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Waiting for build to start... Picked Git content provider. Cloning into '/tmp/repo2dockeresr44na6'... HEAD is now at 1d53fd0 upd env Python version unspecified, using current default Python version 3.10. This will change in the future.Building conda environment for python=3.10 Using CondaBuildPack builder Step 1/50 : FROM docker.io/library/buildpack-deps:bionic ---> 0f137f206fa8 Step 2/50 : ENV DEBIAN_FRONTEND=noninteractive ---> Using cache ---> bba944dfb988 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 ---> e98c3e7d92ac Step 4/50 : RUN echo "en_US.UTF-8 UTF-8" > /etc/locale.gen && locale-gen ---> Using cache ---> 2dc2bd81abf0 Step 5/50 : ENV LC_ALL=en_US.UTF-8 LANG=en_US.UTF-8 LANGUAGE=en_US.UTF-8 ---> Using cache ---> d75d7f2f7020 Step 6/50 : ENV SHELL=/bin/bash ---> Using cache ---> 7f992770979e Step 7/50 : ARG NB_USER ---> Using cache ---> 64a707dcde01 Step 8/50 : ARG NB_UID ---> Using cache ---> 780141bd5277 Step 9/50 : ENV USER=${NB_USER} HOME=/home/${NB_USER} ---> Using cache ---> 73438e53529f 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} ${NB_USER} ---> Using cache ---> af8d94e6803b Step 11/50 : RUN apt-get -qq update && apt-get -qq install --yes --no-install-recommends gettext-base less unzip > /dev/null && apt-get -qq purge && apt-get -qq clean && rm -rf /var/lib/apt/lists/* ---> Using cache ---> 62f8f7527de3 Step 12/50 : EXPOSE 8888 ---> Using cache ---> 925f6abd6f38 Step 13/50 : ENV APP_BASE=/srv ---> Using cache ---> 39cb45cf4c59 Step 14/50 : ENV CONDA_DIR=${APP_BASE}/conda ---> Using cache ---> b13ca62ac252 Step 15/50 : ENV NB_PYTHON_PREFIX=${CONDA_DIR}/envs/notebook ---> Using cache ---> 9b63a896f51e Step 16/50 : ENV NPM_DIR=${APP_BASE}/npm ---> Using cache ---> 4e276c4cebc5 Step 17/50 : ENV NPM_CONFIG_GLOBALCONFIG=${NPM_DIR}/npmrc ---> Using cache ---> 16db19199fac Step 18/50 : ENV NB_ENVIRONMENT_FILE=/tmp/env/environment.lock ---> Using cache ---> 32ef8955b861 Step 19/50 : ENV MAMBA_ROOT_PREFIX=${CONDA_DIR} ---> Using cache ---> 7cf664c231ae Step 20/50 : ENV MAMBA_EXE=${CONDA_DIR}/bin/mamba ---> Using cache ---> b4c328c42a16 Step 21/50 : ENV CONDA_PLATFORM=linux-64 ---> Using cache ---> 2e7d4bec3b3e Step 22/50 : ENV KERNEL_PYTHON_PREFIX=${NB_PYTHON_PREFIX} ---> Using cache ---> 986892ace30b Step 23/50 : ENV PATH=${NB_PYTHON_PREFIX}/bin:${CONDA_DIR}/bin:${NPM_DIR}/bin:${PATH} ---> Using cache ---> 6a9af4798e82 Step 24/50 : COPY --chown=1000:1000 build_script_files/-2fusr-2flib-2fpython3-2e10-2fsite-2dpackages-2frepo2docker-2fbuildpacks-2fconda-2factivate-2dconda-2esh-44e764 /etc/profile.d/activate-conda.sh ---> Using cache ---> 7a1a491a5191 Step 25/50 : COPY --chown=1000:1000 build_script_files/-2fusr-2flib-2fpython3-2e10-2fsite-2dpackages-2frepo2docker-2fbuildpacks-2fconda-2fenvironment-2epy-2d3-2e10-2dlinux-2d64-2elock-388e0b /tmp/env/environment.lock ---> Using cache ---> 7fd865faf083 Step 26/50 : COPY --chown=1000:1000 build_script_files/-2fusr-2flib-2fpython3-2e10-2fsite-2dpackages-2frepo2docker-2fbuildpacks-2fconda-2finstall-2dbase-2denv-2ebash-e5509f /tmp/install-base-env.bash ---> Using cache ---> a350c5147cf1 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 ---> bf0dcd90ec3b Step 28/50 : RUN mkdir -p ${NPM_DIR} && chown -R ${NB_USER}:${NB_USER} ${NPM_DIR} ---> Using cache ---> 5310b87cc919 Step 29/50 : USER root ---> Using cache ---> 5dd7b3f5e998 Step 30/50 : ARG REPO_DIR=${HOME} ---> Using cache ---> 472e86879204 Step 31/50 : ENV REPO_DIR=${REPO_DIR} ---> Using cache ---> b20826705108 Step 32/50 : RUN if [ ! -d "${REPO_DIR}" ]; then /usr/bin/install -o ${NB_USER} -g ${NB_USER} -d "${REPO_DIR}"; fi ---> Using cache ---> 545b867917bc Step 33/50 : WORKDIR ${REPO_DIR} ---> Using cache ---> 6521c37f7187 Step 34/50 : RUN chown ${NB_USER}:${NB_USER} ${REPO_DIR} ---> Using cache ---> b216043d9cec Step 35/50 : ENV PATH=${HOME}/.local/bin:${REPO_DIR}/.local/bin:${PATH} ---> Using cache ---> 79f6a632cc7f Step 36/50 : ENV CONDA_DEFAULT_ENV=${KERNEL_PYTHON_PREFIX} ---> Using cache ---> e58d4d902480 Step 37/50 : COPY --chown=1000:1000 src/environment.yml ${REPO_DIR}/environment.yml ---> bbafb459100c Step 38/50 : USER ${NB_USER} ---> Running in 7af8c1f7a1a0 Removing intermediate container 7af8c1f7a1a0 ---> 36d3a222c744 Step 39/50 : RUN TIMEFORMAT='time: %3R' bash -c 'time ${MAMBA_EXE} env update -p ${NB_PYTHON_PREFIX} --file "environment.yml" && time ${MAMBA_EXE} clean --all -f -y && ${MAMBA_EXE} list -p ${NB_PYTHON_PREFIX} ' ---> Running in 3242ca266fd8
Looking for: ['snakemake-minimal=5.20.1', 'pandas=1.0.5', "sourmash[version='>=4,<5']"]
bash: line 1: 8 Segmentation fault (core dumped) ${MAMBA_EXE} env update -p ${NB_PYTHON_PREFIX} --file "environment.yml" time: 60.503 Removing intermediate container 3242ca266fd8 The command '/bin/sh -c TIMEFORMAT='time: %3R' bash -c 'time ${MAMBA_EXE} env update -p ${NB_PYTHON_PREFIX} --file "environment.yml" && time ${MAMBA_EXE} clean --all -f -y && ${MAMBA_EXE} list -p ${NB_PYTHON_PREFIX} '' returned a non-zero code: 139
The text was updated successfully, but these errors were encountered:
No branches or pull requests
Waiting for build to start...
Picked Git content provider.
Cloning into '/tmp/repo2dockeresr44na6'...
HEAD is now at 1d53fd0 upd env
Python version unspecified, using current default Python version 3.10. This will change in the future.Building conda environment for python=3.10
Using CondaBuildPack builder
Step 1/50 : FROM docker.io/library/buildpack-deps:bionic
---> 0f137f206fa8
Step 2/50 : ENV DEBIAN_FRONTEND=noninteractive
---> Using cache
---> bba944dfb988
Step 3/50 : RUN apt-get -qq update && apt-get -qq install --yes --no-install-recommends locales > /dev/null && apt-get -qq purge && apt-get -qq clean && rm -rf /var/lib/apt/lists/*
---> Using cache
---> e98c3e7d92ac
Step 4/50 : RUN echo "en_US.UTF-8 UTF-8" > /etc/locale.gen && locale-gen
---> Using cache
---> 2dc2bd81abf0
Step 5/50 : ENV LC_ALL=en_US.UTF-8 LANG=en_US.UTF-8 LANGUAGE=en_US.UTF-8
---> Using cache
---> d75d7f2f7020
Step 6/50 : ENV SHELL=/bin/bash
---> Using cache
---> 7f992770979e
Step 7/50 : ARG NB_USER
---> Using cache
---> 64a707dcde01
Step 8/50 : ARG NB_UID
---> Using cache
---> 780141bd5277
Step 9/50 : ENV USER=${NB_USER} HOME=/home/${NB_USER}
---> Using cache
---> 73438e53529f
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} ${NB_USER}
---> Using cache
---> af8d94e6803b
Step 11/50 : RUN apt-get -qq update && apt-get -qq install --yes --no-install-recommends gettext-base less unzip > /dev/null && apt-get -qq purge && apt-get -qq clean && rm -rf /var/lib/apt/lists/*
---> Using cache
---> 62f8f7527de3
Step 12/50 : EXPOSE 8888
---> Using cache
---> 925f6abd6f38
Step 13/50 : ENV APP_BASE=/srv
---> Using cache
---> 39cb45cf4c59
Step 14/50 : ENV CONDA_DIR=${APP_BASE}/conda
---> Using cache
---> b13ca62ac252
Step 15/50 : ENV NB_PYTHON_PREFIX=${CONDA_DIR}/envs/notebook
---> Using cache
---> 9b63a896f51e
Step 16/50 : ENV NPM_DIR=${APP_BASE}/npm
---> Using cache
---> 4e276c4cebc5
Step 17/50 : ENV NPM_CONFIG_GLOBALCONFIG=${NPM_DIR}/npmrc
---> Using cache
---> 16db19199fac
Step 18/50 : ENV NB_ENVIRONMENT_FILE=/tmp/env/environment.lock
---> Using cache
---> 32ef8955b861
Step 19/50 : ENV MAMBA_ROOT_PREFIX=${CONDA_DIR}
---> Using cache
---> 7cf664c231ae
Step 20/50 : ENV MAMBA_EXE=${CONDA_DIR}/bin/mamba
---> Using cache
---> b4c328c42a16
Step 21/50 : ENV CONDA_PLATFORM=linux-64
---> Using cache
---> 2e7d4bec3b3e
Step 22/50 : ENV KERNEL_PYTHON_PREFIX=${NB_PYTHON_PREFIX}
---> Using cache
---> 986892ace30b
Step 23/50 : ENV PATH=${NB_PYTHON_PREFIX}/bin:${CONDA_DIR}/bin:${NPM_DIR}/bin:${PATH}
---> Using cache
---> 6a9af4798e82
Step 24/50 : COPY --chown=1000:1000 build_script_files/-2fusr-2flib-2fpython3-2e10-2fsite-2dpackages-2frepo2docker-2fbuildpacks-2fconda-2factivate-2dconda-2esh-44e764 /etc/profile.d/activate-conda.sh
---> Using cache
---> 7a1a491a5191
Step 25/50 : COPY --chown=1000:1000 build_script_files/-2fusr-2flib-2fpython3-2e10-2fsite-2dpackages-2frepo2docker-2fbuildpacks-2fconda-2fenvironment-2epy-2d3-2e10-2dlinux-2d64-2elock-388e0b /tmp/env/environment.lock
---> Using cache
---> 7fd865faf083
Step 26/50 : COPY --chown=1000:1000 build_script_files/-2fusr-2flib-2fpython3-2e10-2fsite-2dpackages-2frepo2docker-2fbuildpacks-2fconda-2finstall-2dbase-2denv-2ebash-e5509f /tmp/install-base-env.bash
---> Using cache
---> a350c5147cf1
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
---> bf0dcd90ec3b
Step 28/50 : RUN mkdir -p ${NPM_DIR} && chown -R ${NB_USER}:${NB_USER} ${NPM_DIR}
---> Using cache
---> 5310b87cc919
Step 29/50 : USER root
---> Using cache
---> 5dd7b3f5e998
Step 30/50 : ARG REPO_DIR=${HOME}
---> Using cache
---> 472e86879204
Step 31/50 : ENV REPO_DIR=${REPO_DIR}
---> Using cache
---> b20826705108
Step 32/50 : RUN if [ ! -d "${REPO_DIR}" ]; then /usr/bin/install -o ${NB_USER} -g ${NB_USER} -d "${REPO_DIR}"; fi
---> Using cache
---> 545b867917bc
Step 33/50 : WORKDIR ${REPO_DIR}
---> Using cache
---> 6521c37f7187
Step 34/50 : RUN chown ${NB_USER}:${NB_USER} ${REPO_DIR}
---> Using cache
---> b216043d9cec
Step 35/50 : ENV PATH=${HOME}/.local/bin:${REPO_DIR}/.local/bin:${PATH}
---> Using cache
---> 79f6a632cc7f
Step 36/50 : ENV CONDA_DEFAULT_ENV=${KERNEL_PYTHON_PREFIX}
---> Using cache
---> e58d4d902480
Step 37/50 : COPY --chown=1000:1000 src/environment.yml ${REPO_DIR}/environment.yml
---> bbafb459100c
Step 38/50 : USER ${NB_USER}
---> Running in 7af8c1f7a1a0
Removing intermediate container 7af8c1f7a1a0
---> 36d3a222c744
Step 39/50 : RUN TIMEFORMAT='time: %3R' bash -c 'time ${MAMBA_EXE} env update -p ${NB_PYTHON_PREFIX} --file "environment.yml" && time ${MAMBA_EXE} clean --all -f -y && ${MAMBA_EXE} list -p ${NB_PYTHON_PREFIX} '
---> Running in 3242ca266fd8
Looking for: ['snakemake-minimal=5.20.1', 'pandas=1.0.5', "sourmash[version='>=4,<5']"]
bash: line 1: 8 Segmentation fault (core dumped) ${MAMBA_EXE} env update -p ${NB_PYTHON_PREFIX} --file "environment.yml"
time: 60.503
Removing intermediate container 3242ca266fd8
The command '/bin/sh -c TIMEFORMAT='time: %3R' bash -c 'time ${MAMBA_EXE} env update -p ${NB_PYTHON_PREFIX} --file "environment.yml" && time ${MAMBA_EXE} clean --all -f -y && ${MAMBA_EXE} list -p ${NB_PYTHON_PREFIX} '' returned a non-zero code: 139
The text was updated successfully, but these errors were encountered: