Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

libmamba failed to execute pre/post link script for cudatoolkit but works with mamba #2501

Open
2 tasks done
bastian-f opened this issue Apr 27, 2023 · 3 comments
Open
2 tasks done

libmamba failed to execute pre/post link script for cudatoolkit but works with mamba #2501

bastian-f opened this issue Apr 27, 2023 · 3 comments
Labels
type::bug Something isn't working

Comments

@bastian-f
Copy link

Troubleshooting docs

  • My problem is not solved in the Troubleshooting docs

How did you install Mamba?

Micromamba

Search tried in issue tracker

libmamba failed to execute pre/post link script for cudatoolkit

Latest version of Mamba

  • My problem is not solved with the latest version

Tried in Conda?

I do not have this problem with Conda, just with Mamba

Describe your issue

While building a Docker container from a Dockerfile, when trying to create an environment from a yaml file I get the following error:

#46 333.6 Linking cudatoolkit-11.0.3-h88f8997_11
#46 333.7
#46 333.7 error    libmamba response code: -1 error message: Invalid argument
#46 333.7 critical libmamba failed to execute pre/post link script for cudatoolkit

Interestingly using mamba, it works. For micromamba, I tried the automatic installation and the manual installation described here and also using the mambaorg/micromamba image from the Docker Hub. The error is always the same.

But if during the build, I install conda, and then install mamba in the base environment with conda install mamba -n base -c conda-forge and then doing RUN conda env create -f /home/bastian/environment.yml it works.

mamba info / micromamba info

Not possible because build fails.

Logs

#46 [stage-1 21/21] RUN micromamba install -y -n base -f /tmp/env.yaml &&     micromamba clean --all --yes
#46 0.460
#46 0.460                                            __
#46 0.460           __  ______ ___  ____ _____ ___  / /_  ____ _
#46 0.460          / / / / __ `__ \/ __ `/ __ `__ \/ __ \/ __ `/
#46 0.460         / /_/ / / / / / / /_/ / / / / / / /_/ / /_/ /
#46 0.460        / .___/_/ /_/ /_/\__,_/_/ /_/ /_/_.___/\__,_/
#46 0.460       /_/
#46 0.460
#46 34.90 warning  libmamba linux version not found (virtual package skipped)
#46 101.5
#46 101.5 Transaction
#46 101.5
#46 101.5   Prefix: /opt/conda
#46 101.5
#46 101.5   Updating specs:
#46 101.5
#46 101.5    - redis-py
#46 101.5    - pip
#46 101.5    - boto3
#46 101.5    - botocore
#46 101.5    - celery==5.2.1=pyhd8ed1ab_0
#46 101.5    - h5py==3.1.0=nompi_py37h1e651dc_100
#46 101.5    - ipywidgets==7.7.0=pyhd8ed1ab_0
#46 101.5    - librosa==0.9.1=pyhd8ed1ab_0
#46 101.5    - matplotlib==3.5.2=py37h06a4308_0
#46 101.5    - matplotlib-base==3.5.2=py37hf590b9c_0
#46 101.5    - matplotlib-inline==0.1.6=py37h06a4308_0
#46 101.5    - numba==0.55.1=py37h2d894fd_0
#46 101.5    - numpy==1.19.5=py37h3e96413_3
#46 101.5    - pandas==1.3.5=py37he8f5f7f_0
#46 101.5    - peakutils==1.3.3=py_0
#46 101.5    - pymongo==4.1.1=py37hd23a5d3_0
#46 101.5    - pyparsing==3.0.9=py37h06a4308_0
#46 101.5    - qgrid==1.3.1=py37h89c1867_2
#46 101.5    - tensorflow==2.6.2=cuda110py37h4801193_1
#46 101.5    - tensorflow-base==2.6.2=cuda110py37h0ebe739_1
#46 101.5    - tensorflow-estimator==2.6.2=cuda110py37h4801193_1
#46 101.5    - tensorflow-gpu==2.6.2=cuda110py37h5b0ac8e_1
#46 101.5    - tqdm==4.64.1=py37h06a4308_0
#46 101.5    - xgboost==1.6.2=cpu_py37h08536eb_1
#46 101.5
#46 101.5
#46 101.5   Package                               Version  Build                   Channel                   Size
#46 101.5 ─────────────────────────────────────────────────────────────────────────────────────────────────────────
#46 101.5   Install:
#46 101.5 ─────────────────────────────────────────────────────────────────────────────────────────────────────────
#46 101.5
#46 101.5   + _libgcc_mutex                           0.1  conda_forge             conda-forge/linux-64       3kB
#46 101.5   + _openmp_mutex                           4.5  2_gnu                   conda-forge/linux-64      24kB
#46 101.5   + _py-xgboost-mutex                       2.0  cpu_0                   conda-forge/linux-64       8kB
#46 101.5   + abseil-cpp                       20210324.2  h9c3ff4c_0              conda-forge/linux-64       1MB
#46 101.5   + absl-py                              0.15.0  pyhd8ed1ab_0            conda-forge/noarch       100kB
#46 101.5   + aiohttp                               3.8.3  py37h540881e_0          conda-forge/linux-64     442kB
#46 101.5   + aiosignal                             1.3.1  pyhd8ed1ab_0            conda-forge/noarch        13kB
#46 101.5   + alsa-lib                            1.2.3.2  h166bdaf_0              conda-forge/linux-64     567kB
#46 101.5   + amqp                                  5.1.1  pyhd8ed1ab_0            conda-forge/noarch        45kB
#46 101.5   + anyio                                 3.6.2  pyhd8ed1ab_0            conda-forge/noarch        85kB
#46 101.5   + aom                                   3.5.0  h27087fc_0              conda-forge/linux-64       3MB
#46 101.5   + argon2-cffi                          21.3.0  pyhd8ed1ab_0            conda-forge/noarch        16kB
#46 101.5   + argon2-cffi-bindings                 21.2.0  py37h540881e_2          conda-forge/linux-64      35kB
#46 101.5   + astunparse                            1.6.3  pyhd8ed1ab_0            conda-forge/noarch        16kB
#46 101.5   + async-timeout                         4.0.2  pyhd8ed1ab_0            conda-forge/noarch         9kB
#46 101.5   + asynctest                            0.13.0  py_0                    conda-forge/noarch        25kB
#46 101.5   + attrs                                22.2.0  pyh71513ae_0            conda-forge/noarch        54kB
#46 101.5   + audioread                             3.0.0  py37h89c1867_0          conda-forge/linux-64      34kB
#46 101.5   + backcall                              0.2.0  pyh9f0ad1d_0            conda-forge/noarch        14kB
#46 101.5   + backports                               1.0  pyhd8ed1ab_3            conda-forge/noarch         6kB
#46 101.5   + backports.functools_lru_cache         1.6.4  pyhd8ed1ab_0            conda-forge/noarch         9kB
#46 101.5   + beautifulsoup4                       4.12.2  pyha770c72_0            conda-forge/noarch       115kB
#46 101.5   + billiard                            3.6.4.0  py37h540881e_2          conda-forge/linux-64     147kB
#46 101.5   + bleach                                6.0.0  pyhd8ed1ab_0            conda-forge/noarch       131kB
#46 101.5   + blinker                               1.6.2  pyhd8ed1ab_0            conda-forge/noarch        18kB
#46 101.5   + boto3                              1.26.121  pyhd8ed1ab_0            conda-forge/noarch        78kB
#46 101.5   + botocore                           1.29.121  pyhd8ed1ab_0            conda-forge/noarch         6MB
#46 101.5   + brotli                                1.0.9  h166bdaf_8              conda-forge/linux-64      19kB
#46 101.5   + brotli-bin                            1.0.9  h166bdaf_8              conda-forge/linux-64      20kB
#46 101.5   + brotlipy                              0.7.0  py37h540881e_1004       conda-forge/linux-64     350kB
#46 101.5   + bzip2                                 1.0.8  h7f98852_4              conda-forge/linux-64     496kB
#46 101.5   + c-ares                               1.18.1  h7f98852_0              conda-forge/linux-64     115kB
#46 101.5   + ca-certificates                   2022.12.7  ha878542_0              conda-forge/linux-64     146kB
#46 101.5   + cached-property                       1.5.2  hd8ed1ab_1              conda-forge/noarch         4kB
#46 101.5   + cached_property                       1.5.2  pyha770c72_1            conda-forge/noarch        11kB
#46 101.5   + cachetools                            4.2.4  pyhd8ed1ab_0            conda-forge/noarch        13kB
#46 101.5   + celery                                5.2.1  pyhd8ed1ab_0            conda-forge/noarch       470kB
#46 101.5   + certifi                           2022.12.7  pyhd8ed1ab_0            conda-forge/noarch       151kB
#46 101.5   + cffi                                 1.15.1  py37h43b0acd_1          conda-forge/linux-64     233kB
#46 101.5   + charset-normalizer                    2.1.1  pyhd8ed1ab_0            conda-forge/noarch        36kB
#46 101.5   + click                                 8.1.3  py37h89c1867_0          conda-forge/linux-64     148kB
#46 101.5   + click-didyoumean                      0.3.0  pyhd8ed1ab_0            conda-forge/noarch         7kB
#46 101.5   + click-plugins                         1.1.1  py_0                    conda-forge/noarch         9kB
#46 101.5   + click-repl                            0.2.0  pyhd8ed1ab_0            conda-forge/noarch         9kB
#46 101.5   + cryptography                         38.0.2  py37h38fbfac_1          conda-forge/linux-64       2MB
#46 101.5   + cudatoolkit                          11.0.3  h88f8997_11             conda-forge/linux-64     655MB
#46 101.5   + cudnn                              8.4.1.50  hed8a83a_0              conda-forge/linux-64     648MB
#46 101.5   + cycler                               0.11.0  pyhd8ed1ab_0            conda-forge/noarch        10kB
#46 101.5   + dbus                                 1.13.6  h5008d03_3              conda-forge/linux-64     619kB
#46 101.5   + debugpy                               1.6.3  py37hd23a5d3_0          conda-forge/linux-64       2MB
#46 101.5   + decorator                             5.1.1  pyhd8ed1ab_0            conda-forge/noarch        12kB
#46 101.5   + defusedxml                            0.7.1  pyhd8ed1ab_0            conda-forge/noarch        24kB
#46 101.5   + entrypoints                             0.4  pyhd8ed1ab_0            conda-forge/noarch         9kB
#46 101.5   + expat                                 2.5.0  hcb278e6_1              conda-forge/linux-64     137kB
#46 101.5   + ffmpeg                                5.1.2  gpl_hbd009f3_102        conda-forge/linux-64      11MB
#46 101.5   + flit-core                             3.8.0  pyhd8ed1ab_0            conda-forge/noarch        46kB
#46 101.5   + font-ttf-dejavu-sans-mono              2.37  hab24e00_0              conda-forge/noarch       397kB
#46 101.5   + font-ttf-inconsolata                  3.000  h77eed37_0              conda-forge/noarch        97kB
#46 101.5   + font-ttf-source-code-pro              2.038  h77eed37_0              conda-forge/noarch       701kB
#46 101.5   + font-ttf-ubuntu                        0.83  hab24e00_0              conda-forge/noarch         2MB
#46 101.5   + fontconfig                           2.14.2  h14ed4e7_0              conda-forge/linux-64     272kB
#46 101.5   + fonts-conda-ecosystem                     1  0                       conda-forge/noarch         4kB
#46 101.5   + fonts-conda-forge                         1  0                       conda-forge/noarch         4kB
#46 101.5   + fonttools                            4.38.0  py37h540881e_0          conda-forge/linux-64       2MB
#46 101.5   + freetype                             2.12.1  hca18f0e_1              conda-forge/linux-64     626kB
#46 101.5   + frozenlist                            1.3.1  py37h540881e_0          conda-forge/linux-64      45kB
#46 101.5   + gast                                  0.4.0  pyh9f0ad1d_0            conda-forge/noarch        12kB
#46 101.5   + gettext                              0.21.1  h27087fc_0              conda-forge/linux-64       4MB
#46 101.5   + giflib                                5.2.1  h0b41bf4_3              conda-forge/linux-64      77kB
#46 101.5   + glib                                 2.76.2  hfc55251_0              conda-forge/linux-64     484kB
#46 101.5   + glib-tools                           2.76.2  hfc55251_0              conda-forge/linux-64     112kB
#46 101.5   + gmp                                   6.2.1  h58526e2_0              conda-forge/linux-64     826kB
#46 101.5   + gnutls                                3.7.8  hf3e180e_0              conda-forge/linux-64       2MB
#46 101.5   + google-auth                          1.35.0  pyh6c4a22f_0            conda-forge/noarch        83kB
#46 101.5   + google-auth-oauthlib                  0.4.6  pyhd8ed1ab_0            conda-forge/noarch        19kB
#46 101.5   + google-pasta                          0.2.0  pyh8c360ce_0            conda-forge/noarch        43kB
#46 101.5   + grpc-cpp                             1.41.1  h75e9d12_2              conda-forge/linux-64       4MB
#46 101.5   + grpcio                               1.41.1  py37hb27c1af_1          conda-forge/linux-64       2MB
#46 101.5   + gst-plugins-base                     1.20.2  hcf0ee16_0              conda-forge/linux-64       3MB
#46 101.5   + gstreamer                            1.20.3  hd4edc92_2              conda-forge/linux-64       2MB
#46 101.5   + h5py                                  3.1.0  nompi_py37h1e651dc_100  conda-forge/linux-64       1MB
#46 101.5   + hdf5                                 1.10.6  nompi_h6a2412b_1114     conda-forge/linux-64       3MB
#46 101.5   + icu                                    69.1  h9c3ff4c_0              conda-forge/linux-64      14MB
#46 101.5   + idna                                    3.4  pyhd8ed1ab_0            conda-forge/noarch        57kB
#46 101.5   + importlib-metadata                   4.11.4  py37h89c1867_0          conda-forge/linux-64      34kB
#46 101.5   + importlib_resources                  5.12.0  pyhd8ed1ab_0            conda-forge/noarch        31kB
#46 101.5   + ipykernel                            6.14.0  py37h25bab4e_0          conda-forge/linux-64     190kB
#46 101.5   + ipython                              7.33.0  py37h89c1867_0          conda-forge/linux-64       1MB
#46 101.5   + ipython_genutils                      0.2.0  py_1                    conda-forge/noarch        22kB
#46 101.5   + ipywidgets                            7.7.0  pyhd8ed1ab_0            conda-forge/noarch       106kB
#46 101.5   + jedi                                 0.18.2  pyhd8ed1ab_0            conda-forge/noarch       804kB
#46 101.5   + jinja2                                3.1.2  pyhd8ed1ab_1            conda-forge/noarch       101kB
#46 101.5   + jmespath                              1.0.1  pyhd8ed1ab_0            conda-forge/noarch        21kB
#46 101.5   + joblib                                1.2.0  pyhd8ed1ab_0            conda-forge/noarch       210kB
#46 101.5   + jpeg                                     9e  h0b41bf4_3              conda-forge/linux-64     240kB
#46 101.5   + jsonschema                           4.17.3  pyhd8ed1ab_0            conda-forge/noarch        70kB
#46 101.5   + jupyter_client                        7.4.9  pyhd8ed1ab_0            conda-forge/noarch        99kB
#46 101.5   + jupyter_core                         4.11.1  py37h89c1867_0          conda-forge/linux-64      83kB
#46 101.5   + jupyter_server                       1.23.4  pyhd8ed1ab_0            conda-forge/noarch       244kB
#46 101.5   + jupyterlab_pygments                   0.2.2  pyhd8ed1ab_0            conda-forge/noarch        17kB
#46 101.5   + jupyterlab_widgets                    1.1.4  pyhd8ed1ab_0            conda-forge/noarch       114kB
#46 101.5   + keras                                 2.6.0  pyhd8ed1ab_1            conda-forge/noarch       842kB
#46 101.5   + keras-preprocessing                   1.1.2  pyhd8ed1ab_0            conda-forge/noarch        35kB
#46 101.5   + keyutils                              1.6.1  h166bdaf_0              conda-forge/linux-64     118kB
#46 101.5   + kiwisolver                            1.4.4  py37h7cecad7_0          conda-forge/linux-64      75kB
#46 101.5   + kombu                                 5.2.4  py37h89c1867_1          conda-forge/linux-64     292kB
#46 101.5   + krb5                                 1.20.1  hf9c8cef_0              conda-forge/linux-64       1MB
#46 101.5   + lame                                  3.100  h166bdaf_1003           conda-forge/linux-64     508kB
#46 101.5   + lcms2                                  2.14  h6ed2654_0              conda-forge/linux-64     262kB
#46 101.5   + ld_impl_linux-64                       2.40  h41732ed_0              conda-forge/linux-64     705kB
#46 101.5   + lerc                                  4.0.0  h27087fc_0              conda-forge/linux-64     282kB
#46 101.5   + libblas                               3.9.0  16_linux64_openblas     conda-forge/linux-64      13kB
#46 101.5   + libbrotlicommon                       1.0.9  h166bdaf_8              conda-forge/linux-64      67kB
#46 101.5   + libbrotlidec                          1.0.9  h166bdaf_8              conda-forge/linux-64      34kB
#46 101.5   + libbrotlienc                          1.0.9  h166bdaf_8              conda-forge/linux-64     295kB
#46 101.5   + libcblas                              3.9.0  16_linux64_openblas     conda-forge/linux-64      13kB
#46 101.5   + libclang                             13.0.1  default_had23c3d_1      conda-forge/linux-64       9MB
#46 101.5   + libcurl                              7.87.0  h6312ad2_0              conda-forge/linux-64     347kB
#46 101.5   + libdeflate                             1.14  h166bdaf_0              conda-forge/linux-64      83kB
#46 101.5   + libdrm                              2.4.114  h166bdaf_0              conda-forge/linux-64     305kB
#46 101.5   + libedit                        3.1.20191231  he28a2e2_2              conda-forge/linux-64     124kB
#46 101.5   + libev                                  4.33  h516909a_1              conda-forge/linux-64     106kB
#46 101.5   + libevent                             2.1.10  h9b69904_4              conda-forge/linux-64       1MB
#46 101.5   + libexpat                              2.5.0  hcb278e6_1              conda-forge/linux-64      78kB
#46 101.5   + libffi                                3.4.2  h7f98852_5              conda-forge/linux-64      58kB
#46 101.5   + libflac                               1.4.2  h27087fc_0              conda-forge/linux-64     421kB
#46 101.5   + libgcc-ng                            12.2.0  h65d4601_19             conda-forge/linux-64     954kB
#46 101.5   + libgfortran-ng                       12.2.0  h69a702a_19             conda-forge/linux-64      23kB
#46 101.5   + libgfortran5                         12.2.0  h337968e_19             conda-forge/linux-64       2MB
#46 101.5   + libglib                              2.76.2  hebfc3b9_0              conda-forge/linux-64       3MB
#46 101.5   + libgomp                              12.2.0  h65d4601_19             conda-forge/linux-64     466kB
#46 101.5   + libiconv                               1.17  h166bdaf_0              conda-forge/linux-64       1MB
#46 101.5   + libidn2                               2.3.4  h166bdaf_0              conda-forge/linux-64     160kB
#46 101.5   + liblapack                             3.9.0  16_linux64_openblas     conda-forge/linux-64      13kB
#46 101.5   + libllvm11                            11.1.0  he0ac6c6_5              conda-forge/linux-64      30MB
#46 101.5   + libllvm13                            13.0.1  hf817b99_2              conda-forge/linux-64      35MB
#46 101.5   + libnghttp2                           1.51.0  hdcd2b5c_0              conda-forge/linux-64     623kB
#46 101.5   + libnsl                                2.0.0  h7f98852_0              conda-forge/linux-64      31kB
#46 101.5   + libogg                                1.3.4  h7f98852_1              conda-forge/linux-64     211kB
#46 101.5   + libopenblas                          0.3.21  pthreads_h78a6416_3     conda-forge/linux-64      11MB
#46 101.5   + libopus                               1.3.1  h7f98852_1              conda-forge/linux-64     261kB
#46 101.5   + libpciaccess                           0.17  h166bdaf_0              conda-forge/linux-64      40kB
#46 101.5   + libpng                               1.6.39  h753d276_0              conda-forge/linux-64     283kB
#46 101.5   + libpq                                  14.5  h2baec63_5              conda-forge/linux-64       2MB
#46 101.5   + libprotobuf                          3.18.1  h780b84a_0              conda-forge/linux-64       3MB
#46 101.5   + librosa                               0.9.1  pyhd8ed1ab_0            conda-forge/noarch       157kB
#46 101.5   + libsndfile                            1.2.0  hb75c966_0              conda-forge/linux-64     350kB
#46 101.5   + libsodium                            1.0.18  h36c2ea0_1              conda-forge/linux-64     375kB
#46 101.5   + libsqlite                            3.40.0  h753d276_1              conda-forge/linux-64     804kB
#46 101.5   + libssh2                              1.10.0  haa6b8db_3              conda-forge/linux-64     239kB
#46 101.5   + libstdcxx-ng                         12.2.0  h46fd767_19             conda-forge/linux-64       4MB
#46 101.5   + libtasn1                             4.19.0  h166bdaf_0              conda-forge/linux-64     117kB
#46 101.5   + libtiff                               4.4.0  h82bc61c_5              conda-forge/linux-64     485kB
#46 101.5   + libunistring                         0.9.10  h7f98852_0              conda-forge/linux-64       1MB
#46 101.5   + libuuid                              2.38.1  h0b41bf4_0              conda-forge/linux-64      34kB
#46 101.5   + libva                                2.18.0  h0b41bf4_0              conda-forge/linux-64     187kB
#46 101.5   + libvorbis                             1.3.7  h9c3ff4c_0              conda-forge/linux-64     286kB
#46 101.5   + libvpx                               1.11.0  h9c3ff4c_3              conda-forge/linux-64       1MB
#46 101.5   + libwebp-base                          1.3.0  h0b41bf4_0              conda-forge/linux-64     357kB
#46 101.5   + libxcb                                 1.13  h7f98852_1004           conda-forge/linux-64     400kB
#46 101.5   + libxgboost                            1.6.2  cpu_ha3b9936_1          conda-forge/linux-64       4MB
#46 101.5   + libxkbcommon                          1.0.3  he3ba5ed_0              conda-forge/linux-64     595kB
#46 101.5   + libxml2                              2.9.14  haae042b_4              conda-forge/linux-64     737kB
#46 101.5   + libzlib                              1.2.13  h166bdaf_4              conda-forge/linux-64      66kB
#46 101.5   + llvmlite                             0.38.1  py37h0761922_0          conda-forge/linux-64       2MB
#46 101.5   + markdown                              3.4.3  pyhd8ed1ab_0            conda-forge/noarch        71kB
#46 101.5   + markupsafe                            2.1.1  py37h540881e_1          conda-forge/linux-64      23kB
#46 101.5   + matplotlib                            3.5.2  py37h06a4308_0          pkgs/main/linux-64         7kB
#46 101.5   + matplotlib-base                       3.5.2  py37hf590b9c_0          pkgs/main/linux-64         6MB
#46 101.5   + matplotlib-inline                     0.1.6  py37h06a4308_0          pkgs/main/linux-64        16kB
#46 101.5   + mistune                               2.0.5  pyhd8ed1ab_0            conda-forge/noarch        74kB
#46 101.5   + mpg123                               1.31.3  hcb278e6_0              conda-forge/linux-64     485kB
#46 101.5   + multidict                             6.0.2  py37h540881e_1          conda-forge/linux-64      50kB
#46 101.5   + munkres                               1.1.4  pyh9f0ad1d_0            conda-forge/noarch        12kB
#46 101.5   + mysql-common                         8.0.32  h14678bc_0              conda-forge/linux-64     803kB
#46 101.5   + mysql-libs                           8.0.32  h54cf53e_0              conda-forge/linux-64       2MB
#46 101.5   + nbclassic                             0.5.6  pyhb4ecaf3_1            conda-forge/noarch         6MB
#46 101.5   + nbclient                              0.7.0  pyhd8ed1ab_0            conda-forge/noarch        67kB
#46 101.5   + nbconvert                             7.3.1  pyhd8ed1ab_0            conda-forge/noarch         8kB
#46 101.5   + nbconvert-core                        7.3.1  pyhd8ed1ab_0            conda-forge/noarch       208kB
#46 101.5   + nbconvert-pandoc                      7.3.1  pyhd8ed1ab_0            conda-forge/noarch         7kB
#46 101.5   + nbformat                              5.8.0  pyhd8ed1ab_0            conda-forge/noarch       101kB
#46 101.5   + nccl                               2.15.5.1  h17a0586_0              conda-forge/linux-64      90MB
#46 101.5   + ncurses                                 6.3  h27087fc_1              conda-forge/linux-64       1MB
#46 101.5   + nest-asyncio                          1.5.6  pyhd8ed1ab_0            conda-forge/noarch        10kB
#46 101.5   + nettle                                3.8.1  hc379101_1              conda-forge/linux-64       1MB
#46 101.5   + notebook                              6.5.4  pyha770c72_0            conda-forge/noarch       306kB
#46 101.5   + notebook-shim                         0.2.3  pyhd8ed1ab_0            conda-forge/noarch        17kB
#46 101.5   + nspr                                   4.35  h27087fc_0              conda-forge/linux-64     227kB
#46 101.5   + nss                                    3.89  he45b914_0              conda-forge/linux-64       2MB
#46 101.5   + numba                                0.55.1  py37h2d894fd_0          conda-forge/linux-64       4MB
#46 101.5   + numpy                                1.19.5  py37h3e96413_3          conda-forge/linux-64       6MB
#46 101.5   + oauthlib                              3.2.2  pyhd8ed1ab_0            conda-forge/noarch        92kB
#46 101.5   + openh264                              2.3.1  hcb278e6_2              conda-forge/linux-64     719kB
#46 101.5   + openjpeg                              2.5.0  h7d73246_1              conda-forge/linux-64     546kB
#46 101.5   + openssl                              1.1.1t  h0b41bf4_0              conda-forge/linux-64       2MB
#46 101.5   + opt_einsum                            3.3.0  pyhd8ed1ab_1            conda-forge/noarch        54kB
#46 101.5   + p11-kit                              0.24.1  hc5aa10d_0              conda-forge/linux-64       5MB
#46 101.5   + packaging                              23.1  pyhd8ed1ab_0            conda-forge/noarch        46kB
#46 101.5   + pandas                                1.3.5  py37he8f5f7f_0          conda-forge/linux-64      13MB
#46 101.5   + pandoc                               2.19.2  h32600fe_2              conda-forge/linux-64      27MB
#46 101.5   + pandocfilters                         1.5.0  pyhd8ed1ab_0            conda-forge/noarch        12kB
#46 101.5   + parso                                 0.8.3  pyhd8ed1ab_0            conda-forge/noarch        71kB
#46 101.5   + pcre2                                 10.40  hc3806b6_0              conda-forge/linux-64       2MB
#46 101.5   + peakutils                             1.3.3  py_0                    conda-forge/noarch        10kB
#46 101.5   + pexpect                               4.8.0  pyh1a96a4e_2            conda-forge/noarch        49kB
#46 101.5   + pickleshare                           0.7.5  py_1003                 conda-forge/noarch         9kB
#46 101.5   + pillow                                9.2.0  py37h850a105_2          conda-forge/linux-64      47MB
#46 101.5   + pip                                  23.1.2  pyhd8ed1ab_0            conda-forge/noarch         1MB
#46 101.5   + pkgutil-resolve-name                 1.3.10  pyhd8ed1ab_0            conda-forge/noarch         9kB
#46 101.5   + platformdirs                          2.6.0  pyhd8ed1ab_0            conda-forge/noarch        17kB
#46 101.5   + pooch                                 1.7.0  pyha770c72_3            conda-forge/noarch        51kB
#46 101.5   + prometheus_client                    0.16.0  pyhd8ed1ab_0            conda-forge/noarch        52kB
#46 101.5   + prompt-toolkit                       3.0.38  pyha770c72_0            conda-forge/noarch       269kB
#46 101.5   + prompt_toolkit                       3.0.38  hd8ed1ab_0              conda-forge/noarch         6kB
#46 101.5   + protobuf                             3.18.1  py37hcd2ae1e_0          conda-forge/linux-64     353kB
#46 101.5   + psutil                                5.9.3  py37h540881e_0          conda-forge/linux-64     357kB
#46 101.5   + pthread-stubs                           0.4  h36c2ea0_1001           conda-forge/linux-64       6kB
#46 101.5   + ptyprocess                            0.7.0  pyhd3deb0d_0            conda-forge/noarch        17kB
#46 101.5   + py-xgboost                            1.6.2  cpu_py37h08536eb_1      conda-forge/linux-64     161kB
#46 101.5   + pyasn1                                0.4.8  py_0                    conda-forge/noarch        54kB
#46 101.5   + pyasn1-modules                        0.2.7  py_0                    conda-forge/noarch        61kB
#46 101.5   + pycparser                              2.21  pyhd8ed1ab_0            conda-forge/noarch       103kB
#46 101.5   + pygments                             2.15.1  pyhd8ed1ab_0            conda-forge/noarch       841kB
#46 101.5   + pyjwt                                 2.6.0  pyhd8ed1ab_0            conda-forge/noarch        21kB
#46 101.5   + pymongo                               4.1.1  py37hd23a5d3_0          conda-forge/linux-64       1MB
#46 101.5   + pyopenssl                            23.1.1  pyhd8ed1ab_0            conda-forge/noarch       128kB
#46 101.5   + pyparsing                             3.0.9  py37h06a4308_0          pkgs/main/linux-64       154kB
#46 101.5   + pyqt                                 5.12.3  py37h89c1867_8          conda-forge/linux-64      22kB
#46 101.5   + pyqt-impl                            5.12.3  py37hac37412_8          conda-forge/linux-64       6MB
#46 101.5   + pyqt5-sip                           4.19.18  py37hcd2ae1e_8          conda-forge/linux-64     317kB
#46 101.5   + pyqtchart                              5.12  py37he336c9b_8          conda-forge/linux-64     263kB
#46 101.5   + pyqtwebengine                        5.12.1  py37he336c9b_8          conda-forge/linux-64     179kB
#46 101.5   + pyrsistent                           0.18.1  py37h540881e_1          conda-forge/linux-64      93kB
#46 101.5   + pysocks                               1.7.1  py37h89c1867_5          conda-forge/linux-64      28kB
#46 101.5   + pysoundfile                          0.12.1  pyhd8ed1ab_0            conda-forge/noarch        28kB
#46 101.5   + python                               3.7.12  hb7a2778_100_cpython    conda-forge/linux-64      60MB
#46 101.5   + python-dateutil                       2.8.2  pyhd8ed1ab_0            conda-forge/noarch       246kB
#46 101.5   + python-fastjsonschema                2.16.3  pyhd8ed1ab_0            conda-forge/noarch       225kB
#46 101.5   + python-flatbuffers                     1.12  pyhd8ed1ab_1            conda-forge/noarch        20kB
#46 101.5   + python_abi                              3.7  3_cp37m                 conda-forge/linux-64       6kB
#46 101.5   + pytz                                 2023.3  pyhd8ed1ab_0            conda-forge/noarch       187kB
#46 101.5   + pyu2f                                 0.1.5  pyhd8ed1ab_0            conda-forge/noarch        32kB
#46 101.5   + pyzmq                                24.0.1  py37h0c0c2a8_0          conda-forge/linux-64     512kB
#46 101.5   + qgrid                                 1.3.1  py37h89c1867_2          conda-forge/linux-64       2MB
#46 101.5   + qt                                   5.12.9  h1304e3e_6              conda-forge/linux-64     103MB
#46 101.5   + re2                              2021.11.01  h9c3ff4c_0              conda-forge/linux-64     227kB
#46 101.5   + readline                                8.2  h8228510_1              conda-forge/linux-64     281kB
#46 101.5   + redis-py                              4.5.4  pyhd8ed1ab_0            conda-forge/noarch       164kB
#46 101.5   + requests                             2.29.0  pyhd8ed1ab_0            conda-forge/noarch        57kB
#46 101.5   + requests-oauthlib                     1.3.1  pyhd8ed1ab_0            conda-forge/noarch        22kB
#46 101.5   + resampy                               0.4.2  pyhd8ed1ab_0            conda-forge/noarch         3MB
#46 101.5   + rsa                                     4.9  pyhd8ed1ab_0            conda-forge/noarch        30kB
#46 101.5   + s3transfer                            0.6.0  pyhd8ed1ab_0            conda-forge/noarch        57kB
#46 101.5   + scikit-learn                          1.0.2  py37hf9e9bfc_0          conda-forge/linux-64       8MB
#46 101.5   + scipy                                 1.7.3  py37hf2a6cf1_0          conda-forge/linux-64      23MB
#46 101.5   + send2trash                            1.8.0  pyhd8ed1ab_0            conda-forge/noarch        18kB
#46 101.5   + setuptools                           59.8.0  py37h89c1867_1          conda-forge/linux-64       1MB
#46 101.5   + six                                  1.15.0  pyh9f0ad1d_0            conda-forge/noarch        14kB
#46 101.5   + snappy                               1.1.10  h9fff704_0              conda-forge/linux-64      39kB
#46 101.5   + sniffio                               1.3.0  pyhd8ed1ab_0            conda-forge/noarch        14kB
#46 101.5   + soupsieve                       2.3.2.post1  pyhd8ed1ab_0            conda-forge/noarch        35kB
#46 101.5   + sqlite                               3.40.0  h4ff8645_1              conda-forge/linux-64     791kB
#46 101.5   + svt-av1                               1.3.0  h27087fc_0              conda-forge/linux-64       4MB
#46 101.5   + tensorboard                           2.6.0  pyhd8ed1ab_1            conda-forge/noarch         5MB
#46 101.5   + tensorboard-data-server               0.6.0  py37h38fbfac_2          conda-forge/linux-64       3MB
#46 101.5   + tensorboard-plugin-wit                1.8.1  pyhd8ed1ab_0            conda-forge/noarch       685kB
#46 101.5   + tensorflow                            2.6.2  cuda110py37h4801193_1   conda-forge/linux-64      30kB
#46 101.5   + tensorflow-base                       2.6.2  cuda110py37h0ebe739_1   conda-forge/linux-64     299MB
#46 101.5   + tensorflow-estimator                  2.6.2  cuda110py37h4801193_1   conda-forge/linux-64     667kB
#46 101.5   + tensorflow-gpu                        2.6.2  cuda110py37h5b0ac8e_1   conda-forge/linux-64      30kB
#46 101.5   + termcolor                             1.1.0  pyhd8ed1ab_3            conda-forge/noarch         9kB
#46 101.5   + terminado                            0.15.0  py37h89c1867_0          conda-forge/linux-64      28kB
#46 101.5   + threadpoolctl                         3.1.0  pyh8a188c0_0            conda-forge/noarch        18kB
#46 101.5   + tinycss2                              1.2.1  pyhd8ed1ab_0            conda-forge/noarch        23kB
#46 101.5   + tk                                   8.6.12  h27826a3_0              conda-forge/linux-64       3MB
#46 101.5   + tornado                                 6.2  py37h540881e_0          conda-forge/linux-64     666kB
#46 101.5   + tqdm                                 4.64.1  py37h06a4308_0          pkgs/main/linux-64       129kB
#46 101.5   + traitlets                             5.9.0  pyhd8ed1ab_0            conda-forge/noarch        98kB
#46 101.5   + typing-extensions                   3.7.4.3  0                       conda-forge/noarch         8kB
#46 101.5   + typing_extensions                   3.7.4.3  py_0                    conda-forge/noarch        26kB
#46 101.5   + unicodedata2                         14.0.0  py37h540881e_1          conda-forge/linux-64     508kB
#46 101.5   + urllib3                             1.26.15  pyhd8ed1ab_0            conda-forge/noarch       113kB
#46 101.5   + vine                                  5.0.0  pyhd8ed1ab_1            conda-forge/noarch        12kB
#46 101.5   + wcwidth                               0.2.6  pyhd8ed1ab_0            conda-forge/noarch        29kB
#46 101.5   + webencodings                          0.5.1  py_1                    conda-forge/noarch        12kB
#46 101.5   + websocket-client                      1.5.1  pyhd8ed1ab_0            conda-forge/noarch        44kB
#46 101.5   + werkzeug                              2.2.3  pyhd8ed1ab_0            conda-forge/noarch       253kB
#46 101.5   + wheel                                0.40.0  pyhd8ed1ab_0            conda-forge/noarch        56kB
#46 101.5   + widgetsnbextension                    3.6.4  pyhd8ed1ab_0            conda-forge/noarch       645kB
#46 101.5   + wrapt                                1.12.1  py37h5e8e339_3          conda-forge/linux-64      48kB
#46 101.5   + x264                             1!164.3095  h166bdaf_2              conda-forge/linux-64     898kB
#46 101.5   + x265                                    3.5  h924138e_3              conda-forge/linux-64       3MB
#46 101.5   + xgboost                               1.6.2  cpu_py37h08536eb_1      conda-forge/linux-64      13kB
#46 101.5   + xorg-fixesproto                         5.0  h7f98852_1002           conda-forge/linux-64       9kB
#46 101.5   + xorg-kbproto                          1.0.7  h7f98852_1002           conda-forge/linux-64      27kB
#46 101.5   + xorg-libx11                           1.8.4  h0b41bf4_0              conda-forge/linux-64     830kB
#46 101.5   + xorg-libxau                           1.0.9  h7f98852_0              conda-forge/linux-64      13kB
#46 101.5   + xorg-libxdmcp                         1.1.3  h7f98852_0              conda-forge/linux-64      19kB
#46 101.5   + xorg-libxext                          1.3.4  h0b41bf4_2              conda-forge/linux-64      50kB
#46 101.5   + xorg-libxfixes                        5.0.3  h7f98852_1004           conda-forge/linux-64      18kB
#46 101.5   + xorg-xextproto                        7.3.0  h0b41bf4_1003           conda-forge/linux-64      30kB
#46 101.5   + xorg-xproto                          7.0.31  h7f98852_1007           conda-forge/linux-64      75kB
#46 101.5   + xz                                    5.2.6  h166bdaf_0              conda-forge/linux-64     418kB
#46 101.5   + yarl                                  1.7.2  py37h540881e_2          conda-forge/linux-64     135kB
#46 101.5   + zeromq                                4.3.4  h9c3ff4c_1              conda-forge/linux-64     360kB
#46 101.5   + zipp                                 3.15.0  pyhd8ed1ab_0            conda-forge/noarch        17kB
#46 101.5   + zlib                                 1.2.13  h166bdaf_4              conda-forge/linux-64      94kB
#46 101.5   + zstd                                  1.5.2  h3eb15da_6              conda-forge/linux-64     420kB
#46 101.5
#46 101.5   Summary:
#46 101.5
#46 101.5   Install: 309 packages
#46 101.5
#46 101.5   Total download: 2GB
#46 101.5
#46 101.5 ─────────────────────────────────────────────────────────────────────────────────────────────────────────
#46 101.5
#46 101.5
#46 101.5
#46 101.5 Transaction starting
#46 331.5 Linking _libgcc_mutex-0.1-conda_forge
#46 331.5 Linking libstdcxx-ng-12.2.0-h46fd767_19
#46 331.5 Linking python_abi-3.7-3_cp37m
#46 331.5 Linking ld_impl_linux-64-2.40-h41732ed_0
#46 331.5 Linking _py-xgboost-mutex-2.0-cpu_0
#46 331.5 Linking ca-certificates-2022.12.7-ha878542_0
#46 331.5 Linking libgfortran5-12.2.0-h337968e_19
#46 331.5 Linking libgomp-12.2.0-h65d4601_19
#46 331.5 Linking libgfortran-ng-12.2.0-h69a702a_19
#46 331.5 Linking _openmp_mutex-4.5-2_gnu
#46 331.5 Linking libgcc-ng-12.2.0-h65d4601_19
#46 331.5 Linking libunistring-0.9.10-h7f98852_0
#46 331.5 Linking xorg-libxdmcp-1.1.3-h7f98852_0
#46 331.5 Linking xorg-libxau-1.0.9-h7f98852_0
#46 331.5 Linking pthread-stubs-0.4-h36c2ea0_1001
#46 331.5 Linking libsodium-1.0.18-h36c2ea0_1
#46 331.5 Linking xorg-xproto-7.0.31-h7f98852_1007
#46 331.5 Linking xorg-kbproto-1.0.7-h7f98852_1002
#46 331.5 Linking libuuid-2.38.1-h0b41bf4_0
#46 331.5 Linking xorg-xextproto-7.3.0-h0b41bf4_1003
#46 331.5 Linking x265-3.5-h924138e_3
#46 331.5 Linking x264-1!164.3095-h166bdaf_2
#46 331.5 Linking openh264-2.3.1-hcb278e6_2
#46 331.5 Linking libvpx-1.11.0-h9c3ff4c_3
#46 331.5 Linking libpciaccess-0.17-h166bdaf_0
#46 331.5 Linking gmp-6.2.1-h58526e2_0
#46 331.5 Linking libtasn1-4.19.0-h166bdaf_0
#46 331.5 Linking bzip2-1.0.8-h7f98852_4
#46 331.5 Linking nspr-4.35-h27087fc_0
#46 331.5 Linking libev-4.33-h516909a_1
#46 331.5 Linking nettle-3.8.1-hc379101_1
#46 331.6 Linking svt-av1-1.3.0-h27087fc_0
#46 331.6 Linking aom-3.5.0-h27087fc_0
#46 331.6 Linking libexpat-2.5.0-hcb278e6_1
#46 331.6 Linking libbrotlicommon-1.0.9-h166bdaf_8
#46 331.6 Linking libiconv-1.17-h166bdaf_0
#46 331.6 Linking libwebp-base-1.3.0-h0b41bf4_0
#46 331.6 Linking libdeflate-1.14-h166bdaf_0
#46 331.6 Linking lerc-4.0.0-h27087fc_0
#46 331.6 Linking alsa-lib-1.2.3.2-h166bdaf_0
#46 331.6 Linking abseil-cpp-20210324.2-h9c3ff4c_0
#46 331.7 Linking c-ares-1.18.1-h7f98852_0
#46 331.7 Linking libopenblas-0.3.21-pthreads_h78a6416_3
#46 331.7 Linking xz-5.2.6-h166bdaf_0
#46 331.7 Linking ncurses-6.3-h27087fc_1
#46 333.6 Linking libnsl-2.0.0-h7f98852_0
#46 333.6 Linking libffi-3.4.2-h7f98852_5
#46 333.6 Linking snappy-1.1.10-h9fff704_0
#46 333.6 Linking keyutils-1.6.1-h166bdaf_0
#46 333.6 Linking jpeg-9e-h0b41bf4_3
#46 333.6 Linking re2-2021.11.01-h9c3ff4c_0
#46 333.6 Linking giflib-5.2.1-h0b41bf4_3
#46 333.6 Linking openssl-1.1.1t-h0b41bf4_0
#46 333.6 Linking cudatoolkit-11.0.3-h88f8997_11
#46 333.7
#46 333.7 error    libmamba response code: -1 error message: Invalid argument
#46 333.7 critical libmamba failed to execute pre/post link script for cudatoolkit
#46 ERROR: process "/usr/local/bin/_dockerfile_shell.sh micromamba install -y -n base -f /tmp/env.yaml &&     micromamba clean --all --yes" did not complete successfully: exit code: 1
------
 > [stage-1 21/21] RUN micromamba install -y -n base -f /tmp/env.yaml &&     micromamba clean --all --yes:
#46 333.6 Linking snappy-1.1.10-h9fff704_0
#46 333.6 Linking keyutils-1.6.1-h166bdaf_0
#46 333.6 Linking jpeg-9e-h0b41bf4_3
#46 333.6 Linking re2-2021.11.01-h9c3ff4c_0
#46 333.6 Linking giflib-5.2.1-h0b41bf4_3
#46 333.6 Linking openssl-1.1.1t-h0b41bf4_0
#46 333.6 Linking cudatoolkit-11.0.3-h88f8997_11
#46 333.7
#46 333.7 error    libmamba response code: -1 error message: Invalid argument
#46 333.7 critical libmamba failed to execute pre/post link script for cudatoolkit
------
ERROR: failed to solve: process "/usr/local/bin/_dockerfile_shell.sh micromamba install -y -n base -f /tmp/env.yaml &&     micromamba clean --all --yes" did not complete successfully: exit code: 1

environment.yml

name: machine_learning
channels:
  - conda-forge
  - defaults
dependencies:
  - redis-py
  - pip
  - boto3
  - botocore
  - celery=5.2.1=pyhd8ed1ab_0
  - h5py=3.1.0=nompi_py37h1e651dc_100
  - ipywidgets=7.7.0=pyhd8ed1ab_0
  - librosa=0.9.1=pyhd8ed1ab_0
  - matplotlib=3.5.2=py37h06a4308_0
  - matplotlib-base=3.5.2=py37hf590b9c_0
  - matplotlib-inline=0.1.6=py37h06a4308_0
  - numba=0.55.1=py37h2d894fd_0
  - numpy=1.19.5=py37h3e96413_3
  - pandas=1.3.5=py37he8f5f7f_0
  - peakutils=1.3.3=py_0
  - pymongo=4.1.1=py37hd23a5d3_0
  - pyparsing=3.0.9=py37h06a4308_0
  - qgrid=1.3.1=py37h89c1867_2
  - tensorflow=2.6.2=cuda110py37h4801193_1
  - tensorflow-base=2.6.2=cuda110py37h0ebe739_1
  - tensorflow-estimator=2.6.2=cuda110py37h4801193_1
  - tensorflow-gpu=2.6.2=cuda110py37h5b0ac8e_1
  - tqdm=4.64.1=py37h06a4308_0
  - xgboost=1.6.2=cpu_py37h08536eb_1
prefix: /home/bastian/.conda/envs/machine_learning

~/.condarc

No response
@jonashaag jonashaag added the type::bug Something isn't working label Apr 27, 2023
@chrisburr
Copy link
Contributor

This is due to MAX_FD_LIMIT in reproc++:

https://github.com/DaanDeMeyer/reproc/blob/9f399675b821e175f85ac3ee6e3fd2e6056573eb/reproc/src/process.posix.c#L266-L270

Setting a ulimit -n XXX to a number less than 1024*1024 works around the issue.

@jonashaag
Copy link
Collaborator

Is this something we can fix in libmamba?

@chrisburr chrisburr mentioned this issue Jun 8, 2023
Open
@chrisburr
Copy link
Contributor

I think the right solution is to fix it in reproc: DaanDeMeyer/reproc#103

@wholtz wholtz mentioned this issue Sep 5, 2023
Closed
@ParetoOptimalDev ParetoOptimalDev mentioned this issue Jan 4, 2024
Open
@eliasball eliasball mentioned this issue Jan 15, 2024
Closed
14 tasks
@marianne013 marianne013 mentioned this issue Jun 7, 2024
Open
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Assignees
No one assigned
Labels
type::bug Something isn't working
Projects
None yet
Milestone
No milestone
Development

No branches or pull requests
3 participants
@jonashaag @chrisburr @bastian-f