", line 86, in run subprocess.check_call( File "/usr/local/python3/lib/python3.9/subprocess.py", line 373, in check_call raise CalledProcessError(retcode, cmd) subprocess.CalledProcessError: Command '['/usr/bin/bazel', 'run', '-c', 'opt', '--experimental_repo_remote_exec', '//package:move_generated_files']' returned non-zero exit status 2. ---------------------------------------- ERROR: Command errored out with exit status 1: /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-req-build-nf5s7_74/setup.py'"'"'; file='"'"'/tmp/pip-req-build-nf5s7_74/setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(file) if os.path.exists(file) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, file, '"'"'exec'"'"'))' install --record /tmp/pip-record-rsfpi3kt/install-record.txt --single-version-externally-managed --compile --install-headers /usr/local/python3/include/python3.9/tensorflow-gnn Check the logs for full command output.

bazel: 3.7.2 pip: 21.2.4 python: 3.9.9

Running setup.py install for tensorflow-gnn: started Running setup.py install for tensorflow-gnn: finished with status 'error' ERROR: Command errored out with exit status 1: command: /usr/local/bin/python -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-req-build-f4zi6o4f/setup.py'"'"'; file='"'"'/tmp/pip-req-build-f4zi6o4f/setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(file) if os.path.exists(file) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, file, '"'"'exec'"'"'))' install --record /tmp/pip-record-wlsd6gr1/install-record.txt --single-version-externally-managed --compile --install-headers /usr/local/include/python3.9/tensorflow-gnn cwd: /tmp/pip-req-build-f4zi6o4f/ Complete output (46 lines): running install running build running bazel_build Loading: Loading: 0 packages loaded WARNING: Download from http://mirror.tensorflow.org/github.com/tensorflow/runtime/archive/b570a1921c9e55ac53c8972bd2bfd37cd0eb510d.tar.gz failed: class com.google.devtools.build.lib.bazel.repository.downloader.UnrecoverableHttpException GET returned 404 Not Found DEBUG: /root/.cache/bazel/_bazel_root/b4d19525ca49b6ef2846f4f7e84a4744/external/tf_runtime/third_party/cuda/dependencies.bzl:51:10: The following command will download NVIDIA proprietary software. By using the software you agree to comply with the terms of the license agreement that accompanies the software. If you do not agree to the terms of the license agreement, do not use the software. Analyzing: target //package:move_generated_files (0 packages loaded, 0 targets configured) ERROR: /tmp/pip-req-build-f4zi6o4f/package/BUILD:10:10: no such target '//tensorflow_gnn/sampler:sampling_spec_pb2.py': target 'sampling_spec_pb2.py' not declared in package 'tensorflow_gnn/sampler' defined by /tmp/pip-req-build-f4zi6o4f/tensorflow_gnn/sampler/BUILD and referenced by '//package:move_generated_files' ERROR: Analysis of target '//package:move_generated_files' failed; build aborted: Analysis failed INFO: Elapsed time: 0.114s INFO: 0 processes. FAILED: Build did NOT complete successfully (0 packages loaded, 0 targets configured) ERROR: Build failed. Not running target FAILED: Build did NOT complete successfully (0 packages loaded, 0 targets configured) Traceback (most recent call last): File "", line 1, in File "/tmp/pip-req-build-f4zi6o4f/setup.py", line 152, in setup( File "/usr/local/lib/python3.9/site-packages/setuptools/init.py", line 153, in setup return distutils.core.setup(**attrs) File "/usr/local/lib/python3.9/distutils/core.py", line 148, in setup dist.run_commands() File "/usr/local/lib/python3.9/distutils/dist.py", line 966, in run_commands self.run_command(cmd) File "/usr/local/lib/python3.9/distutils/dist.py", line 985, in run_command cmd_obj.run() File "/usr/local/lib/python3.9/site-packages/setuptools/command/install.py", line 61, in run return orig.install.run(self) File "/usr/local/lib/python3.9/distutils/command/install.py", line 546, in run self.run_command('build') File "/usr/local/lib/python3.9/distutils/cmd.py", line 313, in run_command self.distribution.run_command(command) File "/usr/local/lib/python3.9/distutils/dist.py", line 985, in run_command cmd_obj.run() File "/usr/local/lib/python3.9/distutils/command/build.py", line 135, in run self.run_command(cmd_name) File "/usr/local/lib/python3.9/distutils/cmd.py", line 313, in run_command self.distribution.run_command(command) File "/usr/local/lib/python3.9/distutils/dist.py", line 985, in run_command cmd_obj.run() File "/tmp/pip-req-build-f4zi6o4f/setup.py", line 86, in run subprocess.check_call( File "/usr/local/lib/python3.9/subprocess.py", line 373, in check_calld) raise CalledProcessError(retcode, cmd) subprocess.CalledProcessError: Command '['/usr/bin/bazel', 'run', '-c', 'opt', '--experimental_repo_remote_exec', '//package:move_generated_files']' returned non-zero exit status 1. ---------------------------------------- ERROR: Command errored out with exit status 1: /usr/local/bin/python -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-req-build-f4zi6o4f/setup.py'"'"'; file='"'"'/tmp/pip-req-build-f4zi6o4f/setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(file) if os.path.exists(file) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, file, '"'"'exec'"'"'))' install --record /tmp/pip-record-wlsd6gr1/install-record.txt --single-version-externally-managed --compile --install-headers /usr/local/include/python3.9/tensorflow-gnn Check the logs for full command output. WARNING: You are using pip version 21.2.4; however, version 21.3.1 is available.

Below error occors when training, and too many indices are bigger than 1000, but the indices are all smaller than 200 when construct the graph tensor. Why the indices in an adjacency can be changed? Would any one please advise any possible reason? Thanks.

graph_tensor_ops.py, line 109, in broadcast_node_to_edges return tf.gather(node_value, adjacency[node_tag]) Node: 'model_2/graph_update/node_set_update_1/multi_head_attention_conv/GatherV2_6' indices[77] = 387 is not in [0, 384) [[{{node model_2/graph_update/node_set_update_1/multi_head_attention_conv/GatherV2_6}}]] [Op:__inference_train_function_20223]

Following the pipeline shown in input pipeline and modeling, building model for a binary classification for the heterogeneous directed graph, with gat_v2.GATv2MPNNGraphUpdate, raising errors. The following is my gnn model:

def gnn(graph):
    for i in range(2):
        graph = gat_v2.GATv2MPNNGraphUpdate(units=5, message_dim=5, num_heads=1, receiver_tag=tfgnn.SOURCE)(graph)
    return graph

While the graph spec after preprocess model is like:

GraphTensorSpec({'context': ContextSpec({'features': {'hidden_state': TensorSpec(shape=(None, 2), dtype=tf.float32, name=None)}, 'sizes': TensorSpec(shape=(None,), dtype=tf.int32, name=None)}, TensorShape([]), tf.int32, None), 
'node_sets': 
{'operate': NodeSetSpec({'features': {'hidden_state': TensorSpec(shape=(None, 9), dtype=tf.float32, name=None)}, 'sizes': TensorSpec(shape=(None,), dtype=tf.int32, name=None)}, TensorShape([]), tf.int32, None), 
'source': NodeSetSpec({'features': {'hidden_state': TensorSpec(shape=(None, 1), dtype=tf.float32, name=None)}, 'sizes': TensorSpec(shape=(None,), dtype=tf.int32, name=None)}, TensorShape([]), tf.int32, None)}, 
'edge_sets': 
{'op2op': EdgeSetSpec({'features': {}, 'sizes': TensorSpec(shape=(None,), dtype=tf.int32, name=None), 'adjacency': AdjacencySpec({'#index.0': TensorSpec(shape=(None,), dtype=tf.int32, name=None), '#index.1': TensorSpec(shape=(None,), dtype=tf.int32, name=None)}, TensorShape([]), tf.int32, {'#index.0': 'operate', '#index.1': 'operate'})}, TensorShape([]), tf.int32, None), 
'src2op': EdgeSetSpec({'features': {}, 'sizes': TensorSpec(shape=(None,), dtype=tf.int32, name=None), 'adjacency': AdjacencySpec({'#index.0': TensorSpec(shape=(None,), dtype=tf.int32, name=None), '#index.1': TensorSpec(shape=(None,), dtype=tf.int32, name=None)}, TensorShape([]), tf.int32, {'#index.0': 'source', '#index.1': 'operate'})}, TensorShape([]), tf.int32, None)}}, TensorShape([]), tf.int32, None)

Where there are 2 node sets, operate and source, while there is always 1 'source' node in each graph, The classification model wanting to pool features from all nodes (both node sets), which is defined as:

model_input_spec, _, = dataset.element_spec  
model_input = tf.keras.layers.Input(type_spec=model_input_spec)
graph = gnn(model_input) # apply gnn model
pooled_features_s = tfgnn.keras.layers.Pool(tfgnn.CONTEXT, "mean", node_set_name="source")(graph)
pooled_features_op = tfgnn.keras.layers.Pool(tfgnn.CONTEXT, "mean", node_set_name="operate")(graph)
pooled_features = tf.keras.layers.concatenate([pooled_features_s, pooled_features_op])
logits = tf.keras.layers.Dense(1)(pooled_features)
model = tf.keras.Model(model_input, logits)

But when training following error raises:

File "/.../lib/python3.8/site-packages/tensorflow_gnn/graph/graph_tensor_ops.py", line 106, in broadcast_node_to_edges
      return tf.gather(node_value, adjacency[node_tag])
Node: 'model_6/graph_update_6/node_set_update_1/gat_v2_conv/GatherV2_1'
indices[157] = 224 is not in [0, 224)
	 [[{{node model_6/graph_update_6/node_set_update_1/gat_v2_conv/GatherV2_1}}]] [Op:__inference_train_function_30804]

The error pattern always turns that indices[xx] = yy is not in [0, yy). Could anyone please have a look? Thanks.

tfgnn.gather_first_node( graph_tensor, node_set_name=node_set_name, feature_name='label' )

The node_set_name is dynamic for multiple node sets in a graph tensor, how to get the node set name dynamic?

Here, at this link https://github.com/tensorflow/gnn/blob/main/tensorflow_gnn/graph/graph_tensor.py#L749 I tried to understand that example

  # A scalar graph tensor with edges between authors, papers and their venues
  # (journals or conferences). Each venue belongs to one graph component. The
  # 1st venue (1980519) has 2 authors and 3 papers.
  # The 2nd venue (9756463) has 2 authors and 1 paper.
  # The paper 0 is written by authors 0 and 2; paper 1 - by authors 0 and 1;
  # paper 2 - by author 2; paper 3 - by author 3.
  venues = tfgnn.GraphTensor.from_pieces(
      context=tfgnn.Context.from_fields(
          features={'venue': [1980519, 9756463]}),
      node_sets={
          'author': tfgnn.NodeSet.from_fields(sizes=[2, 2], features={}),
          'paper': tfgnn.NodeSet.from_fields(
              sizes=[3, 1], features={'year': [2018, 2017, 2017, 2022]})},
      edge_sets={
          'is_writen': tfgnn.EdgeSet.from_fields(
              sizes=[4, 2],
              features={},
              adjacency=tfgnn.Adjacency.from_indices(
                  source=('paper', [0, 1, 1, 0, 2, 3]),
                  target=('author', [0, 0, 1, 2, 3, 3])))})

I just don't understand this [4,2] part and the relation with source and target parts...

Is it like 4 means 4 papers and 2 means 2 authors, or this 2 comes from number of components (journals or conferences)?

I definitely see there are 6 edges present (4+2), but how to understand this 4 and 2 in this context?

From the part "paper 2 - by author 2; paper 3 - by author 3", we can see that there is one small mistake in this example, and that is in target part, it should be [0, 0, 1, 2, 2, 3] instead of [0, 0, 1, 2, 3, 3] (or maybe it is the case that paper 2 - by author 3)?

Now, how can we understand from these which paper belongs to 1th and which one to 2nd venue?

In the doc 'data_prep.md', it seems like the code piece graph = tfgnn.random_graph_tensor_from_schema(schema) in the first code block raises an error that there's no such callable function (with tfgnn version=0.3.0).

details: AttributeError: module 'tensorflow_gnn' has no attribute 'random_graph_tensor_from_schema'

I'd like to add tf.distribute.MirroredStrategy to keras_trainer.py and int_arithmetic_sampler_test.py. But when I added it according to Distributed training with Keras, the two .py demos didn't work. So, what should I do?

I remember the TF-GNN paper had introduced that for fast training and inference, deep graph models must be able to exploit parallel computations on specialized hardware. But the tutorials or demos haven't been given.

Could you please tell me where I can find some tutorials or demos, or tell me some methods to modify the above two demos? Or, just tell me the principle of the modification.

When I run the keras_minibatch_trainer.py in the anaconda environment by the below instruction, occasionally it gets this error - Input to reshape is a tensor with 1800 values, but the requested shape has 2400 [Op:Reshape]. According to the error info - …int_arithmetic_sampler.py", line 530, in generate_subgraphs yield self.sample_sub_graph_tensor(, I think that it has something to do with int_arithmetic_sampler.py. But I don't know why. Could you please help me to resolve the problem?

(tf2.x) [email protected]:~$ python /home/bit202/Programs/tensorflow_gnn/examples/in_memory_test2nd/keras_minibatch_trainer.py

Notice： I have changed 33rd line code of keras_minibatch_trainer.py from from tensorflow_gnn.examples.in_memory import int_arithmetic_samplertoimport int_arithmetic_sampler. Because as a folder nametensorflow_gnn conflict with tensorflow_gnn lib.

Following is the log:

Epoch 7500/10000
1/1 [==============================] - ETA: 0s - loss: 1.0105 - acc: 0.71502022-10-25 10:49:59.399484: W tensorflow/core/framework/op_kernel.cc:1768] UNKNOWN: InvalidArgumentError: {{function_node __wrapped__Reshape_device_/job:localhost/replica:0/task:0/device:GPU:0}} Input to reshape is a tensor with 1800 values, but the requested shape has 2400 [Op:Reshape]
Traceback (most recent call last):

  File "/home/bit202/Programs/anaconda3/envs/tf2.x/lib/python3.8/site-packages/tensorflow/python/ops/script_ops.py", line 269, in __call__
    return func(device, token, args)

  File "/home/bit202/Programs/anaconda3/envs/tf2.x/lib/python3.8/site-packages/tensorflow/python/ops/script_ops.py", line 147, in __call__
    outputs = self._call(device, args)

  File "/home/bit202/Programs/anaconda3/envs/tf2.x/lib/python3.8/site-packages/tensorflow/python/ops/script_ops.py", line 154, in _call
    ret = self._func(*args)

  File "/home/bit202/Programs/anaconda3/envs/tf2.x/lib/python3.8/site-packages/tensorflow/python/autograph/impl/api.py", line 642, in wrapper
    return func(*args, **kwargs)

  File "/home/bit202/Programs/anaconda3/envs/tf2.x/lib/python3.8/site-packages/tensorflow/python/data/ops/dataset_ops.py", line 1107, in generator_py_func
    values = next(generator_state.get_iterator(iterator_id.numpy()))

  File "/home/bit202/Programs/tensorflow_gnn/examples/in_memory_test2nd/int_arithmetic_sampler.py", line 530, in generate_subgraphs
    yield self.sample_sub_graph_tensor(

  File "/home/bit202/Programs/tensorflow_gnn/examples/in_memory_test2nd/int_arithmetic_sampler.py", line 604, in sample_sub_graph_tensor
    walk_tree = self.random_walk_tree(

  File "/home/bit202/Programs/tensorflow_gnn/examples/in_memory_test2nd/int_arithmetic_sampler.py", line 574, in random_walk_tree
    process_sampling_spec_topologically(

  File "/home/bit202/Programs/tensorflow_gnn/examples/in_memory_test2nd/int_arithmetic_sampler.py", line 194, in process_sampling_spec_topologically
    process_callback(node)

  File "/home/bit202/Programs/tensorflow_gnn/examples/in_memory_test2nd/int_arithmetic_sampler.py", line 566, in process_sampling_op
    next_nodes = self.sample_one_hop(

  File "/home/bit202/Programs/tensorflow_gnn/examples/in_memory_test2nd/int_arithmetic_sampler.py", line 499, in sample_one_hop
    next_nodes = tf.reshape(next_nodes, source_nodes.shape + [sample_size])

  File "/home/bit202/Programs/anaconda3/envs/tf2.x/lib/python3.8/site-packages/tensorflow/python/util/traceback_utils.py", line 153, in error_handler
    raise e.with_traceback(filtered_tb) from None

  File "/home/bit202/Programs/anaconda3/envs/tf2.x/lib/python3.8/site-packages/tensorflow/python/eager/execute.py", line 54, in quick_execute
    tensors = pywrap_tfe.TFE_Py_Execute(ctx._handle, device_name, op_name,

tensorflow.python.framework.errors_impl.InvalidArgumentError: {{function_node __wrapped__Reshape_device_/job:localhost/replica:0/task:0/device:GPU:0}} Input to reshape is a tensor with 1800 values, but the requested shape has 2400 [Op:Reshape]


Traceback (most recent call last):
  File "/home/bit202/Programs/tensorflow_gnn/examples/in_memory_test2nd/keras_minibatch_trainer.py", line 136, in <module>
    app.run(main)
  File "/home/bit202/Programs/anaconda3/envs/tf2.x/lib/python3.8/site-packages/absl/app.py", line 308, in run
    _run_main(main, args)
  File "/home/bit202/Programs/anaconda3/envs/tf2.x/lib/python3.8/site-packages/absl/app.py", line 254, in _run_main
    sys.exit(main(argv))
  File "/home/bit202/Programs/tensorflow_gnn/examples/in_memory_test2nd/keras_minibatch_trainer.py", line 118, in main
    keras_model.fit(
  File "/home/bit202/Programs/anaconda3/envs/tf2.x/lib/python3.8/site-packages/keras/utils/traceback_utils.py", line 70, in error_handler
    raise e.with_traceback(filtered_tb) from None
  File "/home/bit202/Programs/anaconda3/envs/tf2.x/lib/python3.8/site-packages/tensorflow/python/eager/execute.py", line 54, in quick_execute
    tensors = pywrap_tfe.TFE_Py_Execute(ctx._handle, device_name, op_name,
tensorflow.python.framework.errors_impl.UnknownError: Graph execution error:

2 root error(s) found.
  (0) UNKNOWN:  InvalidArgumentError: {{function_node __wrapped__Reshape_device_/job:localhost/replica:0/task:0/device:GPU:0}} Input to reshape is a tensor with 1800 values, but the requested shape has 2400 [Op:Reshape]
Traceback (most recent call last):

  File "/home/bit202/Programs/anaconda3/envs/tf2.x/lib/python3.8/site-packages/tensorflow/python/ops/script_ops.py", line 269, in __call__
    return func(device, token, args)

  File "/home/bit202/Programs/anaconda3/envs/tf2.x/lib/python3.8/site-packages/tensorflow/python/ops/script_ops.py", line 147, in __call__
    outputs = self._call(device, args)

  File "/home/bit202/Programs/anaconda3/envs/tf2.x/lib/python3.8/site-packages/tensorflow/python/ops/script_ops.py", line 154, in _call
    ret = self._func(*args)

  File "/home/bit202/Programs/anaconda3/envs/tf2.x/lib/python3.8/site-packages/tensorflow/python/autograph/impl/api.py", line 642, in wrapper
    return func(*args, **kwargs)

  File "/home/bit202/Programs/anaconda3/envs/tf2.x/lib/python3.8/site-packages/tensorflow/python/data/ops/dataset_ops.py", line 1107, in generator_py_func
    values = next(generator_state.get_iterator(iterator_id.numpy()))

  File "/home/bit202/Programs/tensorflow_gnn/examples/in_memory_test2nd/int_arithmetic_sampler.py", line 530, in generate_subgraphs
    yield self.sample_sub_graph_tensor(

  File "/home/bit202/Programs/tensorflow_gnn/examples/in_memory_test2nd/int_arithmetic_sampler.py", line 604, in sample_sub_graph_tensor
    walk_tree = self.random_walk_tree(

  File "/home/bit202/Programs/tensorflow_gnn/examples/in_memory_test2nd/int_arithmetic_sampler.py", line 574, in random_walk_tree
    process_sampling_spec_topologically(

  File "/home/bit202/Programs/tensorflow_gnn/examples/in_memory_test2nd/int_arithmetic_sampler.py", line 194, in process_sampling_spec_topologically
    process_callback(node)

  File "/home/bit202/Programs/tensorflow_gnn/examples/in_memory_test2nd/int_arithmetic_sampler.py", line 566, in process_sampling_op
    next_nodes = self.sample_one_hop(

  File "/home/bit202/Programs/tensorflow_gnn/examples/in_memory_test2nd/int_arithmetic_sampler.py", line 499, in sample_one_hop
    next_nodes = tf.reshape(next_nodes, source_nodes.shape + [sample_size])

  File "/home/bit202/Programs/anaconda3/envs/tf2.x/lib/python3.8/site-packages/tensorflow/python/util/traceback_utils.py", line 153, in error_handler
    raise e.with_traceback(filtered_tb) from None

  File "/home/bit202/Programs/anaconda3/envs/tf2.x/lib/python3.8/site-packages/tensorflow/python/eager/execute.py", line 54, in quick_execute
    tensors = pywrap_tfe.TFE_Py_Execute(ctx._handle, device_name, op_name,

tensorflow.python.framework.errors_impl.InvalidArgumentError: {{function_node __wrapped__Reshape_device_/job:localhost/replica:0/task:0/device:GPU:0}} Input to reshape is a tensor with 1800 values, but the requested shape has 2400 [Op:Reshape]


	 [[{{node EagerPyFunc}}]]
	 [[IteratorGetNext]]
	 [[IteratorGetNext/_14]]
  (1) UNKNOWN:  InvalidArgumentError: {{function_node __wrapped__Reshape_device_/job:localhost/replica:0/task:0/device:GPU:0}} Input to reshape is a tensor with 1800 values, but the requested shape has 2400 [Op:Reshape]
Traceback (most recent call last):

  File "/home/bit202/Programs/anaconda3/envs/tf2.x/lib/python3.8/site-packages/tensorflow/python/ops/script_ops.py", line 269, in __call__
    return func(device, token, args)

  File "/home/bit202/Programs/anaconda3/envs/tf2.x/lib/python3.8/site-packages/tensorflow/python/ops/script_ops.py", line 147, in __call__
    outputs = self._call(device, args)

  File "/home/bit202/Programs/anaconda3/envs/tf2.x/lib/python3.8/site-packages/tensorflow/python/ops/script_ops.py", line 154, in _call
    ret = self._func(*args)

  File "/home/bit202/Programs/anaconda3/envs/tf2.x/lib/python3.8/site-packages/tensorflow/python/autograph/impl/api.py", line 642, in wrapper
    return func(*args, **kwargs)

  File "/home/bit202/Programs/anaconda3/envs/tf2.x/lib/python3.8/site-packages/tensorflow/python/data/ops/dataset_ops.py", line 1107, in generator_py_func
    values = next(generator_state.get_iterator(iterator_id.numpy()))

  File "/home/bit202/Programs/tensorflow_gnn/examples/in_memory_test2nd/int_arithmetic_sampler.py", line 530, in generate_subgraphs
    yield self.sample_sub_graph_tensor(

  File "/home/bit202/Programs/tensorflow_gnn/examples/in_memory_test2nd/int_arithmetic_sampler.py", line 604, in sample_sub_graph_tensor
    walk_tree = self.random_walk_tree(

  File "/home/bit202/Programs/tensorflow_gnn/examples/in_memory_test2nd/int_arithmetic_sampler.py", line 574, in random_walk_tree
    process_sampling_spec_topologically(

  File "/home/bit202/Programs/tensorflow_gnn/examples/in_memory_test2nd/int_arithmetic_sampler.py", line 194, in process_sampling_spec_topologically
    process_callback(node)

  File "/home/bit202/Programs/tensorflow_gnn/examples/in_memory_test2nd/int_arithmetic_sampler.py", line 566, in process_sampling_op
    next_nodes = self.sample_one_hop(

  File "/home/bit202/Programs/tensorflow_gnn/examples/in_memory_test2nd/int_arithmetic_sampler.py", line 499, in sample_one_hop
    next_nodes = tf.reshape(next_nodes, source_nodes.shape + [sample_size])

  File "/home/bit202/Programs/anaconda3/envs/tf2.x/lib/python3.8/site-packages/tensorflow/python/util/traceback_utils.py", line 153, in error_handler
    raise e.with_traceback(filtered_tb) from None

  File "/home/bit202/Programs/anaconda3/envs/tf2.x/lib/python3.8/site-packages/tensorflow/python/eager/execute.py", line 54, in quick_execute
    tensors = pywrap_tfe.TFE_Py_Execute(ctx._handle, device_name, op_name,

tensorflow.python.framework.errors_impl.InvalidArgumentError: {{function_node __wrapped__Reshape_device_/job:localhost/replica:0/task:0/device:GPU:0}} Input to reshape is a tensor with 1800 values, but the requested shape has 2400 [Op:Reshape]


	 [[{{node EagerPyFunc}}]]
	 [[IteratorGetNext]]
0 successful operations.
0 derived errors ignored. [Op:__inference_test_function_109382]
2022-10-25 10:49:59.402005: W tensorflow/core/framework/op_kernel.cc:1768] UNKNOWN: InvalidArgumentError: {{function_node __wrapped__Reshape_device_/job:localhost/replica:0/task:0/device:GPU:0}} Input to reshape is a tensor with 2400 values, but the requested shape has 1800 [Op:Reshape]
Traceback (most recent call last):

  File "/home/bit202/Programs/anaconda3/envs/tf2.x/lib/python3.8/site-packages/tensorflow/python/ops/script_ops.py", line 269, in __call__
    return func(device, token, args)

  File "/home/bit202/Programs/anaconda3/envs/tf2.x/lib/python3.8/site-packages/tensorflow/python/ops/script_ops.py", line 147, in __call__
    outputs = self._call(device, args)

  File "/home/bit202/Programs/anaconda3/envs/tf2.x/lib/python3.8/site-packages/tensorflow/python/ops/script_ops.py", line 154, in _call
    ret = self._func(*args)

  File "/home/bit202/Programs/anaconda3/envs/tf2.x/lib/python3.8/site-packages/tensorflow/python/autograph/impl/api.py", line 642, in wrapper
    return func(*args, **kwargs)

  File "/home/bit202/Programs/anaconda3/envs/tf2.x/lib/python3.8/site-packages/tensorflow/python/data/ops/dataset_ops.py", line 1107, in generator_py_func
    values = next(generator_state.get_iterator(iterator_id.numpy()))

  File "/home/bit202/Programs/tensorflow_gnn/examples/in_memory_test2nd/int_arithmetic_sampler.py", line 530, in generate_subgraphs
    yield self.sample_sub_graph_tensor(

  File "/home/bit202/Programs/tensorflow_gnn/examples/in_memory_test2nd/int_arithmetic_sampler.py", line 606, in sample_sub_graph_tensor
    return walk_tree.to_graph_tensor(self.gather_node_features_dict)

  File "/home/bit202/Programs/tensorflow_gnn/examples/in_memory_test2nd/int_arithmetic_sampler.py", line 319, in to_graph_tensor
    renumbered_dst = tf.searchsorted(unique_node_ids[dst_set_name], edges[1])

  File "/home/bit202/Programs/anaconda3/envs/tf2.x/lib/python3.8/site-packages/tensorflow/python/util/traceback_utils.py", line 153, in error_handler
    raise e.with_traceback(filtered_tb) from None

  File "/home/bit202/Programs/anaconda3/envs/tf2.x/lib/python3.8/site-packages/tensorflow/python/framework/ops.py", line 7209, in raise_from_not_ok_status
    raise core._status_to_exception(e) from None  # pylint: disable=protected-access

tensorflow.python.framework.errors_impl.InvalidArgumentError: {{function_node __wrapped__Reshape_device_/job:localhost/replica:0/task:0/device:GPU:0}} Input to reshape is a tensor with 2400 values, but the requested shape has 1800 [Op:Reshape]