From c4a11ffe17b91362780eb9d9e031988133d86637 Mon Sep 17 00:00:00 2001 From: "copilot-swe-agent[bot]" <198982749+Copilot@users.noreply.github.com> Date: Fri, 24 Apr 2026 18:17:47 +0000 Subject: [PATCH 1/6] Initial plan From bf46032f1c64bc202783fbe540b3a41610756d96 Mon Sep 17 00:00:00 2001 From: "copilot-swe-agent[bot]" <198982749+Copilot@users.noreply.github.com> Date: Fri, 24 Apr 2026 18:20:40 +0000 Subject: [PATCH 2/6] Fix torch autocast deprecation warning by using use_reentrant=False Agent-Logs-Url: https://github.com/sillsdev/silnlp/sessions/718c44c7-fd32-4f0e-923f-1c0164875e59 Co-authored-by: benjaminking <1214233+benjaminking@users.noreply.github.com> --- silnlp/nmt/hugging_face_config.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/silnlp/nmt/hugging_face_config.py b/silnlp/nmt/hugging_face_config.py index a89fba46..f890fbe1 100644 --- a/silnlp/nmt/hugging_face_config.py +++ b/silnlp/nmt/hugging_face_config.py @@ -335,7 +335,7 @@ def __init__(self, exp_dir: Path, config: dict) -> None: "max_source_length": 200, "max_target_length": 200, "gradient_checkpointing": True, - "gradient_checkpointing_kwargs": {"use_reentrant": True}, + "gradient_checkpointing_kwargs": {"use_reentrant": False}, "save_steps": 1000, "per_device_train_batch_size": 16, "save_strategy": "steps", From a42702f4763a9896fd13a3d7ea7b4526aa811017 Mon Sep 17 00:00:00 2001 From: "copilot-swe-agent[bot]" <198982749+Copilot@users.noreply.github.com> Date: Fri, 24 Apr 2026 19:43:25 +0000 Subject: [PATCH 3/6] Suppress torch.utils.checkpoint FutureWarning about deprecated torch.cpu.amp.autocast Agent-Logs-Url: https://github.com/sillsdev/silnlp/sessions/4592cc6c-17bc-498d-9320-6da2e1b8729b Co-authored-by: benjaminking <1214233+benjaminking@users.noreply.github.com> --- silnlp/nmt/hugging_face_config.py | 11 +++++++++++ 1 file changed, 11 insertions(+) diff --git a/silnlp/nmt/hugging_face_config.py b/silnlp/nmt/hugging_face_config.py index f890fbe1..fe1a1fec 100644 --- a/silnlp/nmt/hugging_face_config.py +++ b/silnlp/nmt/hugging_face_config.py @@ -4,6 +4,7 @@ import os import re import shutil +import warnings from contextlib import ExitStack from copy import deepcopy from dataclasses import dataclass @@ -912,6 +913,16 @@ def __init__( self._clearml_queue = clearml_queue def train(self) -> None: + # Suppress FutureWarning from torch.utils.checkpoint about the deprecated + # torch.cpu.amp.autocast API. This is a PyTorch-internal issue that has no + # user-actionable fix in silnlp. + warnings.filterwarnings( + "ignore", + message=r"`torch\.cpu\.amp\.autocast\(args\.\.\.\)` is deprecated", + category=FutureWarning, + module="torch", + ) + training_args = self._create_training_arguments() if training_args.should_log: From 04cc832b2e856d31918e262c8b01ef85710496b8 Mon Sep 17 00:00:00 2001 From: "copilot-swe-agent[bot]" <198982749+Copilot@users.noreply.github.com> Date: Fri, 24 Apr 2026 20:16:59 +0000 Subject: [PATCH 4/6] Upgrade torch to 2.5.1+cu121 to fix autocast deprecation warning at the source Agent-Logs-Url: https://github.com/sillsdev/silnlp/sessions/3eeb9ac4-ca51-42c0-a741-15f1ccea7d80 Co-authored-by: benjaminking <1214233+benjaminking@users.noreply.github.com> --- poetry.lock | 44 +++++++++++++++---------------- pyproject.toml | 2 +- silnlp/nmt/hugging_face_config.py | 11 -------- 3 files changed, 22 insertions(+), 35 deletions(-) diff --git a/poetry.lock b/poetry.lock index 95e1b704..7889d156 100644 --- a/poetry.lock +++ b/poetry.lock @@ -3121,13 +3121,12 @@ nvidia-nvjitlink-cu12 = "*" [[package]] name = "nvidia-nccl-cu12" -version = "2.20.5" +version = "2.21.5" description = "NVIDIA Collective Communication Library (NCCL) Runtime" optional = false python-versions = ">=3" files = [ - {file = "nvidia_nccl_cu12-2.20.5-py3-none-manylinux2014_aarch64.whl", hash = "sha256:1fc150d5c3250b170b29410ba682384b14581db722b2531b0d8d33c595f33d01"}, - {file = "nvidia_nccl_cu12-2.20.5-py3-none-manylinux2014_x86_64.whl", hash = "sha256:057f6bf9685f75215d0c53bf3ac4a10b3e6578351de307abad9e18a99182af56"}, + {file = "nvidia_nccl_cu12-2.21.5-py3-none-manylinux2014_x86_64.whl", hash = "sha256:8579076d30a8c24988834445f8d633c697d42397e92ffc3f63fa26766d25e0a0"}, ] [[package]] @@ -5505,21 +5504,20 @@ files = [ [[package]] name = "torch" -version = "2.4.1+cu121" +version = "2.5.1+cu121" description = "Tensors and Dynamic neural networks in Python with strong GPU acceleration" optional = false python-versions = ">=3.8.0" files = [ - {file = "torch-2.4.1+cu121-cp310-cp310-linux_x86_64.whl", hash = "sha256:9a5f0b103cfe840b3568416aa5067f6e7b9fec67d9c5659fd43b1207450fe975"}, - {file = "torch-2.4.1+cu121-cp310-cp310-win_amd64.whl", hash = "sha256:fe3bf682e86c08d6a8ec0ee30811732487fa688fc556d6e8f92d853d85507c0d"}, - {file = "torch-2.4.1+cu121-cp311-cp311-linux_x86_64.whl", hash = "sha256:914d128e5abcbbe79ca1b9eb5311b185444f1b2d7117df555fe418487ecfb894"}, - {file = "torch-2.4.1+cu121-cp311-cp311-win_amd64.whl", hash = "sha256:bc1e21d7412a2f06f552a9afb92c56c8b23d174884e9383259c3cf5db4687c98"}, - {file = "torch-2.4.1+cu121-cp312-cp312-linux_x86_64.whl", hash = "sha256:ab491610b15551e08da74bab29d0933e6bf10bab44fb7d4b1328f1e845c05a53"}, - {file = "torch-2.4.1+cu121-cp312-cp312-win_amd64.whl", hash = "sha256:b30faf3224697eaed131939690e8877b05b4d4cb6da5b12cfdcba3d742e9afd0"}, - {file = "torch-2.4.1+cu121-cp38-cp38-linux_x86_64.whl", hash = "sha256:cb4f502f910b47e1e366ccf7b231dac2967d2efb47d4b8cb33fc63b4bc5eeed8"}, - {file = "torch-2.4.1+cu121-cp38-cp38-win_amd64.whl", hash = "sha256:a48b991cd861266523cbed4705f89bef09669d5d2bbfa2524486156f74a222a8"}, - {file = "torch-2.4.1+cu121-cp39-cp39-linux_x86_64.whl", hash = "sha256:9986ad3555ddfff55e925d8298f8b2b49106a7dc60f811a2076a445fe4458e2b"}, - {file = "torch-2.4.1+cu121-cp39-cp39-win_amd64.whl", hash = "sha256:2ca012a78d7a2777c290a4b79cb2130bf65fdda89f533a8172674034c2a1519c"}, + {file = "torch-2.5.1+cu121-cp310-cp310-linux_x86_64.whl", hash = "sha256:92af92c569de5da937dd1afb45ecfdd598ec1254cf2e49e3d698cb24d71aae14"}, + {file = "torch-2.5.1+cu121-cp310-cp310-win_amd64.whl", hash = "sha256:9b22d6d98aa56f9317902dec0e066814a6edba1aada90110ceea2bb0678df22f"}, + {file = "torch-2.5.1+cu121-cp311-cp311-linux_x86_64.whl", hash = "sha256:c8ab8c92eab928a93c483f83ca8c63f13dafc10fc93ad90ed2dcb7c82ea50410"}, + {file = "torch-2.5.1+cu121-cp311-cp311-win_amd64.whl", hash = "sha256:4bcee18f00c43c815efad8efaa3bca584ffdc8d2cd35ef4c44c814f2739d9191"}, + {file = "torch-2.5.1+cu121-cp312-cp312-linux_x86_64.whl", hash = "sha256:222be02548c2e74a21a8fbc8e5b8d2eef9f9faee865d70385d2eb1b9aabcbc76"}, + {file = "torch-2.5.1+cu121-cp312-cp312-win_amd64.whl", hash = "sha256:473d76257636c66b22cbfac6f616d6b522ef3d3473c13decb1afda22a7b059eb"}, + {file = "torch-2.5.1+cu121-cp313-cp313-linux_x86_64.whl", hash = "sha256:1bfe18b79b0ff9be9383257a66c3f84621ce5f384f02c0a7c79503583d6ffd4b"}, + {file = "torch-2.5.1+cu121-cp39-cp39-linux_x86_64.whl", hash = "sha256:3c96b2ec4723e7d97259964ee73e2d6a2bace42511a49005b083ea7be1a0b0ac"}, + {file = "torch-2.5.1+cu121-cp39-cp39-win_amd64.whl", hash = "sha256:dc4249c520a6e9b1555e46bd70586a7cf33012800a51acb58a0c51464e3a786a"}, ] [package.dependencies] @@ -5536,10 +5534,10 @@ nvidia-cufft-cu12 = {version = "11.0.2.54", markers = "platform_system == \"Linu nvidia-curand-cu12 = {version = "10.3.2.106", markers = "platform_system == \"Linux\" and platform_machine == \"x86_64\""} nvidia-cusolver-cu12 = {version = "11.4.5.107", markers = "platform_system == \"Linux\" and platform_machine == \"x86_64\""} nvidia-cusparse-cu12 = {version = "12.1.0.106", markers = "platform_system == \"Linux\" and platform_machine == \"x86_64\""} -nvidia-nccl-cu12 = {version = "2.20.5", markers = "platform_system == \"Linux\" and platform_machine == \"x86_64\""} +nvidia-nccl-cu12 = {version = "2.21.5", markers = "platform_system == \"Linux\" and platform_machine == \"x86_64\""} nvidia-nvtx-cu12 = {version = "12.1.105", markers = "platform_system == \"Linux\" and platform_machine == \"x86_64\""} sympy = "*" -triton = {version = "3.0.0", markers = "platform_system == \"Linux\" and platform_machine == \"x86_64\" and python_version < \"3.13\""} +triton = {version = "3.1.0", markers = "platform_system == \"Linux\" and platform_machine == \"x86_64\" and python_version < \"3.13\""} typing-extensions = ">=4.8.0" [package.extras] @@ -5677,16 +5675,16 @@ vision = ["Pillow (>=10.0.1,<=15.0)"] [[package]] name = "triton" -version = "3.0.0" +version = "3.1.0" description = "A language and compiler for custom Deep Learning operations" optional = false python-versions = "*" files = [ - 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# Suppress FutureWarning from torch.utils.checkpoint about the deprecated - # torch.cpu.amp.autocast API. This is a PyTorch-internal issue that has no - # user-actionable fix in silnlp. - warnings.filterwarnings( - "ignore", - message=r"`torch\.cpu\.amp\.autocast\(args\.\.\.\)` is deprecated", - category=FutureWarning, - module="torch", - ) - training_args = self._create_training_arguments() if training_args.should_log: From 4d5e2741d21c5785b599e8d4cf24365b31411d05 Mon Sep 17 00:00:00 2001 From: "copilot-swe-agent[bot]" <198982749+Copilot@users.noreply.github.com> Date: Fri, 24 Apr 2026 20:27:07 +0000 Subject: [PATCH 5/6] Upgrade torch to 2.6.0+cu124 to patch torch.load RCE vulnerability (CVE) Agent-Logs-Url: https://github.com/sillsdev/silnlp/sessions/3eeb9ac4-ca51-42c0-a741-15f1ccea7d80 Co-authored-by: benjaminking <1214233+benjaminking@users.noreply.github.com> --- poetry.lock | 154 +++++++++++++++++------------- pyproject.toml | 4 +- silnlp/nmt/hugging_face_config.py | 3 + 3 files changed, 95 insertions(+), 66 deletions(-) diff --git a/poetry.lock b/poetry.lock index 7889d156..c78fd609 100644 --- a/poetry.lock +++ b/poetry.lock @@ -3011,46 +3011,50 @@ files = [ [[package]] name = "nvidia-cublas-cu12" -version = "12.1.3.1" +version = "12.4.5.8" description = "CUBLAS native runtime libraries" optional = false python-versions = ">=3" files = [ - {file = "nvidia_cublas_cu12-12.1.3.1-py3-none-manylinux1_x86_64.whl", hash = "sha256:ee53ccca76a6fc08fb9701aa95b6ceb242cdaab118c3bb152af4e579af792728"}, - {file = "nvidia_cublas_cu12-12.1.3.1-py3-none-win_amd64.whl", hash = "sha256:2b964d60e8cf11b5e1073d179d85fa340c120e99b3067558f3cf98dd69d02906"}, + {file = "nvidia_cublas_cu12-12.4.5.8-py3-none-manylinux2014_aarch64.whl", hash = "sha256:0f8aa1706812e00b9f19dfe0cdb3999b092ccb8ca168c0db5b8ea712456fd9b3"}, + {file = "nvidia_cublas_cu12-12.4.5.8-py3-none-manylinux2014_x86_64.whl", hash = "sha256:2fc8da60df463fdefa81e323eef2e36489e1c94335b5358bcb38360adf75ac9b"}, + {file = "nvidia_cublas_cu12-12.4.5.8-py3-none-win_amd64.whl", hash = "sha256:5a796786da89203a0657eda402bcdcec6180254a8ac22d72213abc42069522dc"}, ] [[package]] name = "nvidia-cuda-cupti-cu12" -version = "12.1.105" +version = "12.4.127" description = "CUDA profiling tools runtime libs." optional = false python-versions = ">=3" files = [ - {file = "nvidia_cuda_cupti_cu12-12.1.105-py3-none-manylinux1_x86_64.whl", hash = "sha256:e54fde3983165c624cb79254ae9818a456eb6e87a7fd4d56a2352c24ee542d7e"}, - {file = "nvidia_cuda_cupti_cu12-12.1.105-py3-none-win_amd64.whl", hash = "sha256:bea8236d13a0ac7190bd2919c3e8e6ce1e402104276e6f9694479e48bb0eb2a4"}, + {file = "nvidia_cuda_cupti_cu12-12.4.127-py3-none-manylinux2014_aarch64.whl", hash = "sha256:79279b35cf6f91da114182a5ce1864997fd52294a87a16179ce275773799458a"}, + {file = "nvidia_cuda_cupti_cu12-12.4.127-py3-none-manylinux2014_x86_64.whl", hash = "sha256:9dec60f5ac126f7bb551c055072b69d85392b13311fcc1bcda2202d172df30fb"}, + {file = "nvidia_cuda_cupti_cu12-12.4.127-py3-none-win_amd64.whl", hash = "sha256:5688d203301ab051449a2b1cb6690fbe90d2b372f411521c86018b950f3d7922"}, ] [[package]] name = "nvidia-cuda-nvrtc-cu12" -version = "12.1.105" +version = "12.4.127" description = "NVRTC native runtime libraries" optional = false python-versions = ">=3" files = [ - {file = "nvidia_cuda_nvrtc_cu12-12.1.105-py3-none-manylinux1_x86_64.whl", hash = "sha256:339b385f50c309763ca65456ec75e17bbefcbbf2893f462cb8b90584cd27a1c2"}, - {file = "nvidia_cuda_nvrtc_cu12-12.1.105-py3-none-win_amd64.whl", hash = "sha256:0a98a522d9ff138b96c010a65e145dc1b4850e9ecb75a0172371793752fd46ed"}, + {file = "nvidia_cuda_nvrtc_cu12-12.4.127-py3-none-manylinux2014_aarch64.whl", hash = "sha256:0eedf14185e04b76aa05b1fea04133e59f465b6f960c0cbf4e37c3cb6b0ea198"}, + {file = "nvidia_cuda_nvrtc_cu12-12.4.127-py3-none-manylinux2014_x86_64.whl", hash = "sha256:a178759ebb095827bd30ef56598ec182b85547f1508941a3d560eb7ea1fbf338"}, + {file = "nvidia_cuda_nvrtc_cu12-12.4.127-py3-none-win_amd64.whl", hash = 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hash = "sha256:8009a1fb093ee8546495e96731336a33fb8856a38e45bb4ab6affd6dbc3ba220"}, + {file = "triton-3.2.0-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:8d9b215efc1c26fa7eefb9a157915c92d52e000d2bf83e5f69704047e63f125c"}, + {file = "triton-3.2.0-cp313-cp313-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:e5dfa23ba84541d7c0a531dfce76d8bcd19159d50a4a8b14ad01e91734a5c1b0"}, + {file = "triton-3.2.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:30ceed0eff2c4a73b14eb63e052992f44bbdf175f3fad21e1ac8097a772de7ee"}, ] [package.dependencies] @@ -6237,4 +6263,4 @@ eflomal = ["eflomal"] [metadata] lock-version = "2.0" python-versions = ">=3.10,<3.11" -content-hash = "39ba5f86d9430400ec7f3145ee86a6f451afe7adb68cf0d4cdf5a86152aed782" +content-hash = "9e3b0a1cf3e7638493279a36cdec76b0687a41a161eca4446195e079f2dc8c66" diff --git a/pyproject.toml b/pyproject.toml index 2cfe04b8..9f261bb4 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -72,7 +72,7 @@ ctranslate2 = "^3.5.1" libclang = "14.0.6" sil-machine = {extras = ["thot"], version = "1.8.7"} datasets = "^2.7.1" -torch = {version = "^2.5", source = "torch"} +torch = {version = "^2.6", source = "torch"} sacremoses = "^0.0.53" evaluate = "^0.3.0" python-docx = "^0.8.11" @@ -120,6 +120,6 @@ eflomal = ["eflomal"] [[tool.poetry.source]] name = "torch" -url = "https://download.pytorch.org/whl/cu121" +url = "https://download.pytorch.org/whl/cu124" priority = "explicit" diff --git a/silnlp/nmt/hugging_face_config.py b/silnlp/nmt/hugging_face_config.py index f890fbe1..f3186d77 100644 --- a/silnlp/nmt/hugging_face_config.py +++ b/silnlp/nmt/hugging_face_config.py @@ -335,6 +335,9 @@ def __init__(self, exp_dir: Path, config: dict) -> None: "max_source_length": 200, "max_target_length": 200, "gradient_checkpointing": True, + # use_reentrant=False is the recommended modern approach and + # avoids a FutureWarning from torch.utils.checkpoint in older + # PyTorch versions. "gradient_checkpointing_kwargs": {"use_reentrant": False}, "save_steps": 1000, "per_device_train_batch_size": 16, From c4bf59ff6c47a1d94beab0f950eb51d0990a875f Mon Sep 17 00:00:00 2001 From: Ben King Date: Mon, 27 Apr 2026 14:22:44 +0000 Subject: [PATCH 6/6] Create proper poetry.lock --- poetry.lock | 17 ++++++++--------- 1 file changed, 8 insertions(+), 9 deletions(-) diff --git a/poetry.lock b/poetry.lock index c78fd609..92d9b511 100644 --- a/poetry.lock +++ b/poetry.lock @@ -3083,6 +3083,9 @@ files = [ {file = "nvidia_cufft_cu12-11.2.1.3-py3-none-win_amd64.whl", hash = "sha256:d802f4954291101186078ccbe22fc285a902136f974d369540fd4a5333d1440b"}, ] +[package.dependencies] +nvidia-nvjitlink-cu12 = "*" + [[package]] name = "nvidia-curand-cu12" version = "10.3.5.147" @@ -3130,9 +3133,9 @@ nvidia-nvjitlink-cu12 = "*" [[package]] name = "nvidia-cusparselt-cu12" version = "0.6.2" -description = "CUDA SparseLT native runtime libraries" +description = "NVIDIA cuSPARSELt" optional = false -python-versions = ">=3" +python-versions = "*" files = [ {file = "nvidia_cusparselt_cu12-0.6.2-py3-none-manylinux2014_aarch64.whl", hash = "sha256:067a7f6d03ea0d4841c85f0c6f1991c5dda98211f6302cb83a4ab234ee95bef8"}, {file = "nvidia_cusparselt_cu12-0.6.2-py3-none-manylinux2014_x86_64.whl", hash = "sha256:df2c24502fd76ebafe7457dbc4716b2fec071aabaed4fb7691a201cde03704d9"}, @@ -5561,14 +5564,13 @@ nvidia-cusparselt-cu12 = {version = "0.6.2", markers = "platform_system == \"Lin nvidia-nccl-cu12 = {version = "2.21.5", markers = "platform_system == \"Linux\" and platform_machine == \"x86_64\""} nvidia-nvjitlink-cu12 = {version = "12.4.127", markers = "platform_system == \"Linux\" and platform_machine == \"x86_64\""} nvidia-nvtx-cu12 = {version = "12.4.127", markers = "platform_system == \"Linux\" and platform_machine == \"x86_64\""} -setuptools = {version = "*", markers = "python_version >= \"3.12\""} sympy = {version = "1.13.1", markers = "python_version >= \"3.9\""} triton = {version = "3.2.0", markers = "platform_system == \"Linux\" and platform_machine == \"x86_64\""} -typing-extensions = ">=4.8.0" +typing-extensions = ">=4.10.0" [package.extras] opt-einsum = ["opt-einsum (>=3.3)"] -optree = ["optree (>=0.11.0)"] +optree = ["optree (>=0.13.0)"] [package.source] type = "legacy" @@ -5713,9 +5715,6 @@ files = [ {file = "triton-3.2.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl", hash = "sha256:30ceed0eff2c4a73b14eb63e052992f44bbdf175f3fad21e1ac8097a772de7ee"}, ] -[package.dependencies] -filelock = "*" - [package.extras] build = ["cmake (>=3.20)", "lit"] tests = ["autopep8", "flake8", "isort", "llnl-hatchet", "numpy", "pytest", "scipy (>=1.7.1)"] @@ -6263,4 +6262,4 @@ eflomal = ["eflomal"] [metadata] lock-version = "2.0" python-versions = ">=3.10,<3.11" -content-hash = "9e3b0a1cf3e7638493279a36cdec76b0687a41a161eca4446195e079f2dc8c66" +content-hash = "c152e24b560d77dbdbc072a93350e070657040f35d12be2e6190e6d32f837a85"