Comments (7)
tbepler
commented on July 26, 2024
To help diagnose, we'll need some more detailed info. Does Topaz output any specific error or warning messages? Can you also share what package versions you have installed (e.g., the output of conda list if you are using conda) and what version of CUDA and CUDA drivers you have (e.g., the output of nvidia-smi)?
from topaz.
diffracteD
commented on July 26, 2024
No, I'm not getting any specific errors. I'm using a wrapper (as mentioned here:https://guide.cryosparc.com/processing-data/all-job-types-in-cryosparc/deep-picking/topaz ) to run topaz in cryosparc. All I get is Topaz is falling back to CPU warning and then it keep running using a single cpu.
Here's the output of conda list:
[user@gpu-02 ~]$ conda list
WARNING conda.gateways.disk.delete:unlink_or_rename_to_trash(143): Could not remove or rename /usr/local/anaconda3/conda-meta/typing_extensions-3.10.0.2-pyh06a4308_0.json. Please remove this file manually (you may need to reboot to free file handles)
WARNING conda.gateways.disk.delete:unlink_or_rename_to_trash(143): Could not remove or rename /usr/local/anaconda3/conda-meta/python-dateutil-2.8.2-pyhd3eb1b0_0.json. Please remove this file manually (you may need to reboot to free file handles)
WARNING conda.gateways.disk.delete:unlink_or_rename_to_trash(143): Could not remove or rename /usr/local/anaconda3/conda-meta/pytz-2021.3-pyhd3eb1b0_0.json. Please remove this file manually (you may need to reboot to free file handles)
WARNING conda.gateways.disk.delete:unlink_or_rename_to_trash(143): Could not remove or rename /usr/local/anaconda3/conda-meta/pillow-8.4.0-py39h5aabda8_0.json. Please remove this file manually (you may need to reboot to free file handles)
WARNING conda.gateways.disk.delete:unlink_or_rename_to_trash(143): Could not remove or rename /usr/local/anaconda3/conda-meta/nltk-3.6.5-pyhd3eb1b0_0.json. Please remove this file manually (you may need to reboot to free file handles)
# packages in environment at /usr/local/anaconda3:
#
# Name Version Build Channel
_ipyw_jlab_nb_ext_conf 0.1.0 py39h06a4308_0
_libgcc_mutex 0.1 main
_openmp_mutex 4.5 1_gnu
_sysroot_linux-64_curr_repodata_hack 3 haa98f57_10
alabaster 0.7.12 pyhd3eb1b0_0
anaconda 2021.11 py39_0
anaconda-client 1.9.0 py39h06a4308_0
anaconda-navigator 2.1.1 py39_0
anaconda-project 0.10.1 pyhd3eb1b0_0
anyio 2.2.0 py39h06a4308_1
appdirs 1.4.4 pyhd3eb1b0_0
argh 0.26.2 py39h06a4308_0
argon2-cffi 20.1.0 py39h27cfd23_1
arrow 0.13.1 py39h06a4308_0
asgiref 3.5.0 pypi_0 pypi
asn1crypto 1.4.0 py_0
astroid 2.6.6 py39h06a4308_0
astropy 4.3.1 py39h09021b7_0
async_generator 1.10 pyhd3eb1b0_0
atomicwrites 1.4.0 py_0
attr 0.3.1 pypi_0 pypi
attrs 21.2.0 pyhd3eb1b0_0
autopep8 1.5.7 pyhd3eb1b0_0
azure-core 1.23.0 pypi_0 pypi
azure-storage-blob 12.9.0 pypi_0 pypi
babel 2.9.1 pyhd3eb1b0_0
backcall 0.2.0 pyhd3eb1b0_0
backports 1.0 pyhd3eb1b0_2
backports.functools_lru_cache 1.6.4 pyhd3eb1b0_0
backports.shutil_get_terminal_size 1.0.0 pyhd3eb1b0_3
backports.tempfile 1.0 pyhd3eb1b0_1
backports.weakref 1.0.post1 py_1
beautifulsoup4 4.10.0 pyh06a4308_0
binaryornot 0.4.4 pyhd3eb1b0_1
binutils_impl_linux-64 2.35.1 h27ae35d_9
binutils_linux-64 2.35.1 h454624a_30
bitarray 2.3.0 py39h7f8727e_1
bkcharts 0.2 py39h06a4308_0
black 19.10b0 py_0
blas 1.0 mkl
bleach 4.0.0 pyhd3eb1b0_0
blosc 1.21.0 h8c45485_0
bokeh 2.4.1 py39h06a4308_0
boto 2.49.0 py39h06a4308_0
boto3 1.16.63 pypi_0 pypi
botocore 1.19.63 pypi_0 pypi
bottleneck 1.3.2 py39hdd57654_1
boxing 0.1.4 pypi_0 pypi
brotli 1.0.9 he6710b0_2
brotlipy 0.7.0 py39h27cfd23_1003
brunsli 0.1 h2531618_0
bzip2 1.0.8 h7b6447c_0
c-ares 1.17.1 h27cfd23_0
ca-certificates 2021.10.26 h06a4308_2
cached-property 1.5.2 py_0
cachetools 4.2.4 pypi_0 pypi
cairo 1.16.0 hf32fb01_1
certifi 2021.10.8 py39h06a4308_0
cffi 1.14.6 py39h400218f_0
cfitsio 3.470 hf0d0db6_6
chardet 4.0.0 py39h06a4308_1003
charls 2.2.0 h2531618_0
charset-normalizer 2.0.4 pyhd3eb1b0_0
click 8.0.3 pyhd3eb1b0_0
cloudpickle 2.0.0 pyhd3eb1b0_0
clyent 1.2.2 py39h06a4308_1
colorama 0.4.4 pyhd3eb1b0_0
conda 4.11.0 py39h06a4308_0
conda-build 3.21.5 py39h06a4308_0
conda-content-trust 0.1.1 pyhd3eb1b0_0
conda-env 2.6.0 1
conda-pack 0.6.0 pyhd3eb1b0_0
conda-package-handling 1.7.3 py39h27cfd23_1
conda-repo-cli 1.0.4 pyhd3eb1b0_0
conda-token 0.3.0 pyhd3eb1b0_0
conda-verify 3.4.2 py_1
contextlib2 0.6.0.post1 pyhd3eb1b0_0
cookiecutter 1.7.2 pyhd3eb1b0_0
coreapi 2.3.3 pypi_0 pypi
coreschema 0.0.4 pypi_0 pypi
cryptography 3.4.8 py39hd23ed53_0
curl 7.78.0 h1ccaba5_0
cycler 0.10.0 py39h06a4308_0
cython 0.29.24 py39hdbfa776_0
cytoolz 0.11.0 py39h27cfd23_0
daal4py 2021.3.0 py39hae6d005_0
dal 2021.3.0 h06a4308_557
dask 2021.10.0 pyhd3eb1b0_0
dask-core 2021.10.0 pyhd3eb1b0_0
dataclasses 0.8 pyh6d0b6a4_7
dbus 1.13.18 hb2f20db_0
debugpy 1.4.1 py39h295c915_0
decorator 5.1.0 pyhd3eb1b0_0
defusedxml 0.7.1 pyhd3eb1b0_0
deprecated 1.2.13 pypi_0 pypi
diff-match-patch 20200713 pyhd3eb1b0_0
distributed 2021.10.0 py39h06a4308_0
django 3.1.14 pypi_0 pypi
django-annoying 0.10.6 pypi_0 pypi
django-cors-headers 3.6.0 pypi_0 pypi
django-debug-toolbar 3.2.1 pypi_0 pypi
django-extensions 3.1.0 pypi_0 pypi
django-filter 2.4.0 pypi_0 pypi
django-model-utils 4.1.1 pypi_0 pypi
django-ranged-fileresponse 0.1.2 pypi_0 pypi
django-rest-swagger 2.2.0 pypi_0 pypi
django-rq 2.4.1 pypi_0 pypi
django-user-agents 0.4.0 pypi_0 pypi
djangorestframework 3.13.1 pypi_0 pypi
docutils 0.17.1 py39h06a4308_1
drf-dynamic-fields 0.3.0 pypi_0 pypi
drf-flex-fields 0.9.5 pypi_0 pypi
drf-generators 0.3.0 pypi_0 pypi
drf-yasg 1.20.0 pypi_0 pypi
entrypoints 0.3 py39h06a4308_0
et_xmlfile 1.1.0 py39h06a4308_0
expat 2.4.1 h2531618_2
expiringdict 1.1.4 pypi_0 pypi
fastcache 1.1.0 py39he8ac12f_0
filelock 3.3.1 pyhd3eb1b0_1
flake8 3.9.2 pyhd3eb1b0_0
flask 1.1.2 pyhd3eb1b0_0
fontconfig 2.13.1 h6c09931_0
fonttools 4.25.0 pyhd3eb1b0_0
freetype 2.10.4 h5ab3b9f_0
fribidi 1.0.10 h7b6447c_0
fsspec 2021.8.1 pyhd3eb1b0_0
future 0.18.2 py39h06a4308_1
gcc_impl_linux-64 9.3.0 h6df7d76_17
gcc_linux-64 9.3.0 h1ee779e_30
get_terminal_size 1.0.0 haa9412d_0
gevent 21.8.0 py39h7f8727e_1
giflib 5.2.1 h7b6447c_0
glib 2.69.1 h5202010_0
glob2 0.7 pyhd3eb1b0_0
gmp 6.2.1 h2531618_2
gmpy2 2.0.8 py39h8083e48_3
google-api-core 1.31.5 pypi_0 pypi
google-auth 1.35.0 pypi_0 pypi
google-cloud-appengine-logging 1.1.0 pypi_0 pypi
google-cloud-audit-log 0.2.0 pypi_0 pypi
google-cloud-core 1.5.0 pypi_0 pypi
google-cloud-logging 2.7.0 pypi_0 pypi
google-cloud-storage 1.29.0 pypi_0 pypi
google-resumable-media 0.5.1 pypi_0 pypi
googleapis-common-protos 1.52.0 pypi_0 pypi
graphite2 1.3.14 h23475e2_0
greenlet 1.1.1 py39h295c915_0
grpc-google-iam-v1 0.12.3 pypi_0 pypi
grpcio 1.44.0 pypi_0 pypi
gst-plugins-base 1.14.0 h8213a91_2
gstreamer 1.14.0 h28cd5cc_2
gxx_impl_linux-64 9.3.0 hbdd7822_17
gxx_linux-64 9.3.0 h7e70986_30
h5py 3.3.0 py39h930cdd6_0
harfbuzz 2.8.1 h6f93f22_0
hdf5 1.10.6 hb1b8bf9_0
heapdict 1.0.1 pyhd3eb1b0_0
html5lib 1.1 pyhd3eb1b0_0
htmlmin 0.1.12 pypi_0 pypi
icu 58.2 he6710b0_3
idna 3.2 pyhd3eb1b0_0
imagecodecs 2021.8.26 py39h4cda21f_0
imageio 2.9.0 pyhd3eb1b0_0
imagesize 1.2.0 pyhd3eb1b0_0
importlib-metadata 4.8.1 py39h06a4308_0
importlib_metadata 4.8.1 hd3eb1b0_0
inflection 0.5.1 py39h06a4308_0
iniconfig 1.1.1 pyhd3eb1b0_0
intel-openmp 2021.4.0 h06a4308_3561
intervaltree 3.1.0 pyhd3eb1b0_0
ipykernel 6.4.1 py39h06a4308_1
ipython 7.29.0 py39hb070fc8_0
ipython_genutils 0.2.0 pyhd3eb1b0_1
ipywidgets 7.6.5 pyhd3eb1b0_1
isodate 0.6.1 pypi_0 pypi
isort 5.9.3 pyhd3eb1b0_0
itsdangerous 2.0.1 pyhd3eb1b0_0
itypes 1.2.0 pypi_0 pypi
jbig 2.1 hdba287a_0
jdcal 1.4.1 pyhd3eb1b0_0
jedi 0.18.0 py39h06a4308_1
jeepney 0.7.1 pyhd3eb1b0_0
jinja2 2.11.3 pyhd3eb1b0_0
jinja2-time 0.2.0 pyhd3eb1b0_2
jmespath 0.10.0 pypi_0 pypi
joblib 1.1.0 pyhd3eb1b0_0
jpeg 9d h7f8727e_0
json5 0.9.6 pyhd3eb1b0_0
jsonschema 3.2.0 pyhd3eb1b0_2
jupyter 1.0.0 py39h06a4308_7
jupyter_client 6.1.12 pyhd3eb1b0_0
jupyter_console 6.4.0 pyhd3eb1b0_0
jupyter_core 4.8.1 py39h06a4308_0
jupyter_server 1.4.1 py39h06a4308_0
jupyterlab 3.2.1 pyhd3eb1b0_1
jupyterlab_pygments 0.1.2 py_0
jupyterlab_server 2.8.2 pyhd3eb1b0_0
jupyterlab_widgets 1.0.0 pyhd3eb1b0_1
jxrlib 1.1 h7b6447c_2
kernel-headers_linux-64 3.10.0 h57e8cba_10
keyring 23.1.0 py39h06a4308_0
kiwisolver 1.3.1 py39h2531618_0
krb5 1.19.2 hac12032_0
label-studio 1.4.1.post1 pypi_0 pypi
label-studio-converter 0.0.39 pypi_0 pypi
label-studio-tools 0.0.0.dev11 pypi_0 pypi
launchdarkly-server-sdk 7.3.0 pypi_0 pypi
lazy-object-proxy 1.6.0 py39h27cfd23_0
lcms2 2.12 h3be6417_0
ld_impl_linux-64 2.35.1 h7274673_9
lerc 3.0 h295c915_0
libaec 1.0.4 he6710b0_1
libarchive 3.4.2 h62408e4_0
libcurl 7.78.0 h0b77cf5_0
libdeflate 1.8 h7f8727e_5
libedit 3.1.20210910 h7f8727e_0
libev 4.33 h7f8727e_1
libffi 3.3 he6710b0_2
libgcc-devel_linux-64 9.3.0 hb95220a_17
libgcc-ng 9.3.0 h5101ec6_17
libgfortran-ng 7.5.0 ha8ba4b0_17
libgfortran4 7.5.0 ha8ba4b0_17
libgomp 9.3.0 h5101ec6_17
liblief 0.10.1 h2531618_1
libllvm11 11.1.0 h3826bc1_0
libnghttp2 1.41.0 hf8bcb03_2
libpng 1.6.37 hbc83047_0
libsodium 1.0.18 h7b6447c_0
libspatialindex 1.9.3 h2531618_0
libssh2 1.9.0 h1ba5d50_1
libstdcxx-devel_linux-64 9.3.0 hf0c5c8d_17
libstdcxx-ng 9.3.0 hd4cf53a_17
libtiff 4.2.0 h85742a9_0
libtool 2.4.6 h7b6447c_1005
libuuid 1.0.3 h7f8727e_2
libuv 1.40.0 h7b6447c_0
libwebp 1.2.0 h89dd481_0
libwebp-base 1.2.0 h27cfd23_0
libxcb 1.14 h7b6447c_0
libxml2 2.9.12 h03d6c58_0
libxslt 1.1.34 hc22bd24_0
libzopfli 1.0.3 he6710b0_0
llvmlite 0.37.0 py39h295c915_1
locket 0.2.1 py39h06a4308_1
lockfile 0.12.2 pypi_0 pypi
lxml 4.6.3 py39h9120a33_0
lz4-c 1.9.3 h295c915_1
lzo 2.10 h7b6447c_2
markupsafe 1.1.1 py39h27cfd23_0
matplotlib 3.4.3 py39h06a4308_0
matplotlib-base 3.4.3 py39hbbc1b5f_0
matplotlib-inline 0.1.2 pyhd3eb1b0_2
mccabe 0.6.1 py39h06a4308_1
mistune 0.8.4 py39h27cfd23_1000
mkl 2021.4.0 h06a4308_640
mkl-service 2.4.0 py39h7f8727e_0
mkl_fft 1.3.1 py39hd3c417c_0
mkl_random 1.2.2 py39h51133e4_0
mock 4.0.3 pyhd3eb1b0_0
more-itertools 8.10.0 pyhd3eb1b0_0
mpc 1.1.0 h10f8cd9_1
mpfr 4.0.2 hb69a4c5_1
mpi 1.0 mpich
mpich 3.3.2 hc856adb_0
mpmath 1.2.1 py39h06a4308_0
msgpack-python 1.0.2 py39hff7bd54_1
msrest 0.6.21 pypi_0 pypi
multipledispatch 0.6.0 py39h06a4308_0
munkres 1.1.4 py_0
mypy_extensions 0.4.3 py39h06a4308_0
navigator-updater 0.2.1 py39h06a4308_0
nbclassic 0.2.6 pyhd3eb1b0_0
nbclient 0.5.3 pyhd3eb1b0_0
nbconvert 6.1.0 py39h06a4308_0
nbformat 5.1.3 pyhd3eb1b0_0
ncurses 6.3 heee7806_1
nest-asyncio 1.5.1 pyhd3eb1b0_0
networkx 2.6.3 pyhd3eb1b0_0
nltk 3.6.7 pypi_0 pypi
nose 1.3.7 pyhd3eb1b0_1006
notebook 6.4.5 py39h06a4308_0
numba 0.54.1 py39h51133e4_0
numexpr 2.7.3 py39h22e1b3c_1
numpy 1.20.3 py39hf144106_0
numpy-base 1.20.3 py39h74d4b33_0
numpydoc 1.1.0 pyhd3eb1b0_1
oauthlib 3.2.0 pypi_0 pypi
olefile 0.46 pyhd3eb1b0_0
openapi-codec 1.3.2 pypi_0 pypi
openjpeg 2.4.0 h3ad879b_0
openpyxl 3.0.9 pyhd3eb1b0_0
openssl 1.1.1l h7f8727e_0
ordered-set 4.0.2 pypi_0 pypi
packaging 21.0 pyhd3eb1b0_0
pandas 1.3.4 py39h8c16a72_0
pandocfilters 1.4.3 py39h06a4308_1
pango 1.45.3 hd140c19_0
parso 0.8.2 pyhd3eb1b0_0
partd 1.2.0 pyhd3eb1b0_0
patchelf 0.13 h295c915_0
path 16.0.0 py39h06a4308_0
path.py 12.5.0 hd3eb1b0_0
pathlib2 2.3.6 py39h06a4308_2
pathspec 0.7.0 py_0
patsy 0.5.2 py39h06a4308_0
pcre 8.45 h295c915_0
pep8 1.7.1 py39h06a4308_0
pexpect 4.8.0 pyhd3eb1b0_3
pickleshare 0.7.5 pyhd3eb1b0_1003
pillow 9.0.0 pypi_0 pypi
pip 21.2.4 py39h06a4308_0
pixman 0.40.0 h7f8727e_1
pkginfo 1.7.1 py39h06a4308_0
pluggy 0.13.1 py39h06a4308_0
ply 3.11 py39h06a4308_0
poyo 0.5.0 pyhd3eb1b0_0
prometheus_client 0.11.0 pyhd3eb1b0_0
prompt-toolkit 3.0.20 pyhd3eb1b0_0
prompt_toolkit 3.0.20 hd3eb1b0_0
proto-plus 1.20.3 pypi_0 pypi
protobuf 3.19.4 pypi_0 pypi
psutil 5.8.0 py39h27cfd23_1
psycopg2-binary 2.9.1 pypi_0 pypi
ptyprocess 0.7.0 pyhd3eb1b0_2
py 1.10.0 pyhd3eb1b0_0
py-lief 0.10.1 py39h2531618_1
pyasn1 0.4.8 pypi_0 pypi
pyasn1-modules 0.2.8 pypi_0 pypi
pycodestyle 2.7.0 pyhd3eb1b0_0
pycosat 0.6.3 py39h27cfd23_0
pycparser 2.20 py_2
pycurl 7.44.1 py39h8f2d780_1
pydantic 1.8.2 pypi_0 pypi
pydocstyle 6.1.1 pyhd3eb1b0_0
pyerfa 2.0.0 py39h27cfd23_0
pyflakes 2.3.1 pyhd3eb1b0_0
pygments 2.10.0 pyhd3eb1b0_0
pyjwt 2.1.0 py39h06a4308_0
pylint 2.9.6 py39h06a4308_1
pyls-spyder 0.4.0 pyhd3eb1b0_0
pyodbc 4.0.31 py39h295c915_0
pyopenssl 21.0.0 pyhd3eb1b0_1
pyparsing 3.0.4 pyhd3eb1b0_0
pyqt 5.9.2 py39h2531618_6
pyrfc3339 1.1 pypi_0 pypi
pyrsistent 0.18.0 py39heee7806_0
pysocks 1.7.1 py39h06a4308_0
pytables 3.6.1 py39h77479fe_1
pytest 6.2.4 py39h06a4308_2
python 3.9.7 h12debd9_1
python-dateutil 2.8.1 pypi_0 pypi
python-libarchive-c 2.9 pyhd3eb1b0_1
python-lsp-black 1.0.0 pyhd3eb1b0_0
python-lsp-jsonrpc 1.0.0 pyhd3eb1b0_0
python-lsp-server 1.2.4 pyhd3eb1b0_0
python-slugify 5.0.2 pyhd3eb1b0_0
pytz 2019.3 pypi_0 pypi
pywavelets 1.1.1 py39h6323ea4_4
pyxdg 0.27 pyhd3eb1b0_0
pyyaml 6.0 py39h7f8727e_1
pyzmq 22.2.1 py39h295c915_1
qdarkstyle 3.0.2 pyhd3eb1b0_0
qstylizer 0.1.10 pyhd3eb1b0_0
qt 5.9.7 h5867ecd_1
qtawesome 1.0.2 pyhd3eb1b0_0
qtconsole 5.1.1 pyhd3eb1b0_0
qtpy 1.10.0 pyhd3eb1b0_0
readline 8.1 h27cfd23_0
redis 4.1.4 pypi_0 pypi
regex 2021.8.3 py39h7f8727e_0
requests 2.26.0 pyhd3eb1b0_0
requests-oauthlib 1.3.1 pypi_0 pypi
ripgrep 12.1.1 0
rope 0.19.0 pyhd3eb1b0_0
rq 1.10.0 pypi_0 pypi
rsa 4.8 pypi_0 pypi
rtree 0.9.7 py39h06a4308_1
ruamel-yaml 0.17.21 pypi_0 pypi
ruamel-yaml-clib 0.2.6 pypi_0 pypi
ruamel_yaml 0.15.100 py39h27cfd23_0
rules 2.2 pypi_0 pypi
s3transfer 0.3.7 pypi_0 pypi
scikit-image 0.18.3 py39h51133e4_0
scikit-learn 0.24.2 py39ha9443f7_0
scikit-learn-intelex 2021.3.0 py39h06a4308_0
scipy 1.7.1 py39h292c36d_2
seaborn 0.11.2 pyhd3eb1b0_0
secretstorage 3.3.1 py39h06a4308_0
semver 2.13.0 pypi_0 pypi
send2trash 1.8.0 pyhd3eb1b0_1
sentry-sdk 1.5.6 pypi_0 pypi
setuptools 58.0.4 py39h06a4308_0
simplegeneric 0.8.1 py39h06a4308_2
simplejson 3.17.6 pypi_0 pypi
singledispatch 3.7.0 pyhd3eb1b0_1001
sip 4.19.13 py39h2531618_0
six 1.16.0 pyhd3eb1b0_0
snappy 1.1.8 he6710b0_0
sniffio 1.2.0 py39h06a4308_1
snowballstemmer 2.1.0 pyhd3eb1b0_0
sortedcollections 2.1.0 pyhd3eb1b0_0
sortedcontainers 2.4.0 pyhd3eb1b0_0
soupsieve 2.2.1 pyhd3eb1b0_0
sphinx 4.2.0 pyhd3eb1b0_1
sphinxcontrib 1.0 py39h06a4308_1
sphinxcontrib-applehelp 1.0.2 pyhd3eb1b0_0
sphinxcontrib-devhelp 1.0.2 pyhd3eb1b0_0
sphinxcontrib-htmlhelp 2.0.0 pyhd3eb1b0_0
sphinxcontrib-jsmath 1.0.1 pyhd3eb1b0_0
sphinxcontrib-qthelp 1.0.3 pyhd3eb1b0_0
sphinxcontrib-serializinghtml 1.1.5 pyhd3eb1b0_0
sphinxcontrib-websupport 1.2.4 py_0
spyder 5.1.5 py39h06a4308_1
spyder-kernels 2.1.3 py39h06a4308_0
sqlalchemy 1.4.22 py39h7f8727e_0
sqlite 3.36.0 hc218d9a_0
sqlparse 0.4.2 pypi_0 pypi
statsmodels 0.12.2 py39h27cfd23_0
sympy 1.9 py39h06a4308_0
sysroot_linux-64 2.17 h57e8cba_10
tbb 2021.4.0 hd09550d_0
tbb4py 2021.4.0 py39hd09550d_0
tblib 1.7.0 pyhd3eb1b0_0
terminado 0.9.4 py39h06a4308_0
testpath 0.5.0 pyhd3eb1b0_0
text-unidecode 1.3 pyhd3eb1b0_0
textdistance 4.2.1 pyhd3eb1b0_0
threadpoolctl 2.2.0 pyh0d69192_0
three-merge 0.1.1 pyhd3eb1b0_0
tifffile 2021.7.2 pyhd3eb1b0_2
tinycss 0.4 pyhd3eb1b0_1002
tk 8.6.11 h1ccaba5_0
toml 0.10.2 pyhd3eb1b0_0
toolz 0.11.1 pyhd3eb1b0_0
tornado 6.1 py39h27cfd23_0
tqdm 4.62.3 pyhd3eb1b0_1
traitlets 5.1.0 pyhd3eb1b0_0
typed-ast 1.4.3 py39h7f8727e_1
typing-extensions 4.1.1 pypi_0 pypi
tzdata 2021e hda174b7_0
ua-parser 0.10.0 pypi_0 pypi
ujson 4.0.2 py39h2531618_0
unicodecsv 0.14.1 py39h06a4308_0
unidecode 1.2.0 pyhd3eb1b0_0
unixodbc 2.3.9 h7b6447c_0
uritemplate 4.1.1 pypi_0 pypi
urllib3 1.26.7 pyhd3eb1b0_0
user-agents 2.2.0 pypi_0 pypi
watchdog 2.1.3 py39h06a4308_0
wcwidth 0.2.5 pyhd3eb1b0_0
webencodings 0.5.1 py39h06a4308_1
werkzeug 2.0.2 pyhd3eb1b0_0
wheel 0.37.0 pyhd3eb1b0_1
whichcraft 0.6.1 pyhd3eb1b0_0
widgetsnbextension 3.5.1 py39h06a4308_0
wrapt 1.12.1 py39he8ac12f_1
wurlitzer 2.1.1 py39h06a4308_0
xlrd 2.0.1 pyhd3eb1b0_0
xlsxwriter 3.0.1 pyhd3eb1b0_0
xlwt 1.3.0 py39h06a4308_0
xmljson 0.2.0 pypi_0 pypi
xmltodict 0.12.0 pyhd3eb1b0_0
xz 5.2.5 h7b6447c_0
yaml 0.2.5 h7b6447c_0
yapf 0.31.0 pyhd3eb1b0_0
zeromq 4.3.4 h2531618_0
zfp 0.5.5 h2531618_6
zict 2.0.0 pyhd3eb1b0_0
zipp 3.6.0 pyhd3eb1b0_0
zlib 1.2.11 h7b6447c_3
zope 1.0 py39h06a4308_1
zope.event 4.5.0 py39h06a4308_0
zope.interface 5.4.0 py39h7f8727e_0
zstd 1.4.9 haebb681_0
I'm using cuda-11.6 as per nvidia-smi
[user@gpu-02 ~]$ nvidia-smi
Mon Apr 3 17:55:38 2023
+-----------------------------------------------------------------------------+
| NVIDIA-SMI 510.54 Driver Version: 510.54 CUDA Version: 11.6 |
|-------------------------------+----------------------+----------------------+
| 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 NVIDIA RTX A4000 Off | 00000000:01:00.0 Off | Off |
| 41% 32C P8 13W / 140W | 8MiB / 16376MiB | 0% Default |
| | | N/A |
+-------------------------------+----------------------+----------------------+
| 1 NVIDIA RTX A4000 Off | 00000000:25:00.0 Off | Off |
| 41% 53C P2 38W / 140W | 705MiB / 16376MiB | 0% Default |
| | | N/A |
Thanks!
from topaz.
tbepler
commented on July 26, 2024
This doesn't look like your topaz environment. I don't see topaz or pytorch on the list. Can you share your topaz conda environment packages?
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diffracteD
commented on July 26, 2024
My bad.
Here's what I get after topaz is sourced through conda.
(base) [user@gpu-02 ~]$ conda activate topaz
(topaz) [user@gpu-02 ~]$ conda list
# packages in environment at /home/abhisek/.conda/envs/topaz:
#
# Name Version Build Channel
_libgcc_mutex 0.1 main
_openmp_mutex 5.1 1_gnu
blas 1.0 mkl
ca-certificates 2022.4.26 h06a4308_0
certifi 2022.5.18.1 py39h06a4308_0
cffi 1.15.0 py39hd667e15_1
cudatoolkit 11.6.0 hecad31d_10 conda-forge
daal4py 2021.5.0 py39h78b71dc_0
dal 2021.5.1 h06a4308_803
freetype 2.10.4 h0708190_1 conda-forge
future 0.18.2 py39hf3d152e_5 conda-forge
intel-openmp 2021.4.0 h06a4308_3561
joblib 1.1.0 pyhd8ed1ab_0 conda-forge
jpeg 9e h166bdaf_1 conda-forge
lcms2 2.12 hddcbb42_0 conda-forge
ld_impl_linux-64 2.38 h1181459_1
libffi 3.3 he6710b0_2
libgcc-ng 11.2.0 h1234567_1
libgfortran-ng 7.5.0 h14aa051_20 conda-forge
libgfortran4 7.5.0 h14aa051_20 conda-forge
libgomp 11.2.0 h1234567_1
libpng 1.6.37 h21135ba_2 conda-forge
libstdcxx-ng 11.2.0 h1234567_1
libtiff 4.2.0 h85742a9_0
libwebp-base 1.2.2 h7f98852_1 conda-forge
lz4-c 1.9.3 h9c3ff4c_1 conda-forge
mkl 2021.4.0 h06a4308_640
mkl-service 2.4.0 py39h7e14d7c_0 conda-forge
mkl_fft 1.3.1 py39h0c7bc48_1 conda-forge
mkl_random 1.2.2 py39hde0f152_0 conda-forge
mpi 1.0 mpich
mpich 3.3.2 hc856adb_0
ncurses 6.3 h7f8727e_2
ninja 1.11.0 h924138e_0 conda-forge
numpy 1.22.3 py39he7a7128_0
numpy-base 1.22.3 py39hf524024_0
olefile 0.46 pyh9f0ad1d_1 conda-forge
openssl 1.1.1o h7f8727e_0
pandas 1.4.2 py39h1832856_1 conda-forge
pillow 7.2.0 py39h6f3857e_2 conda-forge
pip 21.2.4 py39h06a4308_0
pycparser 2.21 pyhd8ed1ab_0 conda-forge
python 3.9.12 h12debd9_1
python-dateutil 2.8.2 pyhd8ed1ab_0 conda-forge
python_abi 3.9 2_cp39 conda-forge
pytorch 1.10.2 cpu_py39hfa7516b_0
pytz 2022.1 pyhd8ed1ab_0 conda-forge
readline 8.1.2 h7f8727e_1
scikit-learn 1.0.2 py39h51133e4_1
scikit-learn-intelex 2021.5.0 py39h06a4308_0
scipy 1.7.3 py39hc147768_0
setuptools 61.2.0 py39h06a4308_0
six 1.16.0 pyh6c4a22f_0 conda-forge
sqlite 3.38.3 hc218d9a_0
tbb 2021.5.0 hd09550d_0
threadpoolctl 3.1.0 pyh8a188c0_0 conda-forge
tk 8.6.12 h1ccaba5_0
topaz 0.2.4 py_0 tbepler
torchvision 0.2.2 py_3 pytorch
typing-extensions 4.2.0 hd8ed1ab_1 conda-forge
typing_extensions 4.2.0 pyha770c72_1 conda-forge
tzdata 2022a hda174b7_0
wheel 0.37.1 pyhd3eb1b0_0
xz 5.2.5 h7f8727e_1
zlib 1.2.12 h7f8727e_2
zstd 1.4.9 ha95c52a_0 conda-forge
Thanks
from topaz.
tbepler
commented on July 26, 2024
It looks like the problem is that you have the CPU version of pytorch installed.
pytorch 1.10.2 cpu_py39hfa7516b_0
Take a look at the install instructions here for installing pytorch with CUDA support.
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diffracteD
commented on July 26, 2024
Hi, sorry I forgot to update the thread. This helped solve the issue. Thanks a lot !
from topaz.
tbepler
commented on July 26, 2024
Glad that resolved it!
from topaz.
Related Issues (20)
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- MRC library version incompatible HOT 5
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