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[BUG] str.character_ngrams produces <NA> with strings < ngram length #14684

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Vortexx2 opened this issue Dec 29, 2023 · 3 comments
Closed

[BUG] str.character_ngrams produces <NA> with strings < ngram length #14684

Vortexx2 opened this issue Dec 29, 2023 · 3 comments
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bug Something isn't working

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@Vortexx2
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Describe the bug
The str.character_ngrams function produces token <NA> for strings which are lesser than the provided n (shown in image for the case of bigrams).
result output

I have debugged this and as far as I understand it, it is being caused by an empty list returned by the libstrings.generate_character_ngrams function. This causes to be a part of the result when it is exploded in the problematic function.
This issue causes several bugs in downstream tasks (like when using cuml for CountVectorizer etc).

Steps/Code to reproduce bug
Minimum code required to reproduce the bug:

import cudf
str_series = cudf.Series(['1744', '4'])
str_series.str.character_ngrams(2)

Expected behavior
should not be a part of the output. This causes several downstream tasks to fail because is not a valid token in the actual input string series.

Environment overview (please complete the following information)

  • Environment location: Cloud GCP
  • Method of cuDF install: pip

Environment details

**git***
     Not inside a git repository
     
     ***OS Information***
     PRETTY_NAME="Debian GNU/Linux 11 (bullseye)"
     NAME="Debian GNU/Linux"
     VERSION_ID="11"
     VERSION="11 (bullseye)"
     VERSION_CODENAME=bullseye
     ID=debian
     HOME_URL="https://www.debian.org/"
     SUPPORT_URL="https://www.debian.org/support"
     BUG_REPORT_URL="https://bugs.debian.org/"
     Linux janmey-gpu-c2 5.10.0-26-cloud-amd64 #1 SMP Debian 5.10.197-1 (2023-09-29) x86_64 GNU/Linux
     
     ***GPU Information***
     Fri Dec 29 10:21:54 2023
     +-----------------------------------------------------------------------------+
     | NVIDIA-SMI 525.105.17   Driver Version: 525.105.17   CUDA Version: 12.0     |
     |-------------------------------+----------------------+----------------------+
     | GPU  Name        Persistence-M| Bus-Id        Disp.A | Volatile Uncorr. ECC |
     | Fan  Temp  Perf  Pwr:Usage/Cap|         Memory-Usage | GPU-Util  Compute M. |
     |                               |                      |               MIG M. |
     |===============================+======================+======================|
     |   0  Tesla T4            On   | 00000000:00:04.0 Off |                    0 |
     | N/A   70C    P0    33W /  70W |    459MiB / 15360MiB |      0%      Default |
     |                               |                      |                  N/A |
     +-------------------------------+----------------------+----------------------+
     
     +-----------------------------------------------------------------------------+
     | Processes:                                                                  |
     |  GPU   GI   CI        PID   Type   Process name                  GPU Memory |
     |        ID   ID                                                   Usage      |
     |=============================================================================|
     |    0   N/A  N/A    316341      C   ..._log_ner/.venv/bin/python      454MiB |
     +-----------------------------------------------------------------------------+
     
     ***CPU***
     Architecture:                       x86_64
     CPU op-mode(s):                     32-bit, 64-bit
     Byte Order:                         Little Endian
     Address sizes:                      46 bits physical, 48 bits virtual
     CPU(s):                             16
     On-line CPU(s) list:                0-15
     Thread(s) per core:                 2
     Core(s) per socket:                 8
     Socket(s):                          1
     NUMA node(s):                       1
     Vendor ID:                          GenuineIntel
     CPU family:                         6
     Model:                              79
     Model name:                         Intel(R) Xeon(R) CPU @ 2.20GHz
     Stepping:                           0
     CPU MHz:                            2199.998
     BogoMIPS:                           4399.99
     Hypervisor vendor:                  KVM
     Virtualization type:                full
     L1d cache:                          256 KiB
     L1i cache:                          256 KiB
     L2 cache:                           2 MiB
     L3 cache:                           55 MiB
     NUMA node0 CPU(s):                  0-15
     Vulnerability Gather data sampling: Not affected
     Vulnerability Itlb multihit:        Not affected
     Vulnerability L1tf:                 Mitigation; PTE Inversion
     Vulnerability Mds:                  Mitigation; Clear CPU buffers; SMT Host state unknown
     Vulnerability Meltdown:             Mitigation; PTI
     Vulnerability Mmio stale data:      Vulnerable: Clear CPU buffers attempted, no microcode; SMT Host state unknown
     Vulnerability Retbleed:             Mitigation; IBRS
     Vulnerability Spec rstack overflow: Not affected
     Vulnerability Spec store bypass:    Mitigation; Speculative Store Bypass disabled via prctl and seccomp
     Vulnerability Spectre v1:           Mitigation; usercopy/swapgs barriers and __user pointer sanitization
     Vulnerability Spectre v2:           Mitigation; IBRS, IBPB conditional, STIBP conditional, RSB filling, PBRSB-eIBRS Not affected
     Vulnerability Srbds:                Not affected
     Vulnerability Tsx async abort:      Mitigation; Clear CPU buffers; SMT Host state unknown
     Flags:                              fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush mmx fxsr sse sse2 ss ht syscall nx pdpe1gb rdtscp lm constant_tsc rep_good nopl xtopology nonstop_tsc cpuid tsc_known_freq pni pclmulqdq ssse3 fma cx16 pcid sse4_1 sse4_2 x2apic movbe popcnt aes xsave avx f16c rdrand hypervisor lahf_lm abm 3dnowprefetch invpcid_single pti ssbd ibrs ibpb stibp fsgsbase tsc_adjust bmi1 hle avx2 smep bmi2 erms invpcid rtm rdseed adx smap xsaveopt arat md_clear arch_capabilities
     
     ***CMake***
     /usr/bin/cmake
     cmake version 3.18.4
     
     CMake suite maintained and supported by Kitware (kitware.com/cmake).
     
     ***g++***
     /usr/bin/g++
     g++ (Debian 10.2.1-6) 10.2.1 20210110
     Copyright (C) 2020 Free Software Foundation, Inc.
     This is free software; see the source for copying conditions.  There is NO
     warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
     
     
     ***nvcc***
     /usr/local/cuda/bin/nvcc
     nvcc: NVIDIA (R) Cuda compiler driver
     Copyright (c) 2005-2022 NVIDIA Corporation
     Built on Wed_Sep_21_10:33:58_PDT_2022
     Cuda compilation tools, release 11.8, V11.8.89
     Build cuda_11.8.r11.8/compiler.31833905_0
     
     ***Python***
     /home/janmeysandeepshukla/datasci/transaction_log_ner/.venv/bin/python
     Python 3.10.13
     
     ***Environment Variables***
     PATH                            : /home/janmeysandeepshukla/datasci/transaction_log_ner/.venv/bin:/home/janmeysandeepshukla/.vscode-server/bin/0ee08df0cf4527e40edc9aa28f4b5bd38bbff2b2/bin/remote-cli:/usr/local/cuda/bin:/opt/conda/bin:/usr/local/bin:/usr/bin:/bin:/usr/local/games:/usr/games
     LD_LIBRARY_PATH                 : /usr/local/cuda/lib64:/usr/local/nccl2/lib:/usr/local/cuda/extras/CUPTI/lib64:/usr/local/cuda/lib64:/usr/local/nccl2/lib:/usr/local/cuda/extras/CUPTI/lib64
     NUMBAPRO_NVVM                   :
     NUMBAPRO_LIBDEVICE              :
     CONDA_PREFIX                    : /opt/conda
     PYTHON_PATH                     :
     
     ***conda packages***
     /opt/conda/bin/conda
     # packages in environment at /opt/conda:
     #
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     pluggy                    1.3.0              pyhd8ed1ab_0    conda-forge
     prettytable               3.9.0                    pypi_0    pypi
     prometheus_client         0.19.0             pyhd8ed1ab_0    conda-forge
     prompt-toolkit            3.0.41             pyha770c72_0    conda-forge
     proto-plus                1.23.0                   pypi_0    pypi
     protobuf                  3.20.3                   pypi_0    pypi
     psutil                    5.9.3                    pypi_0    pypi
     ptyprocess                0.7.0              pyhd3deb0d_0    conda-forge
     pure_eval                 0.2.2              pyhd8ed1ab_0    conda-forge
     py-spy                    0.3.14                   pypi_0    pypi
     pyarrow                   14.0.1                   pypi_0    pypi
     pyasn1                    0.5.1                    pypi_0    pypi
     pyasn1-modules            0.3.0                    pypi_0    pypi
     pybind11-abi              4                    hd8ed1ab_3    conda-forge
     pycosat                   0.6.6           py310h2372a71_0    conda-forge
     pycparser                 2.21               pyhd8ed1ab_0    conda-forge
     pydantic                  1.10.13                  pypi_0    pypi
     pygments                  2.17.2             pyhd8ed1ab_0    conda-forge
     pyjwt                     2.8.0                    pypi_0    pypi
     pyparsing                 3.1.1                    pypi_0    pypi
     pysocks                   1.7.1              pyha2e5f31_6    conda-forge
     python                    3.10.13         hd12c33a_0_cpython    conda-forge
     python-dateutil           2.8.2              pyhd8ed1ab_0    conda-forge
     python-dotenv             1.0.0                    pypi_0    pypi
     python-fastjsonschema     2.19.0             pyhd8ed1ab_0    conda-forge
     python-json-logger        2.0.7              pyhd8ed1ab_0    conda-forge
     python_abi                3.10                    4_cp310    conda-forge
     pytz                      2023.3.post1       pyhd8ed1ab_0    conda-forge
     pywavelets                1.5.0                    pypi_0    pypi
     pyyaml                    6.0.1           py310h2372a71_1    conda-forge
     pyzmq                     24.0.1                   pypi_0    pypi
     ray                       2.8.1                    pypi_0    pypi
     ray-cpp                   2.8.1                    pypi_0    pypi
     readline                  8.2                  h8228510_1    conda-forge
     referencing               0.32.0             pyhd8ed1ab_0    conda-forge
     reproc                    14.2.4.post0         hd590300_1    conda-forge
     reproc-cpp                14.2.4.post0         h59595ed_1    conda-forge
     requests                  2.31.0             pyhd8ed1ab_0    conda-forge
     requests-oauthlib         1.3.1                    pypi_0    pypi
     requests-toolbelt         0.10.1                   pypi_0    pypi
     retrying                  1.3.4                    pypi_0    pypi
     rfc3339-validator         0.1.4              pyhd8ed1ab_0    conda-forge
     rfc3986-validator         0.1.1              pyh9f0ad1d_0    conda-forge
     rich                      13.7.0                   pypi_0    pypi
     rpds-py                   0.13.2          py310hcb5633a_0    conda-forge
     ruamel.yaml               0.18.5          py310h2372a71_0    conda-forge
     ruamel.yaml.clib          0.2.7           py310h2372a71_2    conda-forge
     scikit-image              0.22.0                   pypi_0    pypi
     scikit-learn              1.3.2                    pypi_0    pypi
     scipy                     1.11.4                   pypi_0    pypi
     seaborn                   0.12.2                   pypi_0    pypi
     secretstorage             3.3.3                    pypi_0    pypi
     send2trash                1.8.2              pyh41d4057_0    conda-forge
     setuptools                68.2.2             pyhd8ed1ab_0    conda-forge
     shapely                   2.0.2                    pypi_0    pypi
     simpervisor               1.0.0                    pypi_0    pypi
     six                       1.16.0             pyh6c4a22f_0    conda-forge
     smart-open                6.4.0                    pypi_0    pypi
     smmap                     5.0.1                    pypi_0    pypi
     sniffio                   1.3.0              pyhd8ed1ab_0    conda-forge
     soupsieve                 2.5                pyhd8ed1ab_1    conda-forge
     sqlalchemy                2.0.23                   pypi_0    pypi
     sqlparse                  0.4.4                    pypi_0    pypi
     stack-data                0.6.3                    pypi_0    pypi
     stack_data                0.6.2              pyhd8ed1ab_0    conda-forge
     starlette                 0.27.0                   pypi_0    pypi
     statsmodels               0.14.0                   pypi_0    pypi
     tabulate                  0.9.0                    pypi_0    pypi
     tangled-up-in-unicode     0.2.0                    pypi_0    pypi
     tenacity                  8.2.3                    pypi_0    pypi
     tensorboardx              2.6.2.2                  pypi_0    pypi
     terminado                 0.18.0             pyh0d859eb_0    conda-forge
     threadpoolctl             3.2.0                    pypi_0    pypi
     tifffile                  2023.12.9                pypi_0    pypi
     tinycss2                  1.2.1              pyhd8ed1ab_0    conda-forge
     tk                        8.6.13          noxft_h4845f30_101    conda-forge
     toml                      0.10.2                   pypi_0    pypi
     tomli                     2.0.1              pyhd8ed1ab_0    conda-forge
     tornado                   6.3.3           py310h2372a71_1    conda-forge
     tqdm                      4.66.1             pyhd8ed1ab_0    conda-forge
     traitlets                 5.14.0             pyhd8ed1ab_0    conda-forge
     truststore                0.8.0              pyhd8ed1ab_0    conda-forge
     typeguard                 4.1.5                    pypi_0    pypi
     typer                     0.9.0                    pypi_0    pypi
     types-python-dateutil     2.8.19.14          pyhd8ed1ab_0    conda-forge
     typing-extensions         4.8.0                hd8ed1ab_0    conda-forge
     typing_extensions         4.8.0              pyha770c72_0    conda-forge
     typing_utils              0.1.0              pyhd8ed1ab_0    conda-forge
     tzdata                    2023.3                   pypi_0    pypi
     uri-template              1.3.0              pyhd8ed1ab_0    conda-forge
     uritemplate               3.0.1                    pypi_0    pypi
     urllib3                   1.26.18                  pypi_0    pypi
     uvicorn                   0.24.0.post1             pypi_0    pypi
     uvloop                    0.19.0                   pypi_0    pypi
     virtualenv                20.21.0                  pypi_0    pypi
     visions                   0.7.5                    pypi_0    pypi
     watchfiles                0.21.0                   pypi_0    pypi
     wcwidth                   0.2.12             pyhd8ed1ab_0    conda-forge
     webcolors                 1.13               pyhd8ed1ab_0    conda-forge
     webencodings              0.5.1              pyhd8ed1ab_2    conda-forge
     websocket-client          1.7.0              pyhd8ed1ab_0    conda-forge
     websockets                12.0                     pypi_0    pypi
     wheel                     0.42.0             pyhd8ed1ab_0    conda-forge
     widgetsnbextension        4.0.9                    pypi_0    pypi
     wordcloud                 1.9.3                    pypi_0    pypi
     wrapt                     1.16.0                   pypi_0    pypi
     xz                        5.2.6                h166bdaf_0    conda-forge
     y-py                      0.6.2                    pypi_0    pypi
     yaml                      0.2.5                h7f98852_2    conda-forge
     yaml-cpp                  0.8.0                h59595ed_0    conda-forge
     yarl                      1.9.4                    pypi_0    pypi
     ydata-profiling           4.6.0                    pypi_0    pypi
     ypy-websocket             0.8.4                    pypi_0    pypi
     zeromq                    4.3.5                h59595ed_0    conda-forge
     zipp                      3.17.0             pyhd8ed1ab_0    conda-forge
     zlib                      1.2.13               hd590300_5    conda-forge
     zstandard                 0.22.0          py310h1275a96_0    conda-forge
     zstd                      1.5.5                hfc55251_0    conda-forge
     ```
@Vortexx2 Vortexx2 added Needs Triage Need team to review and classify bug Something isn't working labels Dec 29, 2023
@Vortexx2 Vortexx2 mentioned this issue Dec 29, 2023
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@Vortexx2
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This PR should fix the above issue.

@Vortexx2 Vortexx2 mentioned this issue Dec 29, 2023
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@vyasr
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vyasr commented Jan 11, 2024

Thanks for the report and the fix!

@bdice bdice removed the Needs Triage Need team to review and classify label Mar 4, 2024
@davidwendt
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Closed by #15371

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@vyasr @bdice @davidwendt @Vortexx2