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AERAdler / cmb_cal_todcal

Calibrating some timestreams in an environment generated with binder
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Binder fails on launch #1

Open AERAdler opened 4 hours ago

AERAdler commented 4 hours ago

Binder doesn't launch? https://mybinder.org/v2/gh/AERAdler/cmb_cal_todcal/HEAD @zonca

zonca commented 3 hours ago

screenshot of error?

zonca commented 3 hours ago

I am also trying myself, the image seems to build with no errors, it is probably very large, so it takes forever to push.

zonca commented 3 hours ago

pasting the build log here for future reference

Waiting for build to start...
Picked Git content provider.
Cloning into '/tmp/repo2docker4it9n2m8'...
HEAD is now at 17a9a59 Create README.md
Python version unspecified, using current default Python version 3.10. This will change in the future.Building conda environment for python=3.10
Using PythonBuildPack builder
Step 1/50 : FROM docker.io/library/buildpack-deps:jammy
 ---> 760f30692921
Step 2/50 : ENV DEBIAN_FRONTEND=noninteractive
 ---> Using cache
 ---> 685f85025c33
Step 3/50 : RUN apt-get -qq update &&     apt-get -qq install --yes --no-install-recommends locales > /dev/null &&     apt-get -qq purge &&     apt-get -qq clean &&     rm -rf /var/lib/apt/lists/*
 ---> Using cache
 ---> 539ddca62782
Step 4/50 : RUN echo "en_US.UTF-8 UTF-8" > /etc/locale.gen &&     locale-gen
 ---> Using cache
 ---> eede3e2cdd2b
Step 5/50 : ENV LC_ALL=en_US.UTF-8     LANG=en_US.UTF-8     LANGUAGE=en_US.UTF-8
 ---> Using cache
 ---> 5868b879ef1b
Step 6/50 : ENV SHELL=/bin/bash
 ---> Using cache
 ---> 93ff8c453244
Step 7/50 : ARG NB_USER
 ---> Using cache
 ---> f8f18a5b1c8a
Step 8/50 : ARG NB_UID
 ---> Using cache
 ---> 051e240eb200
Step 9/50 : ENV USER=${NB_USER}     HOME=/home/${NB_USER}
 ---> Using cache
 ---> 92677e4216cd
Step 10/50 : RUN groupadd         --gid ${NB_UID}         ${NB_USER} &&     useradd         --comment "Default user"         --create-home         --gid ${NB_UID}         --no-log-init         --shell /bin/bash         --uid ${NB_UID}         ${NB_USER}
 ---> Using cache
 ---> 86b29218bfbd
Step 11/50 : RUN apt-get -qq update &&     apt-get -qq install --yes --no-install-recommends        gettext-base        less        unzip        > /dev/null &&     apt-get -qq purge &&     apt-get -qq clean &&     rm -rf /var/lib/apt/lists/*
 ---> Using cache
 ---> 254d4435c313
Step 12/50 : EXPOSE 8888
 ---> Using cache
 ---> 924fcef2cb55
Step 13/50 : ENV APP_BASE=/srv
 ---> Using cache
 ---> 46d6eef2adfe
Step 14/50 : ENV CONDA_DIR=${APP_BASE}/conda
 ---> Using cache
 ---> ae098e6d8eef
Step 15/50 : ENV NB_PYTHON_PREFIX=${CONDA_DIR}/envs/notebook
 ---> Using cache
 ---> 651bc09206bc
Step 16/50 : ENV NPM_DIR=${APP_BASE}/npm
 ---> Using cache
 ---> 6f07237520f4
Step 17/50 : ENV NPM_CONFIG_GLOBALCONFIG=${NPM_DIR}/npmrc
 ---> Using cache
 ---> bcb500c01f59
Step 18/50 : ENV NB_ENVIRONMENT_FILE=/tmp/env/environment.lock
 ---> Using cache
 ---> ce022286d78a
Step 19/50 : ENV MAMBA_ROOT_PREFIX=${CONDA_DIR}
 ---> Using cache
 ---> f40d252ae414
Step 20/50 : ENV MAMBA_EXE=${CONDA_DIR}/bin/mamba
 ---> Using cache
 ---> 5ea33aac863c
Step 21/50 : ENV CONDA_PLATFORM=linux-64
 ---> Using cache
 ---> d42c607ca786
Step 22/50 : ENV KERNEL_PYTHON_PREFIX=${NB_PYTHON_PREFIX}
 ---> Using cache
 ---> 68e09cd7799b
Step 23/50 : ENV PATH=${NB_PYTHON_PREFIX}/bin:${CONDA_DIR}/bin:${NPM_DIR}/bin:${PATH}
 ---> Using cache
 ---> 9090c8cab51c
Step 24/50 : COPY --chown=1000:1000 build_script_files/-2fopt-2fvenv-2flib-2fpython3-2e11-2fsite-2dpackages-2frepo2docker-2fbuildpacks-2fconda-2factivate-2dconda-2esh-e70a7b /etc/profile.d/activate-conda.sh
 ---> Using cache
 ---> a50f3ca32ebb
Step 25/50 : COPY --chown=1000:1000 build_script_files/-2fopt-2fvenv-2flib-2fpython3-2e11-2fsite-2dpackages-2frepo2docker-2fbuildpacks-2fconda-2fenvironment-2epy-2d3-2e10-2dlinux-2d64-2elock-8fa955 /tmp/env/environment.lock
 ---> Using cache
 ---> 492edad2ce7b
Step 26/50 : COPY --chown=1000:1000 build_script_files/-2fopt-2fvenv-2flib-2fpython3-2e11-2fsite-2dpackages-2frepo2docker-2fbuildpacks-2fconda-2finstall-2dbase-2denv-2ebash-6a6072 /tmp/install-base-env.bash
 ---> Using cache
 ---> 8567259d861d
Step 27/50 : RUN TIMEFORMAT='time: %3R' bash -c 'time /tmp/install-base-env.bash' && rm -rf /tmp/install-base-env.bash /tmp/env
 ---> Using cache
 ---> 94d9c96dfce7
Step 28/50 : RUN mkdir -p ${NPM_DIR} && chown -R ${NB_USER}:${NB_USER} ${NPM_DIR}
 ---> Using cache
 ---> c65c4e49ebcd
Step 29/50 : USER root
 ---> Using cache
 ---> 02c95b8d3183
Step 30/50 : ARG REPO_DIR=${HOME}
 ---> Using cache
 ---> 3561748d0467
Step 31/50 : ENV REPO_DIR=${REPO_DIR}
 ---> Using cache
 ---> 97258b2b2ab7
Step 32/50 : RUN if [ ! -d "${REPO_DIR}" ]; then         /usr/bin/install -o ${NB_USER} -g ${NB_USER} -d "${REPO_DIR}";     fi
 ---> Using cache
 ---> 460ee5d49b3e
Step 33/50 : WORKDIR ${REPO_DIR}
 ---> Using cache
 ---> 29a62b16a61e
Step 34/50 : RUN chown ${NB_USER}:${NB_USER} ${REPO_DIR}
 ---> Using cache
 ---> a02648c113f7
Step 35/50 : ENV PATH=${HOME}/.local/bin:${REPO_DIR}/.local/bin:${PATH}
 ---> Using cache
 ---> a941641afdc3
Step 36/50 : ENV CONDA_DEFAULT_ENV=${KERNEL_PYTHON_PREFIX}
 ---> Using cache
 ---> f3b34a87f6c5
Step 37/50 : COPY --chown=1000:1000 src/requirements.txt ${REPO_DIR}/requirements.txt
 ---> 20163c07fd01
Step 38/50 : USER ${NB_USER}
 ---> Running in dad9f88011ce
 ---> Removed intermediate container dad9f88011ce
 ---> c346443ccca9
Step 39/50 : RUN ${KERNEL_PYTHON_PREFIX}/bin/pip install --no-cache-dir -r "requirements.txt"
 ---> Running in b3b721cfef0f
Collecting numpy==1.26.0 (from -r requirements.txt (line 1))
  Downloading numpy-1.26.0-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (58 kB)
Collecting matplotlib==3.9.2 (from -r requirements.txt (line 2))
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Collecting scipy==1.14.1 (from -r requirements.txt (line 3))
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Collecting healpy==1.17.3 (from -r requirements.txt (line 4))
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Collecting astropy==6.1.4 (from -r requirements.txt (line 5))
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Collecting so3g==0.1.15 (from -r requirements.txt (line 7))
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Collecting pandas==2.2.3 (from -r requirements.txt (line 9))
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Collecting tables==3.10.1 (from -r requirements.txt (line 10))
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Collecting contourpy>=1.0.1 (from matplotlib==3.9.2->-r requirements.txt (line 2))
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Collecting cycler>=0.10 (from matplotlib==3.9.2->-r requirements.txt (line 2))
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Collecting fonttools>=4.22.0 (from matplotlib==3.9.2->-r requirements.txt (line 2))
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Collecting kiwisolver>=1.3.1 (from matplotlib==3.9.2->-r requirements.txt (line 2))
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Requirement already satisfied: packaging>=20.0 in /srv/conda/envs/notebook/lib/python3.10/site-packages (from matplotlib==3.9.2->-r requirements.txt (line 2)) (24.1)
Collecting pillow>=8 (from matplotlib==3.9.2->-r requirements.txt (line 2))
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Collecting pyparsing>=2.3.1 (from matplotlib==3.9.2->-r requirements.txt (line 2))
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Requirement already satisfied: python-dateutil>=2.7 in /srv/conda/envs/notebook/lib/python3.10/site-packages (from matplotlib==3.9.2->-r requirements.txt (line 2)) (2.9.0)
Collecting pyerfa>=2.0.1.1 (from astropy==6.1.4->-r requirements.txt (line 5))
  Downloading pyerfa-2.0.1.4-cp39-abi3-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (5.7 kB)
Collecting astropy-iers-data>=0.2024.8.27.10.28.29 (from astropy==6.1.4->-r requirements.txt (line 5))
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Requirement already satisfied: PyYAML>=3.13 in /srv/conda/envs/notebook/lib/python3.10/site-packages (from astropy==6.1.4->-r requirements.txt (line 5)) (6.0.2)
Collecting numba (from pysm3==3.4.0->-r requirements.txt (line 6))
  Downloading numba-0.60.0-cp310-cp310-manylinux2014_x86_64.manylinux_2_17_x86_64.whl.metadata (2.7 kB)
Collecting toml (from pysm3==3.4.0->-r requirements.txt (line 6))
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Collecting ephem (from so3g==0.1.15->-r requirements.txt (line 7))
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Requirement already satisfied: pytz in /srv/conda/envs/notebook/lib/python3.10/site-packages (from so3g==0.1.15->-r requirements.txt (line 7)) (2024.1)
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Requirement already satisfied: sqlalchemy in /srv/conda/envs/notebook/lib/python3.10/site-packages (from so3g==0.1.15->-r requirements.txt (line 7)) (2.0.32)
Collecting pysqlite3-wheels (from so3g==0.1.15->-r requirements.txt (line 7))
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Collecting tzdata>=2022.7 (from pandas==2.2.3->-r requirements.txt (line 9))
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Collecting numexpr>=2.6.2 (from tables==3.10.1->-r requirements.txt (line 10))
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Collecting blosc2>=2.3.0 (from tables==3.10.1->-r requirements.txt (line 10))
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Collecting ndindex>=1.4 (from blosc2>=2.3.0->tables==3.10.1->-r requirements.txt (line 10))
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Collecting msgpack (from blosc2>=2.3.0->tables==3.10.1->-r requirements.txt (line 10))
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Requirement already satisfied: six>=1.5 in /srv/conda/envs/notebook/lib/python3.10/site-packages (from python-dateutil>=2.7->matplotlib==3.9.2->-r requirements.txt (line 2)) (1.16.0)
Collecting llvmlite<0.44,>=0.43.0dev0 (from numba->pysm3==3.4.0->-r requirements.txt (line 6))
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Requirement already satisfied: greenlet!=0.4.17 in /srv/conda/envs/notebook/lib/python3.10/site-packages (from sqlalchemy->so3g==0.1.15->-r requirements.txt (line 7)) (3.0.3)
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Installing collected packages: pysqlite3-wheels, py-cpuinfo, ephem, tzdata, tqdm, toml, pyparsing, pyaml, pillow, numpy, ndindex, msgpack, llvmlite, kiwisolver, fonttools, cycler, astropy-iers-data, scipy, qpoint, pyerfa, pandas, numexpr, numba, h5py, contourpy, matplotlib, blosc2, astropy, tables, so3g, healpy, pysm3
Successfully installed astropy-6.1.4 astropy-iers-data-0.2024.10.21.0.33.21 blosc2-2.7.1 contourpy-1.3.0 cycler-0.12.1 ephem-4.1.6 fonttools-4.54.1 h5py-3.12.1 healpy-1.17.3 kiwisolver-1.4.7 llvmlite-0.43.0 matplotlib-3.9.2 msgpack-1.1.0 ndindex-1.9.2 numba-0.60.0 numexpr-2.10.1 numpy-1.26.0 pandas-2.2.3 pillow-11.0.0 py-cpuinfo-9.0.0 pyaml-24.9.0 pyerfa-2.0.1.4 pyparsing-3.2.0 pysm3-3.4.0 pysqlite3-wheels-0.5.0 qpoint-1.12.4 scipy-1.14.1 so3g-0.1.15 tables-3.10.1 toml-0.10.2 tqdm-4.66.5 tzdata-2024.2
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Step 40/50 : USER root
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Step 41/50 : COPY --chown=1000:1000 src/ ${REPO_DIR}/
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Step 42/50 : LABEL repo2docker.ref="17a9a594c87e2109ac1e4701ca80239a50507e11"
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Step 43/50 : LABEL repo2docker.repo="https://github.com/AERAdler/cmb_cal_todcal"
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Step 44/50 : LABEL repo2docker.version="2024.07.0+28.g239c4f5"
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Step 45/50 : USER ${NB_USER}
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Step 46/50 : ENV PYTHONUNBUFFERED=1
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Step 47/50 : COPY /python3-login /usr/local/bin/python3-login
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Step 48/50 : COPY /repo2docker-entrypoint /usr/local/bin/repo2docker-entrypoint
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Step 49/50 : ENTRYPOINT ["/usr/local/bin/repo2docker-entrypoint"]
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Step 50/50 : CMD ["jupyter", "notebook", "--ip", "0.0.0.0"]
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{"aux": {"ID": "sha256:9712e6ffb097b5239c0c83aede57b7f2564335cf9c06299b1bafe388f44ecfcc"}}Successfully built 9712e6ffb097
Successfully tagged gesiscss/binder-r2d-g5b5b759-aeradler-2dcmb-5fcal-5ftodcal-0f030b:17a9a594c87e2109ac1e4701ca80239a50507e11
zonca commented 3 hours ago

@AERAdler it worked fine for me, it just takes a long time to push the container, however, this is done only the first time a version of the repo is built

zonca commented 3 hours ago

image

AERAdler commented 3 hours ago

Ok, I could get it to launch, previously it timed out several times. I'll see how I can add sotodlib to the binder

zonca commented 3 hours ago

@AERAdler also make sure 1-2 GB of RAM are enough: https://mybinder.readthedocs.io/en/latest/about/user-guidelines.html#how-much-memory-am-i-given-when-using-binder

zonca commented 3 hours ago

it could also be useful to split the notebook in multiple notebooks and remind the students to close the previous kernel.