Tfrecords to parquet #1085

bschifferer · 2021-09-01T23:39:18Z

Example + function to convert tfrecords to parquet

First draft of the API overhauls changes. Adds most core functionality, including defining workflow graphs with a ColumnGroup class, the workflow and dataset changes , most operators converted to use the new api, etc.

Also partially fix some tests inside test_workflow

Co-authored-by: Richard (Rick) Zamora <rzamora217@gmail.com>

We should be doing online transforms like ```KerasSequenceLoader(workflow.transform(dataset), ...``` instead of ```KerasSequenceLoader(dataset, workflows=[workflow], ...``` now

* test_minmix * updates test * unittest ops

Re-add get_embedding_sizes . Note that this changes how we support multi-hot columns here (sizes are returned same as single hot, and we don't use this method to distinguish between multi and singlehot columns)

add save_stats/load_stats/clear_stats methods to the workflow, with each statoperator getting called as appropiate

git merge upstream/main Merge branch 'main' of https://github.com/NVIDIA/NVTabular

nvidia-merlin-bot · 2021-09-02T00:43:07Z

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GitHub pull request #1085 of commit f7669bafdb6cd53b05316baa242a2da87cc8ac62, no merge conflicts. Running as SYSTEM Setting status of f7669bafdb6cd53b05316baa242a2da87cc8ac62 to PENDING with url http://10.20.13.93:8080/job/nvtabular_tests/3286/ and message: 'Pending' Using context: Jenkins Unit Test Run Building in workspace /var/jenkins_home/workspace/nvtabular_tests using credential nvidia-merlin-bot Cloning the remote Git repository Cloning repository https://github.com/NVIDIA/NVTabular.git > git init /var/jenkins_home/workspace/nvtabular_tests/nvtabular # timeout=10 Fetching upstream changes from https://github.com/NVIDIA/NVTabular.git > git --version # timeout=10 using GIT_ASKPASS to set credentials This is the bot credentials for our CI/CD > git fetch --tags --force --progress -- https://github.com/NVIDIA/NVTabular.git +refs/heads/*:refs/remotes/origin/* # timeout=10 > git config remote.origin.url https://github.com/NVIDIA/NVTabular.git # timeout=10 > git config --add remote.origin.fetch +refs/heads/*:refs/remotes/origin/* # timeout=10 > git config remote.origin.url https://github.com/NVIDIA/NVTabular.git # timeout=10 Fetching upstream changes from https://github.com/NVIDIA/NVTabular.git using GIT_ASKPASS to set credentials This is the bot credentials for our CI/CD > git fetch --tags --force --progress -- https://github.com/NVIDIA/NVTabular.git +refs/pull/1085/*:refs/remotes/origin/pr/1085/* # timeout=10 > git rev-parse f7669bafdb6cd53b05316baa242a2da87cc8ac62^{commit} # timeout=10 Checking out Revision f7669bafdb6cd53b05316baa242a2da87cc8ac62 (detached) > git config core.sparsecheckout # timeout=10 > git checkout -f f7669bafdb6cd53b05316baa242a2da87cc8ac62 # timeout=10 Commit message: "leverage pandas-tfrecords" > git rev-list --no-walk d81d683d4445c8b25c2df8a0efcbaba246ce67ce # timeout=10 First time build. Skipping changelog. [nvtabular_tests] $ /bin/bash /tmp/jenkins6327538182942156347.sh Installing NVTabular Looking in indexes: https://pypi.org/simple, https://pypi.ngc.nvidia.com Requirement already satisfied: pip in /var/jenkins_home/.local/lib/python3.8/site-packages (21.2.4) Requirement already satisfied: setuptools in /var/jenkins_home/.local/lib/python3.8/site-packages (57.4.0) Requirement already satisfied: wheel in /var/jenkins_home/.local/lib/python3.8/site-packages (0.37.0) Requirement already satisfied: pybind11 in /var/jenkins_home/.local/lib/python3.8/site-packages (2.7.1) running develop running egg_info creating nvtabular.egg-info writing nvtabular.egg-info/PKG-INFO writing dependency_links to nvtabular.egg-info/dependency_links.txt writing requirements to nvtabular.egg-info/requires.txt writing top-level names to nvtabular.egg-info/top_level.txt writing manifest file 'nvtabular.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching '*.h' under directory 'cpp' warning: no files found matching '*.cu' under directory 'cpp' warning: no files found matching '*.cuh' under directory 'cpp' adding license file 'LICENSE' writing manifest file 'nvtabular.egg-info/SOURCES.txt' running build_ext x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.8 -c flagcheck.cpp -o flagcheck.o -std=c++17 building 'nvtabular_cpp' extension creating build creating build/temp.linux-x86_64-3.8 creating build/temp.linux-x86_64-3.8/cpp creating build/temp.linux-x86_64-3.8/cpp/nvtabular creating build/temp.linux-x86_64-3.8/cpp/nvtabular/inference x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION_INFO=0.6.0+57.gf7669ba -I./cpp/ -I/var/jenkins_home/.local/lib/python3.8/site-packages/pybind11/include -I/usr/include/python3.8 -c cpp/nvtabular/__init__.cc -o build/temp.linux-x86_64-3.8/cpp/nvtabular/__init__.o -std=c++17 -fvisibility=hidden -g0 x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION_INFO=0.6.0+57.gf7669ba -I./cpp/ -I/var/jenkins_home/.local/lib/python3.8/site-packages/pybind11/include -I/usr/include/python3.8 -c cpp/nvtabular/inference/__init__.cc -o build/temp.linux-x86_64-3.8/cpp/nvtabular/inference/__init__.o -std=c++17 -fvisibility=hidden -g0 x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION_INFO=0.6.0+57.gf7669ba -I./cpp/ -I/var/jenkins_home/.local/lib/python3.8/site-packages/pybind11/include -I/usr/include/python3.8 -c cpp/nvtabular/inference/categorify.cc -o build/temp.linux-x86_64-3.8/cpp/nvtabular/inference/categorify.o -std=c++17 -fvisibility=hidden -g0 x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION_INFO=0.6.0+57.gf7669ba -I./cpp/ -I/var/jenkins_home/.local/lib/python3.8/site-packages/pybind11/include -I/usr/include/python3.8 -c cpp/nvtabular/inference/fill.cc -o build/temp.linux-x86_64-3.8/cpp/nvtabular/inference/fill.o -std=c++17 -fvisibility=hidden -g0 creating build/lib.linux-x86_64-3.8 x86_64-linux-gnu-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.8/cpp/nvtabular/__init__.o build/temp.linux-x86_64-3.8/cpp/nvtabular/inference/__init__.o build/temp.linux-x86_64-3.8/cpp/nvtabular/inference/categorify.o build/temp.linux-x86_64-3.8/cpp/nvtabular/inference/fill.o -o build/lib.linux-x86_64-3.8/nvtabular_cpp.cpython-38-x86_64-linux-gnu.so copying build/lib.linux-x86_64-3.8/nvtabular_cpp.cpython-38-x86_64-linux-gnu.so -> Generating nvtabular/inference/triton/model_config_pb2.py from nvtabular/inference/triton/model_config.proto Creating /var/jenkins_home/.local/lib/python3.8/site-packages/nvtabular.egg-link (link to .) nvtabular 0.6.0+57.gf7669ba is already the active version in easy-install.pth

Installed /var/jenkins_home/workspace/nvtabular_tests/nvtabular
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Running bandit
Running pylint
************* Module nvtabular.framework_utils.tensorflow.tfrecords_to_parquet
nvtabular/framework_utils/tensorflow/tfrecords_to_parquet.py:103:38: W0108: Lambda may not be necessary (unnecessary-lambda)
nvtabular/framework_utils/tensorflow/tfrecords_to_parquet.py:109:71: W0640: Cell variable i defined in loop (cell-var-from-loop)
************* Module nvtabular.ops.categorify
nvtabular/ops/categorify.py:467:15: I1101: Module 'nvtabular_cpp' has no 'inference' member, but source is unavailable. Consider adding this module to extension-pkg-allow-list if you want to perform analysis based on run-time introspection of living objects. (c-extension-no-member)
************* Module nvtabular.ops.fill
nvtabular/ops/fill.py:66:15: I1101: Module 'nvtabular_cpp' has no 'inference' member, but source is unavailable. Consider adding this module to extension-pkg-allow-list if you want to perform analysis based on run-time introspection of living objects. (c-extension-no-member)
************* Module bench.datasets.tools.train_hugectr
bench/datasets/tools/train_hugectr.py:28:13: I1101: Module 'hugectr' has no 'solver_parser_helper' member, but source is unavailable. Consider adding this module to extension-pkg-allow-list if you want to perform analysis based on run-time introspection of living objects. (c-extension-no-member)
bench/datasets/tools/train_hugectr.py:41:16: I1101: Module 'hugectr' has no 'optimizer' member, but source is unavailable. Consider adding this module to extension-pkg-allow-list if you want to perform analysis based on run-time introspection of living objects. (c-extension-no-member)

Your code has been rated at 10.00/10 (previous run: 10.00/10, -0.00)

Build step 'Execute shell' marked build as failure
Performing Post build task...
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[nvtabular_tests] $ /bin/bash /tmp/jenkins2860314178304099854.sh

bschifferer · 2021-09-10T18:34:57Z

@benfred updated to write each tfrecord to one parquet file by using cuDF
Issues with reading the parquet file with cuDF: rapidsai/cudf#9216

nvidia-merlin-bot · 2021-09-10T18:35:37Z

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GitHub pull request #1085 of commit 390dacba0a7b8549956b081e2d69aac0c3de8016, no merge conflicts. Running as SYSTEM Setting status of 390dacba0a7b8549956b081e2d69aac0c3de8016 to PENDING with url http://10.20.13.93:8080/job/nvtabular_tests/3378/ and message: 'Pending' Using context: Jenkins Unit Test Run Building in workspace /var/jenkins_home/workspace/nvtabular_tests using credential nvidia-merlin-bot Cloning the remote Git repository Cloning repository https://github.com/NVIDIA/NVTabular.git > git init /var/jenkins_home/workspace/nvtabular_tests/nvtabular # timeout=10 Fetching upstream changes from https://github.com/NVIDIA/NVTabular.git > git --version # timeout=10 using GIT_ASKPASS to set credentials This is the bot credentials for our CI/CD > git fetch --tags --force --progress -- https://github.com/NVIDIA/NVTabular.git +refs/heads/*:refs/remotes/origin/* # timeout=10 > git config remote.origin.url https://github.com/NVIDIA/NVTabular.git # timeout=10 > git config --add remote.origin.fetch +refs/heads/*:refs/remotes/origin/* # timeout=10 > git config remote.origin.url https://github.com/NVIDIA/NVTabular.git # timeout=10 Fetching upstream changes from https://github.com/NVIDIA/NVTabular.git using GIT_ASKPASS to set credentials This is the bot credentials for our CI/CD > git fetch --tags --force --progress -- https://github.com/NVIDIA/NVTabular.git +refs/pull/1085/*:refs/remotes/origin/pr/1085/* # timeout=10 > git rev-parse 390dacba0a7b8549956b081e2d69aac0c3de8016^{commit} # timeout=10 Checking out Revision 390dacba0a7b8549956b081e2d69aac0c3de8016 (detached) > git config core.sparsecheckout # timeout=10 > git checkout -f 390dacba0a7b8549956b081e2d69aac0c3de8016 # timeout=10 Commit message: "write to one parquet" > git rev-list --no-walk fae18bd9e616ce8d4ecb7da2f643f354be3d094c # timeout=10 First time build. Skipping changelog. [nvtabular_tests] $ /bin/bash /tmp/jenkins4703159016309718325.sh Installing NVTabular Looking in indexes: https://pypi.org/simple, https://pypi.ngc.nvidia.com Requirement already satisfied: pip in /var/jenkins_home/.local/lib/python3.8/site-packages (21.2.4) Requirement already satisfied: setuptools in /var/jenkins_home/.local/lib/python3.8/site-packages (58.0.4) Requirement already satisfied: wheel in /var/jenkins_home/.local/lib/python3.8/site-packages (0.37.0) Requirement already satisfied: pybind11 in /var/jenkins_home/.local/lib/python3.8/site-packages (2.7.1) running develop running egg_info creating nvtabular.egg-info writing nvtabular.egg-info/PKG-INFO writing dependency_links to nvtabular.egg-info/dependency_links.txt writing requirements to nvtabular.egg-info/requires.txt writing top-level names to nvtabular.egg-info/top_level.txt writing manifest file 'nvtabular.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching '*.h' under directory 'cpp' warning: no files found matching '*.cu' under directory 'cpp' warning: no files found matching '*.cuh' under directory 'cpp' adding license file 'LICENSE' writing manifest file 'nvtabular.egg-info/SOURCES.txt' running build_ext x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.8 -c flagcheck.cpp -o flagcheck.o -std=c++17 building 'nvtabular_cpp' extension creating build creating build/temp.linux-x86_64-3.8 creating build/temp.linux-x86_64-3.8/cpp creating build/temp.linux-x86_64-3.8/cpp/nvtabular creating build/temp.linux-x86_64-3.8/cpp/nvtabular/inference x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION_INFO=0.6.0+58.g390dacb -I./cpp/ -I/var/jenkins_home/.local/lib/python3.8/site-packages/pybind11/include -I/usr/include/python3.8 -c cpp/nvtabular/__init__.cc -o build/temp.linux-x86_64-3.8/cpp/nvtabular/__init__.o -std=c++17 -fvisibility=hidden -g0 x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION_INFO=0.6.0+58.g390dacb -I./cpp/ -I/var/jenkins_home/.local/lib/python3.8/site-packages/pybind11/include -I/usr/include/python3.8 -c cpp/nvtabular/inference/__init__.cc -o build/temp.linux-x86_64-3.8/cpp/nvtabular/inference/__init__.o -std=c++17 -fvisibility=hidden -g0 x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION_INFO=0.6.0+58.g390dacb -I./cpp/ -I/var/jenkins_home/.local/lib/python3.8/site-packages/pybind11/include -I/usr/include/python3.8 -c cpp/nvtabular/inference/categorify.cc -o build/temp.linux-x86_64-3.8/cpp/nvtabular/inference/categorify.o -std=c++17 -fvisibility=hidden -g0 x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DVERSION_INFO=0.6.0+58.g390dacb -I./cpp/ -I/var/jenkins_home/.local/lib/python3.8/site-packages/pybind11/include -I/usr/include/python3.8 -c cpp/nvtabular/inference/fill.cc -o build/temp.linux-x86_64-3.8/cpp/nvtabular/inference/fill.o -std=c++17 -fvisibility=hidden -g0 creating build/lib.linux-x86_64-3.8 x86_64-linux-gnu-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-3.8/cpp/nvtabular/__init__.o build/temp.linux-x86_64-3.8/cpp/nvtabular/inference/__init__.o build/temp.linux-x86_64-3.8/cpp/nvtabular/inference/categorify.o build/temp.linux-x86_64-3.8/cpp/nvtabular/inference/fill.o -o build/lib.linux-x86_64-3.8/nvtabular_cpp.cpython-38-x86_64-linux-gnu.so copying build/lib.linux-x86_64-3.8/nvtabular_cpp.cpython-38-x86_64-linux-gnu.so -> Generating nvtabular/inference/triton/model_config_pb2.py from nvtabular/inference/triton/model_config.proto Creating /var/jenkins_home/.local/lib/python3.8/site-packages/nvtabular.egg-link (link to .) nvtabular 0.6.0+58.g390dacb is already the active version in easy-install.pth

Installed /var/jenkins_home/workspace/nvtabular_tests/nvtabular
Processing dependencies for nvtabular==0.6.0+58.g390dacb
Searching for pyarrow==4.0.1
Best match: pyarrow 4.0.1
Adding pyarrow 4.0.1 to easy-install.pth file
Installing plasma_store script to /var/jenkins_home/.local/bin

Using /usr/local/lib/python3.8/dist-packages
Searching for tqdm==4.61.2
Best match: tqdm 4.61.2
Processing tqdm-4.61.2-py3.8.egg
tqdm 4.61.2 is already the active version in easy-install.pth
Installing tqdm script to /var/jenkins_home/.local/bin

Using /var/jenkins_home/.local/lib/python3.8/site-packages/tqdm-4.61.2-py3.8.egg
Searching for numba==0.54.0
Best match: numba 0.54.0
Processing numba-0.54.0-py3.8-linux-x86_64.egg
numba 0.54.0 is already the active version in easy-install.pth
Installing pycc script to /var/jenkins_home/.local/bin
Installing numba script to /var/jenkins_home/.local/bin

Using /var/jenkins_home/.local/lib/python3.8/site-packages/numba-0.54.0-py3.8-linux-x86_64.egg
Searching for pandas==1.2.5
Best match: pandas 1.2.5
Processing pandas-1.2.5-py3.8-linux-x86_64.egg
pandas 1.2.5 is already the active version in easy-install.pth

Using /var/jenkins_home/.local/lib/python3.8/site-packages/pandas-1.2.5-py3.8-linux-x86_64.egg
Searching for distributed==2021.4.1
Best match: distributed 2021.4.1
Processing distributed-2021.4.1-py3.8.egg
distributed 2021.4.1 is already the active version in easy-install.pth
Installing dask-ssh script to /var/jenkins_home/.local/bin
Installing dask-scheduler script to /var/jenkins_home/.local/bin
Installing dask-worker script to /var/jenkins_home/.local/bin

Using /var/jenkins_home/.local/lib/python3.8/site-packages/distributed-2021.4.1-py3.8.egg
Searching for dask==2021.4.1
Best match: dask 2021.4.1
Processing dask-2021.4.1-py3.8.egg
dask 2021.4.1 is already the active version in easy-install.pth

Using /var/jenkins_home/.local/lib/python3.8/site-packages/dask-2021.4.1-py3.8.egg
Searching for PyYAML==5.4.1
Best match: PyYAML 5.4.1
Processing PyYAML-5.4.1-py3.8-linux-x86_64.egg
PyYAML 5.4.1 is already the active version in easy-install.pth

Using /var/jenkins_home/.local/lib/python3.8/site-packages/PyYAML-5.4.1-py3.8-linux-x86_64.egg
Searching for numpy==1.20.2
Best match: numpy 1.20.2
Adding numpy 1.20.2 to easy-install.pth file
Installing f2py script to /var/jenkins_home/.local/bin
Installing f2py3 script to /var/jenkins_home/.local/bin
Installing f2py3.8 script to /var/jenkins_home/.local/bin

Using /usr/local/lib/python3.8/dist-packages
Searching for setuptools==58.0.4
Best match: setuptools 58.0.4
Adding setuptools 58.0.4 to easy-install.pth file

Using /var/jenkins_home/.local/lib/python3.8/site-packages
Searching for llvmlite==0.37.0
Best match: llvmlite 0.37.0
Processing llvmlite-0.37.0-py3.8-linux-x86_64.egg
llvmlite 0.37.0 is already the active version in easy-install.pth

Using /var/jenkins_home/.local/lib/python3.8/site-packages/llvmlite-0.37.0-py3.8-linux-x86_64.egg
Searching for pytz==2021.1
Best match: pytz 2021.1
Adding pytz 2021.1 to easy-install.pth file

Using /usr/local/lib/python3.8/dist-packages
Searching for python-dateutil==2.8.2
Best match: python-dateutil 2.8.2
Adding python-dateutil 2.8.2 to easy-install.pth file