Open alex-treebeard opened 2 years ago
I had the same problem after rebuilding my docker image. Papermill in my old image worked but in the new one it refused to work, I had the same outputs, the first cell never completed.
I spend 3 days searching for the cause I found out that it is a dependency problem and with trial and error I found the culprit: nbclient
. It updated itself to 0.6.4
when rebuilding image. I forced python to install nbclient
with the same version as in my old container which was 0.5.13
and everything started working.
That looks suspiciously like some issue with async loop configuration or modifications. Can you list the wider list of packages that are locally installed and if you have any init code or modifications to the async loop settings? What OS are you on as well?
I am using base image nvidia/cuda:10.1-cudnn8-devel-ubuntu18.04
There are installed packages listed with conda list
when it is working
_libgcc_mutex 0.1 conda_forge conda-forge
_openmp_mutex 4.5 2_kmp_llvm conda-forge
_py-xgboost-mutex 2.0 cpu_0 conda-forge
_r-mutex 1.0.1 anacondar_1 conda-forge
abseil-cpp 20200923.3 h9c3ff4c_0 conda-forge
adal 1.2.7 pyhd3eb1b0_0 main
aiohttp 3.6.3 py38h1e0a361_2 conda-forge
airflow 2.4.1 py38h1abaa86_0 conda-forge
alembic 1.5.5 pyhd8ed1ab_0 conda-forge
amqp 5.1.1 pyhd8ed1ab_0 conda-forge
ansiwrap 0.8.4 py_0 conda-forge
anyjson 0.3.3 py38h06a4308_1002 main
apache-airflow 2.4.1 py38h578d9bd_0 conda-forge
apache-airflow-providers-apache-beam 3.1.0 pyhd8ed1ab_0 conda-forge
apache-airflow-providers-apache-cassandra 2.0.1 pyhd8ed1ab_0 conda-forge
apache-airflow-providers-apache-hive 2.0.2 pyhd8ed1ab_0 conda-forge
apache-airflow-providers-apache-spark 2.0.1 pyhd8ed1ab_0 conda-forge
apache-airflow-providers-celery 2.1.0 pyhd8ed1ab_0 conda-forge
apache-airflow-providers-cncf-kubernetes 2.0.2 pyhd8ed1ab_0 conda-forge
apache-airflow-providers-ftp 2.0.1 pyhd8ed1ab_0 conda-forge
apache-airflow-providers-google 5.1.0 pyhd8ed1ab_0 conda-forge
apache-airflow-providers-http 2.0.1 pyhd8ed1ab_0 conda-forge
apache-airflow-providers-imap 2.0.1 pyhd8ed1ab_0 conda-forge
apache-airflow-providers-jdbc 2.0.1 pyhd8ed1ab_0 conda-forge
apache-airflow-providers-mysql 2.1.1 pyhd8ed1ab_0 conda-forge
apache-airflow-providers-papermill 2.2.3 pyhd8ed1ab_0 conda-forge
apache-airflow-providers-postgres 2.2.0 pyhd8ed1ab_0 conda-forge
apache-airflow-providers-sftp 2.1.1 pyhd8ed1ab_0 conda-forge
apache-airflow-providers-sqlite 2.0.1 pyhd8ed1ab_0 conda-forge
apache-airflow-providers-ssh 2.1.1 pyhd8ed1ab_0 conda-forge
apache-beam 2.41.0 py38h0a891b7_2 conda-forge
apispec 3.3.2 py_0 main
appdirs 1.4.4 pyh9f0ad1d_0 conda-forge
argcomplete 1.12.3 pyhd3eb1b0_0 main
argon2-cffi 21.3.0 pyhd3eb1b0_0 main
argon2-cffi-bindings 21.2.0 py38h7f8727e_0 main
arrow 1.2.3 pyhd8ed1ab_0 conda-forge
arrow-cpp 1.0.1 py38ha929607_30_cuda conda-forge
arrow-cpp-proc 3.0.0 cuda conda-forge
asn1crypto 1.4.0 pyh9f0ad1d_0 conda-forge
async-timeout 3.0.1 py_1000 conda-forge
async_generator 1.10 py_0 conda-forge
atk-1.0 2.36.0 h28cd5cc_0 main
attrs 22.1.0 pyh71513ae_1 conda-forge
aws-c-cal 0.4.5 h2ff795d_6 conda-forge
aws-c-common 0.4.67 h7f98852_0 conda-forge
aws-c-event-stream 0.2.6 h4285e0c_4 conda-forge
aws-c-io 0.8.3 h3b39b8c_1 conda-forge
aws-checksums 0.1.11 h3b39b8c_1 conda-forge
aws-sdk-cpp 1.8.138 h9e0957a_1 conda-forge
azure-core 1.25.1 pyhd8ed1ab_0 conda-forge
azure-datalake-store 0.0.51 pyh9f0ad1d_0 conda-forge
azure-storage-blob 12.13.1 pyhd8ed1ab_0 conda-forge
babel 2.10.3 pyhd8ed1ab_0 conda-forge
backcall 0.2.0 pyh9f0ad1d_0 conda-forge
backports 1.0 py_2 conda-forge
backports.functools_lru_cache 1.6.4 pyhd8ed1ab_0 conda-forge
bcrypt 3.2.2 py38h0a891b7_0 conda-forge
beautifulsoup4 4.11.1 py38h06a4308_0 main
billiard 3.6.4.0 py38h27cfd23_0 main
binutils_impl_linux-64 2.33.1 h53a641e_8 conda-forge
binutils_linux-64 2.33.1 h9595d00_17 conda-forge
black 22.8.0 py38h578d9bd_0 conda-forge
blas 2.17 openblas conda-forge
bleach 3.3.0 pyh44b312d_0 conda-forge
blinker 1.4 py_1 conda-forge
blosc 1.21.0 h9c3ff4c_0 conda-forge
bokeh 2.2.3 py38h578d9bd_0 conda-forge
boost-cpp 1.72.0 h9359b55_3 conda-forge
boto3 1.24.86 pyhd8ed1ab_0 conda-forge
botocore 1.27.87 pyhd8ed1ab_0 conda-forge
brotli 1.0.9 h166bdaf_7 conda-forge
brotli-bin 1.0.9 h166bdaf_7 conda-forge
brotlipy 0.7.0 py38h27cfd23_1003
brunsli 0.1 h9c3ff4c_0 conda-forge
bwidget 1.9.11 1 conda-forge
bzip2 1.0.8 h7f98852_4 conda-forge
c-ares 1.17.1 h7f98852_1 conda-forge
ca-certificates 2022.9.24 ha878542_0 conda-forge
cachelib 0.9.0 py38h06a4308_0 main
cachetools 4.2.1 pyhd8ed1ab_0 conda-forge
cairo 1.16.0 h9f066cc_1006 conda-forge
cassandra-driver 3.25.0 py38h27cfd23_0 main
cattrs 22.1.0 pyhd8ed1ab_1 conda-forge
caugetch 0.0.1 pypi_0 pypi
celery 5.2.1 pyhd8ed1ab_0 conda-forge
certifi 2022.9.24 pyhd8ed1ab_0 conda-forge
certipy 0.1.3 py_0 conda-forge
cffi 1.14.4 py38ha65f79e_1 conda-forge
chardet 3.0.4 py38h06a4308_1003
charls 2.2.0 h9c3ff4c_0 conda-forge
charset-normalizer 2.1.1 pyhd8ed1ab_0 conda-forge
click 8.1.3 py38h578d9bd_0 conda-forge
click-didyoumean 0.3.0 pyhd8ed1ab_0 conda-forge
click-plugins 1.1.1 pyhd3eb1b0_0 main
click-repl 0.2.0 pyhd3eb1b0_0 main
clickclick 20.10.2 py_1 main
clipboard 0.0.4 pypi_0 pypi
cloudpickle 2.2.0 pyhd8ed1ab_0 conda-forge
colorama 0.4.5 py38h06a4308_0 main
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colour 0.1.5 py38h06a4308_0 main
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configupdater 3.1.1 pyhd8ed1ab_0 conda-forge
configurable-http-proxy 1.3.0 0 conda-forge
connexion 2.14.1 pyhd8ed1ab_0 conda-forge
coverage 5.4 py38h497a2fe_0 conda-forge
cramjam 2.5.0 py38ha8db356_0 conda-forge
crcmod 1.7 py38h0a891b7_1008 conda-forge
cron-descriptor 1.2.24 py38h06a4308_0 main
croniter 1.3.7 pyhd8ed1ab_0 conda-forge
cryptography 37.0.4 py38h2b5fc30_0 conda-forge
cudatoolkit 10.1.243 h036e899_8 conda-forge
cudf 0.17.0 cuda_10.1_py38_gf56ef850e6_0 rapidsai
cudnn 7.6.5 cuda10.1_0 anaconda
cugraph 0.17.0 py38_gb58e49e8_0 rapidsai
cuml 0.17.0 cuda10.1_py38_ga48e0ffbf_0 rapidsai
cupy 8.3.0 py38hcaf9a05_0 anaconda
curl 7.71.1 he644dc0_8 conda-forge
cycler 0.10.0 py_2 conda-forge
cython 0.29.32 py38h6a678d5_0 main
cytoolz 0.11.0 py38h497a2fe_3 conda-forge
dask 2021.2.0 pyhd8ed1ab_0 conda-forge
dask-core 2021.2.0 pyhd8ed1ab_0 conda-forge
dask-cuda 0.17.0 py38_0 rapidsai
dask-cudf 0.17.0 py38_gf56ef850e6_0 rapidsai
dask-xgboost 0.1.11 pyh9f0ad1d_1 conda-forge
dataclasses 0.8 pyh6d0b6a4_7 main
decorator 4.4.2 py_0 conda-forge
defusedxml 0.6.0 py_0 conda-forge
deprecated 1.2.13 py38h06a4308_0 main
descartes 1.1.0 py_4 conda-forge
dill 0.3.1.1 py38_1 main
distlib 0.3.5 pyhd8ed1ab_0 conda-forge
distributed 2021.4.0 py38h06a4308_0 main
dlpack 0.3 he1b5a44_1 conda-forge
dnspython 2.2.1 py38h06a4308_0 main
docopt 0.6.2 py38h06a4308_1 main
docutils 0.19 py38h578d9bd_0 conda-forge
email-validator 1.1.2 pyhd3eb1b0_0 main
email_validator 1.1.2 hd8ed1ab_1 conda-forge
entrypoints 0.3 py38h32f6830_1002 conda-forge
enum34 1.1.10 py38h06a4308_0 main
exceptiongroup 1.0.0rc9 pyhd8ed1ab_0 conda-forge
expat 2.4.9 h6a678d5_0 main
faiss-proc 1.0.0 cuda conda-forge
fastavro 1.6.1 py38h0a891b7_0 conda-forge
fastparquet 0.8.0 py38h6c62de6_1 conda-forge
fastrlock 0.5 py38h709712a_2 conda-forge
featuretools 0.9.1 py_0 conda-forge
filelock 3.8.0 pyhd8ed1ab_0 conda-forge
flask 2.2.2 pyhd8ed1ab_0 conda-forge
flask-appbuilder 4.1.3 pyhd8ed1ab_0 conda-forge
flask-babel 2.0.0 pyhd3eb1b0_0 main
flask-bcrypt 0.7.1 pyhd3eb1b0_1 main
flask-caching 2.0.1 pyhd8ed1ab_0 conda-forge
flask-jwt-extended 4.4.4 pyhd8ed1ab_0 conda-forge
flask-login 0.6.2 pyhd8ed1ab_0 conda-forge
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flask-sqlalchemy 2.5.1 pyhd3eb1b0_0 main
flask-wtf 0.15.1 pyhd3eb1b0_0 main
flower 1.0.0 py38h578d9bd_2 conda-forge
font-ttf-dejavu-sans-mono 2.37 hd3eb1b0_0 main
font-ttf-inconsolata 3.000 h77eed37_0 conda-forge
font-ttf-source-code-pro 2.038 h77eed37_0 conda-forge
font-ttf-ubuntu 0.83 h8b1ccd4_0 main
fontconfig 2.13.1 hba837de_1005 conda-forge
fonts-anaconda 1 h8fa9717_0 main
fonts-conda-ecosystem 1 hd3eb1b0_0 main
freetype 2.10.4 hca18f0e_2 conda-forge
fribidi 1.0.10 h36c2ea0_0 conda-forge
fsspec 0.8.3 py_0 conda-forge
funcsigs 1.0.2 py_3 conda-forge
furl 2.1.3 pyhd8ed1ab_0 conda-forge
future 0.18.2 py38h578d9bd_5 conda-forge
gcc_impl_linux-64 7.3.0 habb00fd_1
gcc_linux-64 7.3.0 h553295d_17 conda-forge
gcsfs 0.6.0 py_0 conda-forge
gdk-pixbuf 2.42.2 h0c95a7a_2 conda-forge
geographiclib 1.50 py_0 conda-forge
geopy 2.0.0 pyh9f0ad1d_0 conda-forge
getpass4 0.0.14.1 pypi_0 pypi
gettext 0.19.8.1 h27087fc_1009 conda-forge
gflags 2.2.2 he1b5a44_1004 conda-forge
gfortran_impl_linux-64 7.3.0 hdf63c60_1 anaconda
gfortran_linux-64 7.3.0 h553295d_17 conda-forge
giflib 5.2.1 h36c2ea0_2 conda-forge
glib 2.68.2 h36276a3_0 main
glog 0.4.0 h49b9bf7_3 conda-forge
gmp 6.2.1 h58526e2_0 conda-forge
gobject-introspection 1.68.0 py38h2109141_1 main
google-ads 13.0.0 pyhd8ed1ab_0 conda-forge
google-api-core 1.25.1 pyhd8ed1ab_0 conda-forge
google-api-core-grpc 1.25.1 h578d9bd_0 conda-forge
google-api-core-grpcio-gcp 1.25.1 h06a4308_0 main
google-api-python-client 1.12.8 pyhd3deb0d_0 conda-forge
google-auth 1.27.0 pyhd3eb1b0_0 anaconda
google-auth-httplib2 0.0.4 pyh9f0ad1d_0 conda-forge
google-auth-oauthlib 0.4.2 pyhd8ed1ab_0 conda-forge
google-cloud-appengine-logging 1.1.0 pyhd8ed1ab_0 conda-forge
google-cloud-audit-log 0.2.0 pyhd8ed1ab_0 conda-forge
google-cloud-automl 2.3.0 pyhd8ed1ab_0 conda-forge
google-cloud-bigquery 2.11.0 pyhd3deb0d_0 conda-forge
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google-cloud-bigquery-storage 2.2.1 pyh44b312d_0 conda-forge
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h11 0.14.0 pyhd8ed1ab_0 conda-forge
h2 4.1.0 py38h578d9bd_0 conda-forge
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idna 2.9 py38_0 conda-forge
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infinity 1.5 py38h06a4308_0 main
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ipykernel 5.3.4 py38h81c977d_1 conda-forge
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ld_impl_linux-64 2.33.1 h53a641e_8 conda-forge
lerc 2.2.1 h9c3ff4c_0 conda-forge
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libffi 3.3 he6710b0_2
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libgd 2.3.3 h695aa2c_0 main
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libgit2 1.1.0 h0b03e73_0 conda-forge
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libiconv 1.16 h516909a_0 conda-forge
liblapack 3.8.0 17_openblas conda-forge
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libllvm10 10.0.1 he513fc3_3 conda-forge
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libprotobuf 3.14.0 h780b84a_0 conda-forge
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libsodium 1.0.18 h36c2ea0_1 conda-forge
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libssh2 1.9.0 ha56f1ee_6 conda-forge
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r-urca 1.3_0 r36h31ca83e_1006 conda-forge
r-urltools 1.7.3 r36h0357c0b_2 conda-forge
r-usethis 2.0.1 r36hc72bb7e_0 conda-forge
r-utf8 1.1.4 r36hcdcec82_1003 conda-forge
r-uuid 0.1_4 r36hcdcec82_1 conda-forge
r-vctrs 0.3.6 r36hcfec24a_0 conda-forge
r-viridis 0.5.1 r36h6115d3f_1004 conda-forge
r-viridislite 0.3.0 r36h6115d3f_1003 conda-forge
r-visnetwork 2.0.9 r36h6115d3f_1 conda-forge
r-waldo 0.2.4 r36hc72bb7e_0 conda-forge
r-webshot 0.5.2 r36h6115d3f_1 conda-forge
r-whisker 0.4 r36h6115d3f_1 conda-forge
r-withr 2.4.1 r36hc72bb7e_0 conda-forge
r-xfun 0.20 r36hcfec24a_0 conda-forge
r-xlconnectjars 0.2_15 r36h6115d3f_3 conda-forge
r-xlsxjars 0.6.1 r36h6115d3f_3 conda-forge
r-xml 3.99_0.3 r36hcdcec82_1 conda-forge
r-xml2 1.3.2 r36h0357c0b_1 conda-forge
r-xopen 1.0.0 r36h6115d3f_1003 conda-forge
r-xtable 1.8_4 r36h6115d3f_3 conda-forge
r-xts 0.12.1 r36hcdcec82_0 conda-forge
r-yaml 2.2.1 r36hcfec24a_1 conda-forge
r-zeallot 0.1.0 r36h6115d3f_1002 conda-forge
r-zip 2.1.1 r36hcfec24a_0 conda-forge
r-zoo 1.8_8 r36hcdcec82_0 conda-forge
re2 2020.11.01 h58526e2_0 conda-forge
readline 8.0 h7b6447c_0
redis 3.5.3 pyhd3eb1b0_0 main
reproc 14.2.1 h36c2ea0_0 conda-forge
reproc-cpp 14.2.1 h58526e2_0 conda-forge
requests 2.28.1 py38h06a4308_0 main
requests-kerberos 0.14.0 pyhd3eb1b0_0 main
requests-oauthlib 1.3.1 pyhd8ed1ab_0 conda-forge
retrying 1.3.3 py_2 conda-forge
rfc3986 1.5.0 pyhd8ed1ab_0 conda-forge
rich 12.6.0 pyhd8ed1ab_0 conda-forge
rmm 0.17.0 cuda_10.1_py38_gc4cc945_0 rapidsai
rsa 4.9 pyhd8ed1ab_0 conda-forge
ruamel.yaml 0.17.21 py38h0a891b7_1 conda-forge
ruamel.yaml.clib 0.2.6 py38h0a891b7_1 conda-forge
ruamel_yaml 0.15.87 py38h7b6447c_1
s2n 0.10.26 h9b69904_0 conda-forge
s3transfer 0.6.0 py38h06a4308_0 main
scikit-image 0.18.2 py38h1abd341_0 conda-forge
scikit-learn 0.24.2 py38hdc147b9_0 conda-forge
scipy 1.5.3 py38h828c644_0 conda-forge
scrapbook 0.5.0 pyhd8ed1ab_3 conda-forge
seaborn 0.12.0 hd8ed1ab_0 conda-forge
seaborn-base 0.12.0 pyhd8ed1ab_0 conda-forge
sed 4.8 he412f7d_0 conda-forge
selenium 4.1.0 pyhd8ed1ab_0 conda-forge
send2trash 1.8.0 pyhd8ed1ab_0 conda-forge
setproctitle 1.3.2 py38h0a891b7_0 conda-forge
setuptools 50.3.1 py38h06a4308_1
shap 0.39.0 py38h1abd341_0 conda-forge
simpervisor 0.4 pyhd8ed1ab_0 conda-forge
simplejson 3.17.6 py38h7f8727e_0 main
six 1.15.0 py38h06a4308_0
slicer 0.0.7 pyhd8ed1ab_0 conda-forge
snappy 1.1.8 he1b5a44_3 conda-forge
sniffio 1.3.0 pyhd8ed1ab_0 conda-forge
sortedcontainers 2.3.0 pyhd8ed1ab_0 conda-forge
soupsieve 2.3.2.post1 pyhd8ed1ab_0 conda-forge
spdlog 1.7.0 hc9558a2_2 conda-forge
sqlalchemy 1.4.7 py38h27cfd23_0 main
sqlalchemy-jsonfield 1.0.0 pyhd3eb1b0_0 main
sqlalchemy-utils 0.38.3 pyhd8ed1ab_0 conda-forge
sqlite 3.33.0 h62c20be_0
sshtunnel 0.1.5 0 main
statsmodels 0.12.1 py38h5c078b8_2 conda-forge
swagger-ui-bundle 0.0.8 py_0 main
tabulate 0.8.10 py38h06a4308_0 main
tbb 2020.3 hfd86e86_0 anaconda
tblib 1.7.0 pyhd8ed1ab_0 conda-forge
tenacity 8.1.0 pyhd8ed1ab_0 conda-forge
termcolor 1.1.0 pyhd8ed1ab_3 conda-forge
terminado 0.9.2 py38h578d9bd_0 conda-forge
testpath 0.4.4 py_0 conda-forge
text-unidecode 1.3 pyhd3eb1b0_0 main
textwrap3 0.9.2 py_0 conda-forge
threadpoolctl 3.1.0 pyh8a188c0_0 conda-forge
thrift 0.13.0 py38h709712a_2 conda-forge
thrift_sasl 0.4.3 py38h497a2fe_0 conda-forge
tifffile 2021.3.17 pyhd8ed1ab_0 conda-forge
tini 0.19.0 h7f98852_0 conda-forge
tinycss2 1.1.1 pyhd8ed1ab_0 conda-forge
tk 8.6.10 hbc83047_0
tktable 2.10 hb7b940f_3 conda-forge
toml 0.10.1 pyh9f0ad1d_0 conda-forge
tomli 2.0.1 py38h06a4308_0 main
toolz 0.11.1 py_0 conda-forge
tornado 6.1 py38h0a891b7_3 conda-forge
tqdm 4.51.0 pyhd3eb1b0_0
traitlets 5.0.5 py_0 conda-forge
treelite 0.93 py38hadf7658_3 conda-forge
treelite-runtime 0.93 pypi_0 pypi
trio 0.22.0 py38h578d9bd_0 conda-forge
trio-websocket 0.9.2 pyhd8ed1ab_0 conda-forge
typing 3.10.0.0 py38h06a4308_0 main
typing-extensions 4.1.1 hd8ed1ab_0 conda-forge
typing_extensions 4.1.1 pyha770c72_0 conda-forge
typing_inspect 0.7.1 pyhd3eb1b0_0 main
uc-micro-py 1.0.1 py38h06a4308_0 main
ucx 1.8.1+g6b29558 cuda10.1_0 rapidsai
ucx-proc 1.0.0 gpu conda-forge
ucx-py 0.17.0 py38_g6b29558_0 rapidsai
unicodecsv 0.14.1 py38_0 main
unidecode 1.3.6 pyhd8ed1ab_0 conda-forge
unixodbc 2.3.9 hb166930_0 conda-forge
uritemplate 3.0.1 py_0 conda-forge
urllib3 1.25.11 py_0
vine 5.0.0 pyhd3eb1b0_0 main
virtualenv 20.16.5 py38h578d9bd_0 conda-forge
wcwidth 0.2.5 pyh9f0ad1d_2 conda-forge
webencodings 0.5.1 py_1 conda-forge
websocket-client 1.4.1 pyhd8ed1ab_0 conda-forge
werkzeug 2.2.2 pyhd8ed1ab_0 conda-forge
wheel 0.35.1 pyhd3eb1b0_0
wrapt 1.14.1 py38h5eee18b_0 main
wsproto 1.2.0 pyhd8ed1ab_0 conda-forge
wtforms 2.3.3 pyhd3eb1b0_0 main
xgboost 0.90 py38he1b5a44_4 conda-forge
xorg-kbproto 1.0.7 h7f98852_1002 conda-forge
xorg-libice 1.0.10 h7f98852_0 conda-forge
xorg-libsm 1.2.3 hd9c2040_1000 conda-forge
xorg-libx11 1.7.2 h7f98852_0 conda-forge
xorg-libxext 1.3.4 h7f98852_1 conda-forge
xorg-libxrender 0.9.10 h7f98852_1003 conda-forge
xorg-renderproto 0.11.1 h7f98852_1002 conda-forge
xorg-xextproto 7.3.0 h7f98852_1002 conda-forge
xorg-xproto 7.0.31 h7f98852_1007 conda-forge
xz 5.2.5 h7b6447c_0
yaml 0.2.5 h7b6447c_0
yarl 1.5.1 py38h1e0a361_0 conda-forge
zeromq 4.3.4 h9c3ff4c_0 conda-forge
zfp 0.5.5 h9c3ff4c_5 conda-forge
zict 2.2.0 pyhd8ed1ab_0 conda-forge
zipp 3.8.1 pyhd8ed1ab_0 conda-forge
zlib 1.2.12 h166bdaf_4 conda-forge
zstd 1.4.9 ha95c52a_0 conda-forge
Unfortunately I already made some modifications to my docker image(updated airflow) so many different packages were updated. This is a package list that prevents papermill from working. As I wrote, it's little outdated already but I don't have any other version now. Maybe upgrading nbconvert to that new version in the package list above will be enough to replicate that bug, before it was the only change I did that made papermill work:
_libgcc_mutex 0.1 conda_forge conda-forge
_openmp_mutex 4.5 2_kmp_llvm conda-forge
_py-xgboost-mutex 2.0 cpu_0 conda-forge
_r-mutex 1.0.1 anacondar_1 conda-forge
abseil-cpp 20200923.3 h9c3ff4c_0 conda-forge
adal 1.2.7 pyhd3eb1b0_0 main
aiohttp 3.6.3 py38h1e0a361_2 conda-forge
airflow 2.2.2 py38h1abaa86_0 conda-forge
alembic 1.5.5 pyhd8ed1ab_0 conda-forge
amqp 5.1.1 pyhd8ed1ab_0 conda-forge
ansiwrap 0.8.4 py_0 conda-forge
anyjson 0.3.3 py38h06a4308_1002 main
apache-airflow 2.2.2 py38h578d9bd_0 conda-forge
apache-airflow-providers-apache-beam 3.1.0 pyhd8ed1ab_0 conda-forge
apache-airflow-providers-apache-cassandra 2.0.1 pyhd8ed1ab_0 conda-forge
apache-airflow-providers-apache-hive 2.0.2 pyhd8ed1ab_0 conda-forge
apache-airflow-providers-apache-spark 2.0.1 pyhd8ed1ab_0 conda-forge
apache-airflow-providers-celery 2.1.0 pyhd8ed1ab_0 conda-forge
apache-airflow-providers-cncf-kubernetes 2.0.2 pyhd8ed1ab_0 conda-forge
apache-airflow-providers-ftp 2.0.1 pyhd8ed1ab_0 conda-forge
apache-airflow-providers-google 5.1.0 pyhd8ed1ab_0 conda-forge
apache-airflow-providers-http 2.0.1 pyhd8ed1ab_0 conda-forge
apache-airflow-providers-imap 2.0.1 pyhd8ed1ab_0 conda-forge
apache-airflow-providers-jdbc 2.0.1 pyhd8ed1ab_0 conda-forge
apache-airflow-providers-mysql 2.1.1 pyhd8ed1ab_0 conda-forge
apache-airflow-providers-papermill 2.2.3 pyhd8ed1ab_0 conda-forge
apache-airflow-providers-postgres 2.2.0 pyhd8ed1ab_0 conda-forge
apache-airflow-providers-sftp 2.1.1 pyhd8ed1ab_0 conda-forge
apache-airflow-providers-sqlite 2.0.1 pyhd8ed1ab_0 conda-forge
apache-airflow-providers-ssh 2.1.1 pyhd8ed1ab_0 conda-forge
apache-beam 2.35.0 py38h497a2fe_0 conda-forge
apispec 3.3.2 py_0 main
appdirs 1.4.4 pyh9f0ad1d_0 conda-forge
argcomplete 1.12.3 pyhd3eb1b0_0 main
argon2-cffi 21.3.0 pyhd3eb1b0_0 main
argon2-cffi-bindings 21.2.0 py38h7f8727e_0 main
arrow 1.2.3 pyhd8ed1ab_0 conda-forge
arrow-cpp 1.0.1 py38ha929607_30_cuda conda-forge
arrow-cpp-proc 3.0.0 cuda conda-forge
asn1crypto 1.4.0 pyh9f0ad1d_0 conda-forge
async-timeout 3.0.1 py_1000 conda-forge
async_generator 1.10 py_0 conda-forge
atk-1.0 2.36.0 h28cd5cc_0 main
attrs 20.3.0 pyhd3deb0d_0 conda-forge
aws-c-cal 0.4.5 h2ff795d_6 conda-forge
aws-c-common 0.4.67 h7f98852_0 conda-forge
aws-c-event-stream 0.2.6 h4285e0c_4 conda-forge
aws-c-io 0.8.3 h3b39b8c_1 conda-forge
aws-checksums 0.1.11 h3b39b8c_1 conda-forge
aws-sdk-cpp 1.8.138 h9e0957a_1 conda-forge
azure-core 1.22.1 pyhd8ed1ab_0 conda-forge
azure-datalake-store 0.0.51 pyh9f0ad1d_0 conda-forge
azure-storage-blob 12.12.0 pyhd8ed1ab_0 conda-forge
babel 2.10.3 pyhd8ed1ab_0 conda-forge
backcall 0.2.0 pyh9f0ad1d_0 conda-forge
backports 1.0 py_2 conda-forge
backports.functools_lru_cache 1.6.4 pyhd8ed1ab_0 conda-forge
bcrypt 3.2.2 py38h0a891b7_0 conda-forge
billiard 3.6.4.0 py38h27cfd23_0 main
binutils_impl_linux-64 2.33.1 h53a641e_8 conda-forge
binutils_linux-64 2.33.1 h9595d00_17 conda-forge
black 21.12b0 pyhd8ed1ab_0 conda-forge
blas 2.17 openblas conda-forge
bleach 3.3.0 pyh44b312d_0 conda-forge
blinker 1.4 py_1 conda-forge
blosc 1.21.0 h9c3ff4c_0 conda-forge
bokeh 2.2.3 py38h578d9bd_0 conda-forge
boost-cpp 1.72.0 h9359b55_3 conda-forge
boto3 1.24.85 pyhd8ed1ab_0 conda-forge
botocore 1.27.85 pyhd8ed1ab_0 conda-forge
brotli 1.0.9 h166bdaf_7 conda-forge
brotli-bin 1.0.9 h166bdaf_7 conda-forge
brotlipy 0.7.0 py38h27cfd23_1003
brunsli 0.1 h9c3ff4c_0 conda-forge
bwidget 1.9.11 1 conda-forge
bzip2 1.0.8 h7f98852_4 conda-forge
c-ares 1.17.1 h7f98852_1 conda-forge
ca-certificates 2022.9.24 ha878542_0 conda-forge
cachelib 0.6.0 pyhd8ed1ab_0 conda-forge
cachetools 4.2.1 pyhd8ed1ab_0 conda-forge
cairo 1.16.0 h9f066cc_1006 conda-forge
cassandra-driver 3.25.0 py38h27cfd23_0 main
cattrs 1.2.0 pyhd3eb1b0_0 main
caugetch 0.0.1 pypi_0 pypi
celery 5.1.2 pyhd8ed1ab_0 conda-forge
certifi 2022.9.24 pyhd8ed1ab_0 conda-forge
certipy 0.1.3 py_0 conda-forge
cffi 1.14.4 py38ha65f79e_1 conda-forge
chardet 3.0.4 py38h06a4308_1003
charls 2.2.0 h9c3ff4c_0 conda-forge
charset-normalizer 2.1.1 pyhd8ed1ab_0 conda-forge
click 7.1.2 pyh9f0ad1d_0 conda-forge
click-didyoumean 0.3.0 pyhd8ed1ab_0 conda-forge
click-plugins 1.1.1 pyhd3eb1b0_0 main
click-repl 0.2.0 pyhd3eb1b0_0 main
clickclick 20.10.2 py_1 main
clipboard 0.0.4 pypi_0 pypi
cloudpickle 1.6.0 py_0 conda-forge
colorama 0.4.5 py38h06a4308_0 main
colorlog 4.8.0 py38h06a4308_1 main
colour 0.1.5 py38h06a4308_0 main
commonmark 0.9.1 pyhd3eb1b0_0 main
conda 4.12.0 py38h578d9bd_0 conda-forge
conda-package-handling 1.7.2 py38h03888b9_0
configurable-http-proxy 1.3.0 0 conda-forge
coverage 5.4 py38h497a2fe_0 conda-forge
cramjam 2.5.0 py38ha8db356_0 conda-forge
crcmod 1.7 py38h0a891b7_1008 conda-forge
croniter 1.0.15 pyhd3eb1b0_0 main
cryptography 37.0.1 py38h9ce1e76_0 main
cudatoolkit 10.1.243 h036e899_8 conda-forge
cudf 0.17.0 cuda_10.1_py38_gf56ef850e6_0 rapidsai
cudnn 7.6.5 cuda10.1_0 anaconda
cugraph 0.17.0 py38_gb58e49e8_0 rapidsai
cuml 0.17.0 cuda10.1_py38_ga48e0ffbf_0 rapidsai
cupy 8.3.0 py38hcaf9a05_0 anaconda
curl 7.71.1 he644dc0_8 conda-forge
cycler 0.10.0 py_2 conda-forge
cython 0.29.32 py38h6a678d5_0 main
cytoolz 0.11.0 py38h497a2fe_3 conda-forge
dask 2021.2.0 pyhd8ed1ab_0 conda-forge
dask-core 2021.2.0 pyhd8ed1ab_0 conda-forge
dask-cuda 0.17.0 py38_0 rapidsai
dask-cudf 0.17.0 py38_gf56ef850e6_0 rapidsai
dask-xgboost 0.1.11 pyh9f0ad1d_1 conda-forge
dataclasses 0.8 pyh6d0b6a4_7 main
decorator 4.4.2 py_0 conda-forge
defusedxml 0.6.0 py_0 conda-forge
descartes 1.1.0 py_4 conda-forge
dill 0.3.1.1 py38_1 main
distlib 0.3.5 pyhd8ed1ab_0 conda-forge
distributed 2021.2.0 py38h578d9bd_0 conda-forge
dlpack 0.3 he1b5a44_1 conda-forge
dnspython 2.2.1 py38h06a4308_0 main
docopt 0.6.2 py38h06a4308_1 main
docutils 0.16 py38_1 main
email-validator 1.1.2 pyhd3eb1b0_0 main
email_validator 1.1.2 hd8ed1ab_1 conda-forge
entrypoints 0.3 py38h32f6830_1002 conda-forge
enum34 1.1.10 py38h06a4308_0 main
exceptiongroup 1.0.0rc9 pyhd8ed1ab_0 conda-forge
expat 2.4.9 h6a678d5_0 main
faiss-proc 1.0.0 cuda conda-forge
fastavro 1.6.1 py38h0a891b7_0 conda-forge
fastparquet 0.8.0 py38h6c62de6_1 conda-forge
fastrlock 0.5 py38h709712a_2 conda-forge
featuretools 0.9.1 py_0 conda-forge
filelock 3.8.0 pyhd8ed1ab_0 conda-forge
flask 1.1.4 pyhd8ed1ab_0 conda-forge
flask-appbuilder 3.4.5 pyhd8ed1ab_0 conda-forge
flask-babel 2.0.0 pyhd3eb1b0_0 main
flask-bcrypt 0.7.1 pyhd3eb1b0_1 main
flask-caching 1.11.1 pyhd8ed1ab_0 conda-forge
flask-jwt-extended 3.25.1 pyhd8ed1ab_0 conda-forge
flask-login 0.4.1 py38_0 main
flask-openid 1.3.0 pyhd8ed1ab_0 conda-forge
flask-sqlalchemy 2.5.1 pyhd3eb1b0_0 main
flask-wtf 0.14.3 py_0 main
flower 1.0.0 py38h578d9bd_2 conda-forge
font-ttf-dejavu-sans-mono 2.37 hd3eb1b0_0 main
font-ttf-inconsolata 3.000 h77eed37_0 conda-forge
font-ttf-source-code-pro 2.038 h77eed37_0 conda-forge
font-ttf-ubuntu 0.83 h8b1ccd4_0 main
fontconfig 2.13.1 hba837de_1005 conda-forge
fonts-anaconda 1 h8fa9717_0 main
fonts-conda-ecosystem 1 hd3eb1b0_0 main
freetype 2.10.4 hca18f0e_2 conda-forge
fribidi 1.0.10 h36c2ea0_0 conda-forge
fsspec 0.8.3 py_0 conda-forge
funcsigs 1.0.2 py_3 conda-forge
furl 2.1.3 pyhd8ed1ab_0 conda-forge
future 0.18.2 py38h578d9bd_5 conda-forge
gcc_impl_linux-64 7.3.0 habb00fd_1
gcc_linux-64 7.3.0 h553295d_17 conda-forge
gcsfs 0.6.0 py_0 conda-forge
gdk-pixbuf 2.42.2 h0c95a7a_2 conda-forge
geographiclib 1.50 py_0 conda-forge
geopy 2.0.0 pyh9f0ad1d_0 conda-forge
getpass4 0.0.14.1 pypi_0 pypi
gettext 0.19.8.1 h27087fc_1009 conda-forge
gflags 2.2.2 he1b5a44_1004 conda-forge
gfortran_impl_linux-64 7.3.0 hdf63c60_1 anaconda
gfortran_linux-64 7.3.0 h553295d_17 conda-forge
giflib 5.2.1 h36c2ea0_2 conda-forge
glib 2.68.2 h36276a3_0 main
glog 0.4.0 h49b9bf7_3 conda-forge
gmp 6.2.1 h58526e2_0 conda-forge
gobject-introspection 1.68.0 py38h2109141_1 main
google-ads 13.0.0 pyhd8ed1ab_0 conda-forge
google-api-core 1.25.1 pyhd8ed1ab_0 conda-forge
google-api-core-grpc 1.25.1 h578d9bd_0 conda-forge
google-api-core-grpcio-gcp 1.25.1 h06a4308_0 main
google-api-python-client 1.12.8 pyhd3deb0d_0 conda-forge
google-auth 1.27.0 pyhd3eb1b0_0 anaconda
google-auth-httplib2 0.0.4 pyh9f0ad1d_0 conda-forge
google-auth-oauthlib 0.4.2 pyhd8ed1ab_0 conda-forge
google-cloud-appengine-logging 1.1.0 pyhd8ed1ab_0 conda-forge
google-cloud-audit-log 0.2.0 pyhd8ed1ab_0 conda-forge
google-cloud-automl 2.3.0 pyhd8ed1ab_0 conda-forge
google-cloud-bigquery 2.11.0 pyhd3deb0d_0 conda-forge
google-cloud-bigquery-core 2.11.0 pyhd3deb0d_0 conda-forge
google-cloud-bigquery-datatransfer 3.2.0 pyhd8ed1ab_0 conda-forge
google-cloud-bigquery-storage 2.2.1 pyh44b312d_0 conda-forge
google-cloud-bigquery-storage-core 2.2.1 pyh44b312d_0 conda-forge
google-cloud-bigtable 1.7.0 pyhd8ed1ab_0 conda-forge
google-cloud-container 0.3.0 py38_0 conda-forge
google-cloud-core 1.4.3 pyh9f0ad1d_0 conda-forge
google-cloud-datacatalog 3.2.1 pyhd8ed1ab_0 conda-forge
google-cloud-dataproc 2.5.0 pyhd8ed1ab_0 conda-forge
google-cloud-dlp 0.14.0 pyh9f0ad1d_0 conda-forge
google-cloud-kms 2.3.0 pyhd8ed1ab_0 conda-forge
google-cloud-language 1.3.0 py38h578d9bd_1 conda-forge
google-cloud-logging 2.7.0 pyhd8ed1ab_0 conda-forge
google-cloud-memcache 1.0.0 pyhd8ed1ab_0 conda-forge
google-cloud-monitoring 2.3.0 pyhd8ed1ab_0 conda-forge
google-cloud-os-login 2.3.1 pyhd8ed1ab_0 conda-forge
google-cloud-pubsub 2.8.0 pyhd8ed1ab_0 conda-forge
google-cloud-redis 2.1.1 pyhd8ed1ab_0 conda-forge
google-cloud-secret-manager 1.0.0 pyhd8ed1ab_0 conda-forge
google-cloud-spanner 1.19.1 pyhd8ed1ab_0 conda-forge
google-cloud-speech 1.3.2 pyhd8ed1ab_0 conda-forge
google-cloud-storage 1.40.0 pyhd3eb1b0_0 main
google-cloud-tasks 2.3.0 pyhd8ed1ab_0 conda-forge
google-cloud-texttospeech 1.0.1 pyh9f0ad1d_0 conda-forge
google-cloud-translate 1.6.0 py38_0 conda-forge
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r-jsonlite 1.7.1 r36hcdcec82_0 conda-forge
r-kableextra 1.3.1 r36h142f84f_0 conda-forge
r-kernsmooth 2.23_18 r36h7679c2e_0 conda-forge
r-knitr 1.30 r36h6115d3f_0 conda-forge
r-labeling 0.4.2 r36h142f84f_0 conda-forge
r-later 1.1.0.1 r36h0357c0b_0 conda-forge
r-lattice 0.20_41 r36hcfec24a_3 conda-forge
r-lava 1.6.8.1 r36hc72bb7e_0 conda-forge
r-lazyeval 0.2.2 r36hcfec24a_2 conda-forge
r-lifecycle 0.2.0 r36h6115d3f_1 conda-forge
r-lmtest 0.9_38 r36h31ca83e_1 conda-forge
r-lubridate 1.7.9.2 r36he524a50_0 conda-forge
r-magrittr 2.0.1 r36hcfec24a_1 conda-forge
r-maps 3.3.0 r36hcdcec82_1004 conda-forge
r-markdown 1.1 r36hcfec24a_1 conda-forge
r-mass 7.3_53.1 r36hcfec24a_0 conda-forge
r-matrix 1.3_2 r36he454529_0 conda-forge
r-memoise 1.1.0 r36h6115d3f_1004 conda-forge
r-mgcv 1.8_34 r36he454529_0 conda-forge
r-mime 0.10 r36hcfec24a_0 conda-forge
r-modelmetrics 1.2.2.2 r36h0357c0b_1 conda-forge
r-modelr 0.1.8 r36h6115d3f_0 conda-forge
r-munsell 0.5.0 r36h6115d3f_1003 conda-forge
r-networkd3 0.4 r36h6115d3f_1004 conda-forge
r-nlme 3.1_150 r36h31ca83e_0 conda-forge
r-nnet 7.3_15 r36hcfec24a_0 conda-forge
r-numderiv 2016.8_1.1 r36h6115d3f_3 conda-forge
r-nycflights13 1.0.1 r36h6115d3f_1 conda-forge
r-openssl 1.4.3 r36he5c4762_0 conda-forge
r-openxlsx 4.2.3 r36h1b71b39_0 conda-forge
r-pbdzmq 0.3_5 r36h42bf92c_1 conda-forge
r-pillar 1.5.0 r36hc72bb7e_0 conda-forge
r-piper 0.6.1.3 r36hc72bb7e_0 conda-forge
r-pkgbuild 1.2.0 r36hc72bb7e_0 conda-forge
r-pkgconfig 2.0.3 r36h6115d3f_1 conda-forge
r-pkgload 1.1.0 r36h0357c0b_0 conda-forge
r-plogr 0.2.0 r36h6115d3f_1003 conda-forge
r-plotly 4.9.2.1 r36h6115d3f_1 conda-forge
r-plyr 1.8.6 r36h0357c0b_1 conda-forge
r-praise 1.0.0 r36h6115d3f_1004 conda-forge
r-prettyunits 1.1.1 r36h6115d3f_1 conda-forge
r-proc 1.17.0.1 r36h03ef668_0 conda-forge
r-processx 3.4.5 r36hcfec24a_0 conda-forge
r-prodlim 2019.11.13 r36h0357c0b_1 conda-forge
r-progress 1.2.2 r36h6115d3f_2 conda-forge
r-promises 1.2.0.1 r36h03ef668_0 conda-forge
r-pryr 0.1.4 r36h0357c0b_1004 conda-forge
r-ps 1.5.0 r36hcfec24a_0 conda-forge
r-purrr 0.3.4 r36hcfec24a_1 conda-forge
r-quadprog 1.5_8 r36hed91ed1_3 conda-forge
r-quantmod 0.4.18 r36hc72bb7e_0 conda-forge
r-r2d3 0.2.5 r36hc72bb7e_0 conda-forge
r-r6 2.5.0 r36hc72bb7e_0 conda-forge
r-randomforest 4.6_14 r36h31ca83e_1004 conda-forge
r-rappdirs 0.3.3 r36hcfec24a_0 conda-forge
r-rbokeh 0.5.1 r36h6115d3f_0 conda-forge
r-rcmdcheck 1.3.3 r36h6115d3f_3 conda-forge
r-rcolorbrewer 1.1_2 r36h6115d3f_1003 conda-forge
r-rcpp 1.0.6 r36h03ef668_0 conda-forge
r-rcpparmadillo 0.10.2.1.0 r36h306847c_0 conda-forge
r-rcurl 1.98_1.2 r36hcdcec82_1 conda-forge
r-readr 1.4.0 r36h1b71b39_0 conda-forge
r-readxl 1.3.1 r36hde08347_4 conda-forge
r-recipes 0.1.15 r36hc72bb7e_0 conda-forge
r-recommended 3.6 r36_1004 conda-forge
r-rematch 1.0.1 r36h6115d3f_1003 conda-forge
r-rematch2 2.1.2 r36h6115d3f_1 conda-forge
r-remotes 2.2.0 r36h6115d3f_0 conda-forge
r-repr 1.1.3 r36h785f33e_0 conda-forge
r-reprex 1.0.0 r36hc72bb7e_0 conda-forge
r-reshape2 1.4.4 r36h0357c0b_1 conda-forge
r-rex 1.2.0 r36h6115d3f_1 conda-forge
r-rgexf 0.16.0 r36h6115d3f_1 conda-forge
r-rjava 0.9_13 r36hcfec24a_5 conda-forge
r-rjson 0.2.20 r36h0357c0b_1002 conda-forge
r-rlang 0.4.9 r36hcfec24a_0 conda-forge
r-rmarkdown 2.6 r36hc72bb7e_0 conda-forge
r-rodbc 1.3_16 r36hcdcec82_1 conda-forge
r-roxygen2 7.1.1 r36h0357c0b_0 conda-forge
r-rpart 4.1_15 r36hcfec24a_2 conda-forge
r-rprojroot 2.0.2 r36hc72bb7e_0 conda-forge
r-rsqlite 2.2.1 r36h1b71b39_0 conda-forge
r-rstudioapi 0.13 r36hc72bb7e_0 conda-forge
r-rversions 2.0.2 r36h6115d3f_0 conda-forge
r-rvest 0.3.6 r36h6115d3f_0 conda-forge
r-scales 1.1.1 r36h6115d3f_0 conda-forge
r-selectr 0.4_2 r36h6115d3f_1 conda-forge
r-servr 0.21 r36hc72bb7e_0 conda-forge
r-sessioninfo 1.1.1 r36h6115d3f_1002 conda-forge
r-shape 1.4.5 r36_0 conda-forge
r-shiny 1.5.0 r36h6115d3f_0 conda-forge
r-sourcetools 0.1.7 r36he1b5a44_1002 conda-forge
r-sparklyr 1.5.2 r36hc72bb7e_0 conda-forge
r-spatial 7.3_13 r36hcfec24a_0 conda-forge
r-squarem 2021.1 r36hc72bb7e_0 conda-forge
r-stringi 1.5.3 r36hca8494e_0 conda-forge
r-stringr 1.4.0 r36h6115d3f_2 conda-forge
r-survival 3.2_7 r36hcfec24a_0 conda-forge
r-sys 3.4 r36hcfec24a_0 conda-forge
r-testthat 3.0.2 r36h03ef668_0 conda-forge
r-tibble 3.0.6 r36hcfec24a_0 conda-forge
r-tidyr 1.1.2 r36h0357c0b_0 conda-forge
r-tidyselect 1.1.0 r36h6115d3f_0 conda-forge
r-tidyverse 1.3.0 r36h6115d3f_2 conda-forge
r-timedate 3043.102 r36h6115d3f_1002 conda-forge
r-tinytex 0.29 r36hc72bb7e_0 conda-forge
r-tree 1.0_40 r36hcdcec82_1 conda-forge
r-triebeard 0.3.0 r36he1b5a44_1003 conda-forge
r-tseries 0.10_47 r36hed91ed1_5 conda-forge
r-ttr 0.24.2 r36hcdcec82_0 conda-forge
r-urca 1.3_0 r36h31ca83e_1006 conda-forge
r-urltools 1.7.3 r36h0357c0b_2 conda-forge
r-usethis 2.0.1 r36hc72bb7e_0 conda-forge
r-utf8 1.1.4 r36hcdcec82_1003 conda-forge
r-uuid 0.1_4 r36hcdcec82_1 conda-forge
r-vctrs 0.3.6 r36hcfec24a_0 conda-forge
r-viridis 0.5.1 r36h6115d3f_1004 conda-forge
r-viridislite 0.3.0 r36h6115d3f_1003 conda-forge
r-visnetwork 2.0.9 r36h6115d3f_1 conda-forge
r-waldo 0.2.4 r36hc72bb7e_0 conda-forge
r-webshot 0.5.2 r36h6115d3f_1 conda-forge
r-whisker 0.4 r36h6115d3f_1 conda-forge
r-withr 2.4.1 r36hc72bb7e_0 conda-forge
r-xfun 0.20 r36hcfec24a_0 conda-forge
r-xlconnectjars 0.2_15 r36h6115d3f_3 conda-forge
r-xlsxjars 0.6.1 r36h6115d3f_3 conda-forge
r-xml 3.99_0.3 r36hcdcec82_1 conda-forge
r-xml2 1.3.2 r36h0357c0b_1 conda-forge
r-xopen 1.0.0 r36h6115d3f_1003 conda-forge
r-xtable 1.8_4 r36h6115d3f_3 conda-forge
r-xts 0.12.1 r36hcdcec82_0 conda-forge
r-yaml 2.2.1 r36hcfec24a_1 conda-forge
r-zeallot 0.1.0 r36h6115d3f_1002 conda-forge
r-zip 2.1.1 r36hcfec24a_0 conda-forge
r-zoo 1.8_8 r36hcdcec82_0 conda-forge
re2 2020.11.01 h58526e2_0 conda-forge
readline 8.0 h7b6447c_0
redis 3.5.3 pyhd3eb1b0_0 main
reproc 14.2.1 h36c2ea0_0 conda-forge
reproc-cpp 14.2.1 h58526e2_0 conda-forge
requests 2.28.1 py38h06a4308_0 main
requests-kerberos 0.14.0 pyhd3eb1b0_0 main
requests-oauthlib 1.3.1 pyhd8ed1ab_0 conda-forge
retrying 1.3.3 py_2 conda-forge
rfc3986 1.5.0 pyhd8ed1ab_0 conda-forge
rich 12.4.1 pyhd8ed1ab_0 conda-forge
rmm 0.17.0 cuda_10.1_py38_gc4cc945_0 rapidsai
rsa 4.9 pyhd8ed1ab_0 conda-forge
ruamel.yaml 0.17.21 py38h0a891b7_1 conda-forge
ruamel.yaml.clib 0.2.6 py38h0a891b7_1 conda-forge
ruamel_yaml 0.15.87 py38h7b6447c_1
s2n 0.10.26 h9b69904_0 conda-forge
s3transfer 0.6.0 py38h06a4308_0 main
scikit-image 0.18.2 py38h1abd341_0 conda-forge
scikit-learn 0.24.2 py38hdc147b9_0 conda-forge
scipy 1.5.3 py38h828c644_0 conda-forge
scrapbook 0.5.0 pyhd8ed1ab_3 conda-forge
seaborn 0.12.0 hd8ed1ab_0 conda-forge
seaborn-base 0.12.0 pyhd8ed1ab_0 conda-forge
sed 4.8 he412f7d_0 conda-forge
selenium 4.1.0 pyhd8ed1ab_0 conda-forge
send2trash 1.8.0 pyhd8ed1ab_0 conda-forge
setproctitle 1.3.2 py38h0a891b7_0 conda-forge
setuptools 50.3.1 py38h06a4308_1
shap 0.39.0 py38h1abd341_0 conda-forge
simpervisor 0.4 pyhd8ed1ab_0 conda-forge
simplejson 3.17.6 py38h7f8727e_0 main
six 1.15.0 py38h06a4308_0
slicer 0.0.7 pyhd8ed1ab_0 conda-forge
snappy 1.1.8 he1b5a44_3 conda-forge
sniffio 1.3.0 pyhd8ed1ab_0 conda-forge
sortedcontainers 2.3.0 pyhd8ed1ab_0 conda-forge
spdlog 1.7.0 hc9558a2_2 conda-forge
sqlalchemy 1.4.7 py38h27cfd23_0 main
sqlalchemy-jsonfield 1.0.0 pyhd3eb1b0_0 main
sqlalchemy-utils 0.38.3 pyhd8ed1ab_0 conda-forge
sqlite 3.33.0 h62c20be_0
sshtunnel 0.1.5 0 main
statsmodels 0.12.1 py38h5c078b8_2 conda-forge
swagger-ui-bundle 0.0.8 py_0 main
tabulate 0.8.10 py38h06a4308_0 main
tbb 2020.3 hfd86e86_0 anaconda
tblib 1.7.0 pyhd8ed1ab_0 conda-forge
tenacity 8.1.0 pyhd8ed1ab_0 conda-forge
termcolor 1.1.0 pyhd8ed1ab_3 conda-forge
terminado 0.9.2 py38h578d9bd_0 conda-forge
testpath 0.4.4 py_0 conda-forge
text-unidecode 1.3 pyhd3eb1b0_0 main
textwrap3 0.9.2 py_0 conda-forge
threadpoolctl 3.1.0 pyh8a188c0_0 conda-forge
thrift 0.13.0 py38h709712a_2 conda-forge
thrift_sasl 0.4.3 py38h497a2fe_0 conda-forge
tifffile 2021.3.17 pyhd8ed1ab_0 conda-forge
tini 0.19.0 h7f98852_0 conda-forge
tk 8.6.10 hbc83047_0
tktable 2.10 hb7b940f_3 conda-forge
toml 0.10.1 pyh9f0ad1d_0 conda-forge
tomli 1.2.2 pyhd3eb1b0_0 main
toolz 0.11.1 py_0 conda-forge
tornado 6.1 py38h0a891b7_3 conda-forge
tqdm 4.51.0 pyhd3eb1b0_0
traitlets 5.0.5 py_0 conda-forge
treelite 0.93 py38hadf7658_3 conda-forge
treelite-runtime 0.93 pypi_0 pypi
trio 0.22.0 py38h578d9bd_0 conda-forge
trio-websocket 0.9.2 pyhd8ed1ab_0 conda-forge
typed-ast 1.5.4 py38h0a891b7_0 conda-forge
typing 3.10.0.0 py38h06a4308_0 main
typing-extensions 3.10.0.2 hd3eb1b0_0 main
typing_extensions 3.10.0.2 pyh06a4308_0 main
typing_inspect 0.7.1 pyhd3eb1b0_0 main
ucx 1.8.1+g6b29558 cuda10.1_0 rapidsai
ucx-proc 1.0.0 gpu conda-forge
ucx-py 0.17.0 py38_g6b29558_0 rapidsai
unicodecsv 0.14.1 py38_0 main
unidecode 1.3.6 pyhd8ed1ab_0 conda-forge
unixodbc 2.3.9 hb166930_0 conda-forge
uritemplate 3.0.1 py_0 conda-forge
urllib3 1.25.11 py_0
vine 5.0.0 pyhd3eb1b0_0 main
virtualenv 20.16.5 py38h578d9bd_0 conda-forge
wcwidth 0.2.5 pyh9f0ad1d_2 conda-forge
webencodings 0.5.1 py_1 conda-forge
websocket-client 1.4.1 pyhd8ed1ab_0 conda-forge
werkzeug 1.0.1 pyhd3eb1b0_0 main
wheel 0.35.1 pyhd3eb1b0_0
wsproto 1.2.0 pyhd8ed1ab_0 conda-forge
wtforms 2.3.3 pyhd3eb1b0_0 main
xgboost 0.90 py38he1b5a44_4 conda-forge
xorg-kbproto 1.0.7 h7f98852_1002 conda-forge
xorg-libice 1.0.10 h7f98852_0 conda-forge
xorg-libsm 1.2.3 hd9c2040_1000 conda-forge
xorg-libx11 1.7.2 h7f98852_0 conda-forge
xorg-libxext 1.3.4 h7f98852_1 conda-forge
xorg-libxrender 0.9.10 h7f98852_1003 conda-forge
xorg-renderproto 0.11.1 h7f98852_1002 conda-forge
xorg-xextproto 7.3.0 h7f98852_1002 conda-forge
xorg-xproto 7.0.31 h7f98852_1007 conda-forge
xz 5.2.5 h7b6447c_0
yaml 0.2.5 h7b6447c_0
yarl 1.5.1 py38h1e0a361_0 conda-forge
zeromq 4.3.4 h9c3ff4c_0 conda-forge
zfp 0.5.5 h9c3ff4c_5 conda-forge
zict 2.2.0 pyhd8ed1ab_0 conda-forge
zipp 3.8.1 pyhd8ed1ab_0 conda-forge
zlib 1.2.12 h166bdaf_4 conda-forge
zstd 1.4.9 ha95c52a_0 conda-forge
I am experiencing this too, running papermill inside a systemd-nspawn container
In addition to this, since installing papermill, executing notebooks through jupyter-nbconvert fails. I believe this was caused becasue as papermill got installed, nbbclient was updated. This updated updated jupyter-client too, but did not update jupyter-console
I ended up with jypyter client v7.3.5 and jypyter console v6.0.0 There are reports of icompability between jupyter-client >7.0 and jupyter-console <6.4.1
This is the error shown when executing jupyte nbconvert --execute with those vresions installed, perhaps it sheds some light on this problem:
Traceback (most recent call last):
File "/usr/bin/jupyter-nbconvert", line 11, in <module>
load_entry_point('nbconvert==5.6.1', 'console_scripts', 'jupyter-nbconvert')()
File "/home/user/.local/lib/python3.8/site-packages/jupyter_core/application.py", line 269, in launch_instance
return super().launch_instance(argv=argv, **kwargs)
File "/usr/local/lib/python3.8/dist-packages/traitlets/config/application.py", line 976, in launch_instance
app.start()
File "/usr/lib/python3/dist-packages/nbconvert/nbconvertapp.py", line 340, in start
self.convert_notebooks()
File "/usr/lib/python3/dist-packages/nbconvert/nbconvertapp.py", line 510, in convert_notebooks
self.convert_single_notebook(notebook_filename)
File "/usr/lib/python3/dist-packages/nbconvert/nbconvertapp.py", line 481, in convert_single_notebook
output, resources = self.export_single_notebook(notebook_filename, resources, input_buffer=input_buffer)
File "/usr/lib/python3/dist-packages/nbconvert/nbconvertapp.py", line 410, in export_single_notebook
output, resources = self.exporter.from_filename(notebook_filename, resources=resources)
File "/usr/lib/python3/dist-packages/nbconvert/exporters/exporter.py", line 179, in from_filename
return self.from_file(f, resources=resources, **kw)
File "/usr/lib/python3/dist-packages/nbconvert/exporters/exporter.py", line 197, in from_file
return self.from_notebook_node(nbformat.read(file_stream, as_version=4), resources=resources, **kw)
File "/usr/lib/python3/dist-packages/nbconvert/exporters/notebook.py", line 32, in from_notebook_node
nb_copy, resources = super(NotebookExporter, self).from_notebook_node(nb, resources, **kw)
File "/usr/lib/python3/dist-packages/nbconvert/exporters/exporter.py", line 139, in from_notebook_node
nb_copy, resources = self._preprocess(nb_copy, resources)
File "/usr/lib/python3/dist-packages/nbconvert/exporters/exporter.py", line 316, in _preprocess
nbc, resc = preprocessor(nbc, resc)
File "/usr/lib/python3/dist-packages/nbconvert/preprocessors/base.py", line 47, in __call__
return self.preprocess(nb, resources)
File "/usr/lib/python3/dist-packages/nbconvert/preprocessors/execute.py", line 405, in preprocess
nb, resources = super(ExecutePreprocessor, self).preprocess(nb, resources)
File "/usr/lib/python3/dist-packages/nbconvert/preprocessors/base.py", line 69, in preprocess
nb.cells[index], resources = self.preprocess_cell(cell, resources, index)
File "/usr/lib/python3/dist-packages/nbconvert/preprocessors/execute.py", line 438, in preprocess_cell
reply, outputs = self.run_cell(cell, cell_index, store_history)
File "/usr/lib/python3/dist-packages/nbconvert/preprocessors/execute.py", line 578, in run_cell
exec_reply = self._poll_for_reply(parent_msg_id, cell, timeout)
File "/usr/lib/python3/dist-packages/nbconvert/preprocessors/execute.py", line 479, in _poll_for_reply
if msg['parent_header'].get('msg_id') == msg_id:
TypeError: 'coroutine' object is not subscriptable
sys:1: RuntimeWarning: coroutine 'ZMQSocketChannel.get_msg' was never awaited
For me, updating jupyter-console to latest version (6.4.4) fixed the papermill hang, but not the errors when executing jupyter nbconvert --execute
That was caused because a problem with library installation directories. It seems papermill and jupyter nbconvert were calling different libraries. After fixing this, both nbconvert and papermill work normally
A different solution to updating jupyter-console is to downgrade jupyter-client to v6.1.2
Looks like this is also being discussed over at https://github.com/scikit-hep/pyhf/issues/2104. The workaround seems to be to constrain jupyter-client
to <8
.
Oops, looks like this is a duplicate of https://github.com/nteract/papermill/issues/711 as well. There is more info over there.
π Bug
Hi there,
I'm running papermill in a devcontainer just to try it out, and found it hangs when trying to execute the first cell.
after ctrl+C
The notebook runs fine via the UI or
pytest --nbmake
.Versions
Thanks for your work on this library!