Add optimized read_parquet path for remote storage #1119

rjzamora · 2021-09-16T16:47:31Z

Notes:

~~This PR is blocked by Update and Improve ParquetDatasetEngine #1081 (many of the apparent changes here actually belong to that PR)~~
These changes are intended to address [QST] How to efficiently read data from Google Cloud Storage (gs://)? #1088
The optimizations added here are (mostly) copied from cudf#9225
- The specific fsspec-based optimizations are described in a bit more detail in that PR
- Once NVTabular is pinned to a new enough version of cudf (one where cudf#9225 is merged), the redundant code added here (in nvtabular/io/fsspec_utils.py) can be removed

Performance [UPDATED 9/20/2021]:

Initial tests on a local workstation (reading from GCS over the internet) are very promising: With this PR, I am able to read through a 23-file, 1TB Dataset (Criteo) on two GPUs in ~9 minutes. Without this PR, I cannot even read in a single file from that dataset in the same amount of time.
I have confirmed that this PR leads to favorable performance on GCP (~15 min on an 8-GPU cluster when the input data is stored in GCS). Without this PR, the benchmark takes hours (it is slow enough that I didn't bother with a full run). Note that the same benchmark is expected to finish in ~2-3 min when the input data is stored on a local SSD (however, my instance did not have a large-enough SSD to test this). Command and output:

(rapids-21.08) rzamora@a100-nvtabular-gcs-testing-8g:~$ python NVTabular/bench/examples/dask-nvtabular-criteo-benchmark.py --part-mem-frac 0.125 --data-path gs://workshop-datasets/criteo-parque --out-path /h
ome/rzamora/scratch/ --out-files-per-proc 3 --device-limit-frac 0.75 --device-pool-frac 0.85 --cat-cache-high device -d 0,1,2,3,4,5,6,7 > bench.PR1119.out 2>&1


Dask-NVTabular DLRM/Criteo benchmark
--------------------------------------
partition size     | 5313159168
protocol           | tcp
device(s)          | 0,1,2,3,4,5,6,7
rmm-pool-frac      | 0.85
out-files-per-proc | 3
num_io_threads     | 0
shuffle            | PER_PARTITION
cats-on-device     | False
======================================
Runtime[s]         | 899.8842217922211
======================================

GCP Instance Details:

Machine type: a2-highgpu-8g (96 vCPUs, 680 GB memory)
CPU platform: Intel Cascade Lake
GPUs: 8 x NVIDIA Tesla A100
Zone: us-central1-c
Disk: 1024GB SSD

…VTabular into update-parquet-engine

nvidia-merlin-bot · 2021-09-16T17:47:49Z

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GitHub pull request #1119 of commit 1e8fc4efd6600a64898c0ae74591b555c9637e7e, no merge conflicts. Running as SYSTEM Setting status of 1e8fc4efd6600a64898c0ae74591b555c9637e7e to PENDING with url http://10.20.13.93:8080/job/nvtabular_tests/3460/ 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/1119/*:refs/remotes/origin/pr/1119/* # timeout=10 > git rev-parse 1e8fc4efd6600a64898c0ae74591b555c9637e7e^{commit} # timeout=10 Checking out Revision 1e8fc4efd6600a64898c0ae74591b555c9637e7e (detached) > git config core.sparsecheckout # timeout=10 > git checkout -f 1e8fc4efd6600a64898c0ae74591b555c9637e7e # timeout=10 Commit message: "add optimized read_parquet code path for remote storage" > git rev-list --no-walk dabe5986a6bbfcd0c31104f1cb930444438161f4 # timeout=10 First time build. Skipping changelog. [nvtabular_tests] $ /bin/bash /tmp/jenkins2753775259719280597.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+43.g1e8fc4e -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+43.g1e8fc4e -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+43.g1e8fc4e -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+43.g1e8fc4e -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+43.g1e8fc4e is already the active version in easy-install.pth

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************* 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)

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

Running flake8-nb
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make: Entering directory '/var/jenkins_home/workspace/nvtabular_tests/nvtabular/docs'
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platform linux -- Python 3.8.10, pytest-6.2.5, py-1.10.0, pluggy-1.0.0
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Running script : #!/bin/bash
cd /var/jenkins_home/
CUDA_VISIBLE_DEVICES=1 python test_res_push.py "https://api.GitHub.com/repos/NVIDIA/NVTabular/issues/$ghprbPullId/comments" "/var/jenkins_home/jobs/$JOB_NAME/builds/$BUILD_NUMBER/log"
[nvtabular_tests] $ /bin/bash /tmp/jenkins5489287766969659595.sh

nvidia-merlin-bot · 2021-09-16T18:39:42Z

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GitHub pull request #1119 of commit a82538dcc64ccbd7d68435bac71abae391b401a8, no merge conflicts. Running as SYSTEM Setting status of a82538dcc64ccbd7d68435bac71abae391b401a8 to PENDING with url http://10.20.13.93:8080/job/nvtabular_tests/3461/ 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/1119/*:refs/remotes/origin/pr/1119/* # timeout=10 > git rev-parse a82538dcc64ccbd7d68435bac71abae391b401a8^{commit} # timeout=10 Checking out Revision a82538dcc64ccbd7d68435bac71abae391b401a8 (detached) > git config core.sparsecheckout # timeout=10 > git checkout -f a82538dcc64ccbd7d68435bac71abae391b401a8 # timeout=10 Commit message: "Merge remote-tracking branch 'upstream/main' into gcs-optimize" > git rev-list --no-walk 1e8fc4efd6600a64898c0ae74591b555c9637e7e # timeout=10 [nvtabular_tests] $ /bin/bash /tmp/jenkins3124311042943212991.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+71.ga82538d -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+71.ga82538d -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+71.ga82538d -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+71.ga82538d -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+71.ga82538d is already the active version in easy-install.pth

Installed /var/jenkins_home/workspace/nvtabular_tests/nvtabular
Processing dependencies for nvtabular==0.6.0+71.ga82538d
Searching for protobuf==3.17.3
Best match: protobuf 3.17.3
Adding protobuf 3.17.3 to easy-install.pth file

Using /usr/local/lib/python3.8/dist-packages
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Processing tensorflow_metadata-1.2.0-py3.8.egg
tensorflow-metadata 1.2.0 is already the active version in easy-install.pth

Using /var/jenkins_home/.local/lib/python3.8/site-packages/tensorflow_metadata-1.2.0-py3.8.egg
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Adding pyarrow 4.0.1 to easy-install.pth file
Installing plasma_store script to /var/jenkins_home/.local/bin

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Processing tqdm-4.61.2-py3.8.egg
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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
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Using /var/jenkins_home/.local/lib/python3.8/site-packages/numba-0.54.0-py3.8-linux-x86_64.egg
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pandas 1.2.5 is already the active version in easy-install.pth

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Using /var/jenkins_home/.local/lib/python3.8/site-packages/dask-2021.4.1-py3.8.egg
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Processing PyYAML-5.4.1-py3.8-linux-x86_64.egg
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Using /var/jenkins_home/.local/lib/python3.8/site-packages/PyYAML-5.4.1-py3.8-linux-x86_64.egg
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