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fix "GPU not found" on WSL Linux #599

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Jun 13, 2024
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fix "GPU not found" on WSL Linux #599

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d0ef00f
fix "GPU not found" on WSL Linux
t-kalinowski Jun 13, 2024
b1782c2
add NEWS
t-kalinowski Jun 13, 2024
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3 changes: 3 additions & 0 deletions NEWS.md
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Original file line number Diff line number Diff line change
@@ -1,5 +1,8 @@
# tensorflow (development version)

- Fixed an issue where GPUs would not be found when running on Windows
WSL Linux (reported in rstudio/keras3#1456, fixed in #599)

# tensorflow 2.16.0

- The package now Suggest 'keras3' instead of 'keras'
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128 changes: 91 additions & 37 deletions R/install.R
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Expand Up @@ -156,12 +156,31 @@ function(method = c("auto", "virtualenv", "conda"),
can_use_gpu <- FALSE
if (is.null(cuda)) {

has_nvidia_gpu <- function() {
lspci_listed <- tryCatch(
as.logical(length(system("lspci | grep -i nvidia", intern = TRUE))),
warning = function(w) FALSE, # warning emitted by system for non-0 exit status
error = function(e) FALSE
)
if (lspci_listed)
return(TRUE)

# lspci doens't list GPUs on WSL Linux, but nvidia-smi does.
nvidia_smi_listed <- tryCatch(
system("nvidia-smi -L", intern = TRUE),
warning = function(w) character(),
error = function(e) character()
)
if (isTRUE(any(grepl("^GPU [0-9]: ", nvidia_smi_listed))))
return(TRUE)
FALSE
}

can_use_gpu <-
is_linux() &&
(version %in% c("default", "release") ||
isTRUE(extract_numeric_version(version) >= "2.14")) &&
tryCatch(as.logical(length(system("lspci | grep -i nvidia", intern = TRUE))),
warning = function(w) FALSE) # warning emitted by system for non-0 exit stat
has_nvidia_gpu()

cuda <- can_use_gpu

Expand Down Expand Up @@ -268,7 +287,7 @@ function(method = c("auto", "virtualenv", "conda"),
}

if(cuda && is_linux()) {
configure_cudnn_symlinks(envname = envname)
configure_nvidia_symlinks(envname = envname)
configure_ptxas_symlink(envname = envname)
}

Expand Down Expand Up @@ -332,14 +351,14 @@ extract_numeric_version <- function(x, strict = FALSE) {
}


python_module_dir <- function(python, module) {
python_module_dir <- function(python, module, stderr = TRUE) {

force(python)
py_cmd <- sprintf("import %s; print(%1$s.__file__)", module)

module_file <- suppressWarnings(system2(
python, c("-c", shQuote(py_cmd)),
stdout = TRUE, stderr = TRUE))
stdout = TRUE, stderr = stderr))

if (!is.null(attr(module_file, "status")) ||
!is_string(module_file) ||
Expand All @@ -351,46 +370,81 @@ python_module_dir <- function(python, module) {
}


configure_cudnn_symlinks <- function(envname) {
configure_nvidia_symlinks <- function(envname) {
if(!is_linux()) return()
python <- reticulate::virtualenv_python(envname)

# For TF 2.13, this assumes that someone already has cudn 11-8 installed,
# e.g., on ubuntu:
# sudo apt install cuda-toolkit-11-8
# also, that `python -m pip install 'nvidia-cudnn-cu11==8.6.*'`

cudnn_path <- python_module_dir(python, "nvidia.cudnn")
if(is.null(cudnn_path)) return()
nvidia_path <- python_module_dir(python, "nvidia")
if(is.null(nvidia_path)) return()
# "~/.virtualenvs/r-tensorflow/lib/python3.9/site-packages/nvidia/cudnn"

cudnn_sos <- Sys.glob(paste0(cudnn_path, "/lib/*.so*"))
if(!length(cudnn_sos)) return()
# [1] "~/.virtualenvs/r-tensorflow/lib/python3.9/site-packages/nvidia/cudnn/lib/libcudnn_adv_infer.so.8"
# [2] "~/.virtualenvs/r-tensorflow/lib/python3.9/site-packages/nvidia/cudnn/lib/libcudnn_adv_train.so.8"
# [3] "~/.virtualenvs/r-tensorflow/lib/python3.9/site-packages/nvidia/cudnn/lib/libcudnn_cnn_infer.so.8"
# [4] "~/.virtualenvs/r-tensorflow/lib/python3.9/site-packages/nvidia/cudnn/lib/libcudnn_cnn_train.so.8"
# [5] "~/.virtualenvs/r-tensorflow/lib/python3.9/site-packages/nvidia/cudnn/lib/libcudnn_ops_infer.so.8"
# [6] "~/.virtualenvs/r-tensorflow/lib/python3.9/site-packages/nvidia/cudnn/lib/libcudnn_ops_train.so.8"
# [7] "~/.virtualenvs/r-tensorflow/lib/python3.9/site-packages/nvidia/cudnn/lib/libcudnn.so.8"

# "~/.virtualenvs/r-tensorflow/lib/python3.9/site-packages/tensorflow/__init__.py"
tf_lib_path <- system2(python, c("-c", shQuote("import tensorflow as tf; print(tf.__file__)")),
stderr = FALSE, stdout = TRUE)
tf_lib_path <- dirname(tf_lib_path)

from <- sub("^.*/site-packages/", "../", cudnn_sos)
to <- file.path(tf_lib_path, basename(cudnn_sos))
nvidia_sos <- Sys.glob(paste0(nvidia_path, "/*/lib/*.so*"))
if(!length(nvidia_sos)) return()
# [1] "~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/nvidia/cublas/lib/libcublas.so.12"
# [2] "~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/nvidia/cublas/lib/libcublasLt.so.12"
# [3] "~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/nvidia/cublas/lib/libnvblas.so.12"
# [4] "~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/nvidia/cuda_cupti/lib/libcheckpoint.so"
# [5] "~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/nvidia/cuda_cupti/lib/libcupti.so.12"
# [6] "~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/nvidia/cuda_cupti/lib/libnvperf_host.so"
# [7] "~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/nvidia/cuda_cupti/lib/libnvperf_target.so"
# [8] "~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/nvidia/cuda_cupti/lib/libpcsamplingutil.so"
# [9] "~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/nvidia/cuda_nvrtc/lib/libnvrtc-builtins.so.12.3"
# [10] "~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/nvidia/cuda_nvrtc/lib/libnvrtc.so.12"
# [11] "~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/nvidia/cuda_runtime/lib/libcudart.so.12"
# [12] "~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/nvidia/cudnn/lib/libcudnn.so.8"
# [13] "~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/nvidia/cudnn/lib/libcudnn_adv_infer.so.8"
# [14] "~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/nvidia/cudnn/lib/libcudnn_adv_train.so.8"
# [15] "~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/nvidia/cudnn/lib/libcudnn_cnn_infer.so.8"
# [16] "~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/nvidia/cudnn/lib/libcudnn_cnn_train.so.8"
# [17] "~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/nvidia/cudnn/lib/libcudnn_ops_infer.so.8"
# [18] "~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/nvidia/cudnn/lib/libcudnn_ops_train.so.8"
# [19] "~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/nvidia/cufft/lib/libcufft.so.11"
# [20] "~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/nvidia/cufft/lib/libcufftw.so.11"
# [21] "~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/nvidia/curand/lib/libcurand.so.10"
# [22] "~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/nvidia/cusolver/lib/libcusolver.so.11"
# [23] "~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/nvidia/cusolver/lib/libcusolverMg.so.11"
# [24] "~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/nvidia/cusparse/lib/libcusparse.so.12"
# [25] "~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/nvidia/nccl/lib/libnccl.so.2"
# [26] "~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/nvidia/nvjitlink/lib/libnvJitLink.so.12"
## we don't need *all* of these, but as of 2.16, in addition to cudnn, we need
## libcusparse.so.12 libnvJitLink.so.12 libcusolver.so.11 libcufft.so.11 libcublasLt.so.12 libcublas.so.12
## We symlink all of them to (try to be) future proof

# "~/.virtualenvs/r-tensorflow/lib/python3.9/site-packages/tensorflow"
tf_lib_path <- python_module_dir(python, "tensorflow", stderr = FALSE)

from <- sub("^.*/site-packages/", "../", nvidia_sos)
to <- file.path(tf_lib_path, basename(nvidia_sos))
writeLines("creating symlinks:")
writeLines(paste("-", shQuote(to), "->", shQuote(from)))
# creating symlinks:
# - '~/.virtualenvs/r-tensorflow/lib/python3.9/site-packages/tensorflow/libcudnn_adv_infer.so.8' -> '../nvidia/cudnn/lib/libcudnn_adv_infer.so.8'
# - '~/.virtualenvs/r-tensorflow/lib/python3.9/site-packages/tensorflow/libcudnn_adv_train.so.8' -> '../nvidia/cudnn/lib/libcudnn_adv_train.so.8'
# - '~/.virtualenvs/r-tensorflow/lib/python3.9/site-packages/tensorflow/libcudnn_cnn_infer.so.8' -> '../nvidia/cudnn/lib/libcudnn_cnn_infer.so.8'
# - '~/.virtualenvs/r-tensorflow/lib/python3.9/site-packages/tensorflow/libcudnn_cnn_train.so.8' -> '../nvidia/cudnn/lib/libcudnn_cnn_train.so.8'
# - '~/.virtualenvs/r-tensorflow/lib/python3.9/site-packages/tensorflow/libcudnn_ops_infer.so.8' -> '../nvidia/cudnn/lib/libcudnn_ops_infer.so.8'
# - '~/.virtualenvs/r-tensorflow/lib/python3.9/site-packages/tensorflow/libcudnn_ops_train.so.8' -> '../nvidia/cudnn/lib/libcudnn_ops_train.so.8'
# - '~/.virtualenvs/r-tensorflow/lib/python3.9/site-packages/tensorflow/libcudnn.so.8' -> '../nvidia/cudnn/lib/libcudnn.so.8'
# - '~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/tensorflow/libcublas.so.12' -> '../nvidia/cublas/lib/libcublas.so.12'
# - '~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/tensorflow/libcublasLt.so.12' -> '../nvidia/cublas/lib/libcublasLt.so.12'
# - '~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/tensorflow/libnvblas.so.12' -> '../nvidia/cublas/lib/libnvblas.so.12'
# - '~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/tensorflow/libcheckpoint.so' -> '../nvidia/cuda_cupti/lib/libcheckpoint.so'
# - '~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/tensorflow/libcupti.so.12' -> '../nvidia/cuda_cupti/lib/libcupti.so.12'
# - '~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/tensorflow/libnvperf_host.so' -> '../nvidia/cuda_cupti/lib/libnvperf_host.so'
# - '~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/tensorflow/libnvperf_target.so' -> '../nvidia/cuda_cupti/lib/libnvperf_target.so'
# - '~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/tensorflow/libpcsamplingutil.so' -> '../nvidia/cuda_cupti/lib/libpcsamplingutil.so'
# - '~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/tensorflow/libnvrtc-builtins.so.12.3' -> '../nvidia/cuda_nvrtc/lib/libnvrtc-builtins.so.12.3'
# - '~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/tensorflow/libnvrtc.so.12' -> '../nvidia/cuda_nvrtc/lib/libnvrtc.so.12'
# - '~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/tensorflow/libcudart.so.12' -> '../nvidia/cuda_runtime/lib/libcudart.so.12'
# - '~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/tensorflow/libcudnn.so.8' -> '../nvidia/cudnn/lib/libcudnn.so.8'
# - '~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/tensorflow/libcudnn_adv_infer.so.8' -> '../nvidia/cudnn/lib/libcudnn_adv_infer.so.8'
# - '~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/tensorflow/libcudnn_adv_train.so.8' -> '../nvidia/cudnn/lib/libcudnn_adv_train.so.8'
# - '~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/tensorflow/libcudnn_cnn_infer.so.8' -> '../nvidia/cudnn/lib/libcudnn_cnn_infer.so.8'
# - '~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/tensorflow/libcudnn_cnn_train.so.8' -> '../nvidia/cudnn/lib/libcudnn_cnn_train.so.8'
# - '~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/tensorflow/libcudnn_ops_infer.so.8' -> '../nvidia/cudnn/lib/libcudnn_ops_infer.so.8'
# - '~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/tensorflow/libcudnn_ops_train.so.8' -> '../nvidia/cudnn/lib/libcudnn_ops_train.so.8'
# - '~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/tensorflow/libcufft.so.11' -> '../nvidia/cufft/lib/libcufft.so.11'
# - '~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/tensorflow/libcufftw.so.11' -> '../nvidia/cufft/lib/libcufftw.so.11'
# - '~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/tensorflow/libcurand.so.10' -> '../nvidia/curand/lib/libcurand.so.10'
# - '~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/tensorflow/libcusolver.so.11' -> '../nvidia/cusolver/lib/libcusolver.so.11'
# - '~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/tensorflow/libcusolverMg.so.11' -> '../nvidia/cusolver/lib/libcusolverMg.so.11'
# - '~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/tensorflow/libcusparse.so.12' -> '../nvidia/cusparse/lib/libcusparse.so.12'
# - '~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/tensorflow/libnccl.so.2' -> '../nvidia/nccl/lib/libnccl.so.2'
# - '~/.virtualenvs/r-tensorflow/lib/python3.10/site-packages/tensorflow/libnvJitLink.so.12' -> '../nvidia/nvjitlink/lib/libnvJitLink.so.12'
# - '~/.virtualenvs/r-tensorflow/bin/ptxas' -> '../../lib/python3.10/site-packages/nvidia/cuda_nvcc/bin/ptxas'
file.symlink(from = from, to = to)

}
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