############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data MOFA2 ### ############################################################################## ############################################################################## * checking for file ‘MOFA2/DESCRIPTION’ ... OK * preparing ‘MOFA2’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘MEFISTO_temporal.Rmd’ using rmarkdown Channels: - conda-forge Platform: linux-aarch64 Collecting package metadata (repodata.json): ...working... done Solving environment: ...working... done ## Package Plan ## environment location: /home/biocbuild/.cache/R/basilisk/1.19.3/MOFA2/1.17.0/mofa_env added / updated specs: - python=3.10.5 The following packages will be downloaded: package | build ---------------------------|----------------- python-3.10.5 |h92ab765_0_cpython 13.0 MB conda-forge ------------------------------------------------------------ Total: 13.0 MB The following NEW packages will be INSTALLED: _openmp_mutex conda-forge/linux-aarch64::_openmp_mutex-4.5-2_gnu bzip2 conda-forge/linux-aarch64::bzip2-1.0.8-h68df207_7 ca-certificates conda-forge/linux-aarch64::ca-certificates-2025.1.31-hcefe29a_0 ld_impl_linux-aar~ conda-forge/linux-aarch64::ld_impl_linux-aarch64-2.43-h80caac9_4 libffi conda-forge/linux-aarch64::libffi-3.4.6-he21f813_0 libgcc conda-forge/linux-aarch64::libgcc-14.2.0-he277a41_2 libgcc-ng conda-forge/linux-aarch64::libgcc-ng-14.2.0-he9431aa_2 libgomp conda-forge/linux-aarch64::libgomp-14.2.0-he277a41_2 liblzma conda-forge/linux-aarch64::liblzma-5.6.4-h86ecc28_0 liblzma-devel conda-forge/linux-aarch64::liblzma-devel-5.6.4-h86ecc28_0 libnsl conda-forge/linux-aarch64::libnsl-2.0.1-h31becfc_0 libsqlite conda-forge/linux-aarch64::libsqlite-3.49.1-h5eb1b54_2 libuuid conda-forge/linux-aarch64::libuuid-2.38.1-hb4cce97_0 libzlib conda-forge/linux-aarch64::libzlib-1.3.1-h86ecc28_2 ncurses conda-forge/linux-aarch64::ncurses-6.5-ha32ae93_3 openssl conda-forge/linux-aarch64::openssl-3.4.1-hd08dc88_0 pip conda-forge/noarch::pip-25.0.1-pyh8b19718_0 python conda-forge/linux-aarch64::python-3.10.5-h92ab765_0_cpython readline conda-forge/linux-aarch64::readline-8.2-h8382b9d_2 setuptools conda-forge/noarch::setuptools-75.8.2-pyhff2d567_0 sqlite conda-forge/linux-aarch64::sqlite-3.49.1-h578a6b9_2 tk conda-forge/linux-aarch64::tk-8.6.13-h194ca79_0 tzdata conda-forge/noarch::tzdata-2025a-h78e105d_0 wheel conda-forge/noarch::wheel-0.45.1-pyhd8ed1ab_1 xz conda-forge/linux-aarch64::xz-5.6.4-h2dbfc1b_0 xz-gpl-tools conda-forge/linux-aarch64::xz-gpl-tools-5.6.4-h2dbfc1b_0 xz-tools conda-forge/linux-aarch64::xz-tools-5.6.4-h86ecc28_0 Preparing transaction: ...working... done Verifying transaction: ...working... done Executing transaction: ...working... done Channels: - conda-forge Platform: linux-aarch64 Collecting package metadata (repodata.json): ...working... done Solving environment: ...working... done ==> WARNING: A newer version of conda exists. <== current version: 24.11.3 latest version: 25.1.1 Please update conda by running $ conda update -n base -c conda-forge conda # All requested packages already installed. Channels: - conda-forge Platform: linux-aarch64 Collecting package metadata (repodata.json): ...working... done Solving environment: ...working... done ==> WARNING: A newer version of conda exists. <== current version: 24.11.3 latest version: 25.1.1 Please update conda by running $ conda update -n base -c conda-forge conda ## Package Plan ## environment location: /home/biocbuild/.cache/R/basilisk/1.19.3/MOFA2/1.17.0/mofa_env added / updated specs: - dtw-python=1.2.2 - h5py=3.6.0 - numpy=1.23.1 - pandas=1.4.3 - python[version='3.10.5.*,3.10.5.*'] - scikit-learn=1.1.1 - scipy=1.8.1 The following packages will be downloaded: package | build ---------------------------|----------------- dtw-python-1.2.2 | py310h761cc84_0 263 KB conda-forge h5py-3.6.0 |nompi_py310hd005ad3_100 6.6 MB conda-forge hdf5-1.12.1 |nompi_h3900512_104 3.9 MB conda-forge libblas-3.9.0 |20_linuxaarch64_openblas 14 KB conda-forge libcblas-3.9.0 |20_linuxaarch64_openblas 14 KB conda-forge libcurl-8.8.0 | h4e8248e_1 412 KB conda-forge liblapack-3.9.0 |20_linuxaarch64_openblas 14 KB conda-forge libnghttp2-1.58.0 | hb0e430d_1 662 KB conda-forge libopenblas-0.3.25 |pthreads_h5a5ec62_0 4.3 MB conda-forge libsqlite-3.46.0 | hf51ef55_0 1019 KB conda-forge libssh2-1.11.0 | h492db2e_0 278 KB conda-forge libzlib-1.2.13 | h68df207_6 66 KB conda-forge numpy-1.23.1 | py310he617cf3_0 6.6 MB conda-forge pandas-1.4.3 | py310h9e1bc84_0 12.1 MB conda-forge python_abi-3.10 | 5_cp310 6 KB conda-forge scikit-learn-1.1.1 | py310h960e1e0_0 8.0 MB conda-forge scipy-1.8.1 | py310hdd6f644_3 24.7 MB conda-forge sqlite-3.46.0 | hdc7ab3c_0 1.0 MB conda-forge zlib-1.2.13 | h68df207_6 94 KB conda-forge ------------------------------------------------------------ Total: 70.0 MB The following NEW packages will be INSTALLED: c-ares conda-forge/linux-aarch64::c-ares-1.34.4-h86ecc28_0 cached-property conda-forge/noarch::cached-property-1.5.2-hd8ed1ab_1 cached_property conda-forge/noarch::cached_property-1.5.2-pyha770c72_1 dtw-python conda-forge/linux-aarch64::dtw-python-1.2.2-py310h761cc84_0 h5py conda-forge/linux-aarch64::h5py-3.6.0-nompi_py310hd005ad3_100 hdf5 conda-forge/linux-aarch64::hdf5-1.12.1-nompi_h3900512_104 joblib conda-forge/noarch::joblib-1.4.2-pyhd8ed1ab_1 keyutils conda-forge/linux-aarch64::keyutils-1.6.1-h4e544f5_0 krb5 conda-forge/linux-aarch64::krb5-1.21.3-h50a48e9_0 libblas conda-forge/linux-aarch64::libblas-3.9.0-20_linuxaarch64_openblas libcblas conda-forge/linux-aarch64::libcblas-3.9.0-20_linuxaarch64_openblas libcurl conda-forge/linux-aarch64::libcurl-8.8.0-h4e8248e_1 libedit conda-forge/linux-aarch64::libedit-3.1.20250104-pl5321h976ea20_0 libev conda-forge/linux-aarch64::libev-4.33-h31becfc_2 libgfortran conda-forge/linux-aarch64::libgfortran-14.2.0-he9431aa_2 libgfortran-ng conda-forge/linux-aarch64::libgfortran-ng-14.2.0-he9431aa_2 libgfortran5 conda-forge/linux-aarch64::libgfortran5-14.2.0-hb6113d0_2 liblapack conda-forge/linux-aarch64::liblapack-3.9.0-20_linuxaarch64_openblas libnghttp2 conda-forge/linux-aarch64::libnghttp2-1.58.0-hb0e430d_1 libopenblas conda-forge/linux-aarch64::libopenblas-0.3.25-pthreads_h5a5ec62_0 libssh2 conda-forge/linux-aarch64::libssh2-1.11.0-h492db2e_0 libstdcxx conda-forge/linux-aarch64::libstdcxx-14.2.0-h3f4de04_2 libstdcxx-ng conda-forge/linux-aarch64::libstdcxx-ng-14.2.0-hf1166c9_2 numpy conda-forge/linux-aarch64::numpy-1.23.1-py310he617cf3_0 pandas conda-forge/linux-aarch64::pandas-1.4.3-py310h9e1bc84_0 python-dateutil conda-forge/noarch::python-dateutil-2.9.0.post0-pyhff2d567_1 python_abi conda-forge/linux-aarch64::python_abi-3.10-5_cp310 pytz conda-forge/noarch::pytz-2025.1-pyhd8ed1ab_0 scikit-learn conda-forge/linux-aarch64::scikit-learn-1.1.1-py310h960e1e0_0 scipy conda-forge/linux-aarch64::scipy-1.8.1-py310hdd6f644_3 six conda-forge/noarch::six-1.17.0-pyhd8ed1ab_0 threadpoolctl conda-forge/noarch::threadpoolctl-3.6.0-pyhecae5ae_0 zlib conda-forge/linux-aarch64::zlib-1.2.13-h68df207_6 zstd conda-forge/linux-aarch64::zstd-1.5.6-h02f22dd_0 The following packages will be DOWNGRADED: libsqlite 3.49.1-h5eb1b54_2 --> 3.46.0-hf51ef55_0 libzlib 1.3.1-h86ecc28_2 --> 1.2.13-h68df207_6 sqlite 3.49.1-h578a6b9_2 --> 3.46.0-hdc7ab3c_0 Downloading and Extracting Packages: ...working... scipy-1.8.1 | 24.7 MB | | 0% pandas-1.4.3 | 12.1 MB | | 0%  scikit-learn-1.1.1 | 8.0 MB | | 0%  h5py-3.6.0 | 6.6 MB | | 0%  numpy-1.23.1 | 6.6 MB | | 0%  libopenblas-0.3.25 | 4.3 MB | | 0%  hdf5-1.12.1 | 3.9 MB | | 0%  sqlite-3.46.0 | 1.0 MB | | 0%  libsqlite-3.46.0 | 1019 KB | | 0%  libnghttp2-1.58.0 | 662 KB | | 0%  libcurl-8.8.0 | 412 KB | | 0%  libssh2-1.11.0 | 278 KB | | 0%  dtw-python-1.2.2 | 263 KB | | 0%  zlib-1.2.13 | 94 KB | | 0%  libzlib-1.2.13 | 66 KB | | 0%  libblas-3.9.0 | 14 KB | | 0%  liblapack-3.9.0 | 14 KB | | 0%  libcblas-3.9.0 | 14 KB | | 0%  python_abi-3.10 | 6 KB | | 0%  numpy-1.23.1 | 6.6 MB | ########## | 100%  numpy-1.23.1 | 6.6 MB | ########## | 100%  pandas-1.4.3 | 12.1 MB | | 0%  scikit-learn-1.1.1 | 8.0 MB | | 0%  scipy-1.8.1 | 24.7 MB | | 0% pandas-1.4.3 | 12.1 MB | | 1%  scikit-learn-1.1.1 | 8.0 MB | 1 | 1%  scipy-1.8.1 | 24.7 MB | | 0% pandas-1.4.3 | 12.1 MB | 1 | 1%  scikit-learn-1.1.1 | 8.0 MB | 1 | 2%  h5py-3.6.0 | 6.6 MB | | 0%  scipy-1.8.1 | 24.7 MB | | 1% scikit-learn-1.1.1 | 8.0 MB | 2 | 3%  pandas-1.4.3 | 12.1 MB | 1 | 2%  scipy-1.8.1 | 24.7 MB | | 1% scikit-learn-1.1.1 | 8.0 MB | 3 | 4%  pandas-1.4.3 | 12.1 MB | 2 | 2%  scipy-1.8.1 | 24.7 MB | | 1% scikit-learn-1.1.1 | 8.0 MB | 4 | 4%  pandas-1.4.3 | 12.1 MB | 2 | 2%  scipy-1.8.1 | 24.7 MB | 1 | 1% scikit-learn-1.1.1 | 8.0 MB | 5 | 6%  pandas-1.4.3 | 12.1 MB | 2 | 3%  scipy-1.8.1 | 24.7 MB | 1 | 2% scikit-learn-1.1.1 | 8.0 MB | 7 | 7%  pandas-1.4.3 | 12.1 MB | 3 | 4%  h5py-3.6.0 | 6.6 MB | | 0%  scikit-learn-1.1.1 | 8.0 MB | 7 | 8%  scipy-1.8.1 | 24.7 MB | 1 | 2% pandas-1.4.3 | 12.1 MB | 4 | 4%  scikit-learn-1.1.1 | 8.0 MB | 8 | 9%  scipy-1.8.1 | 24.7 MB | 2 | 2% pandas-1.4.3 | 12.1 MB | 4 | 5%  scikit-learn-1.1.1 | 8.0 MB | # | 11%  scipy-1.8.1 | 24.7 MB | 2 | 2% pandas-1.4.3 | 12.1 MB | 4 | 5%  scikit-learn-1.1.1 | 8.0 MB | #1 | 12%  scipy-1.8.1 | 24.7 MB | 2 | 3% pandas-1.4.3 | 12.1 MB | 5 | 5%  scikit-learn-1.1.1 | 8.0 MB | #2 | 13%  scipy-1.8.1 | 24.7 MB | 2 | 3% pandas-1.4.3 | 12.1 MB | 5 | 6%  numpy-1.23.1 | 6.6 MB | ########## | 100%  scikit-learn-1.1.1 | 8.0 MB | #4 | 14%  scipy-1.8.1 | 24.7 MB | 3 | 3% pandas-1.4.3 | 12.1 MB | 6 | 6%  scikit-learn-1.1.1 | 8.0 MB | #5 | 16%  scikit-learn-1.1.1 | 8.0 MB | #7 | 18%  scipy-1.8.1 | 24.7 MB | 3 | 3% scikit-learn-1.1.1 | 8.0 MB | #9 | 20%  scipy-1.8.1 | 24.7 MB | 3 | 4% scipy-1.8.1 | 24.7 MB | 3 | 4% pandas-1.4.3 | 12.1 MB | 6 | 7%  pandas-1.4.3 | 12.1 MB | 9 | 10%  scipy-1.8.1 | 24.7 MB | 4 | 4% scikit-learn-1.1.1 | 8.0 MB | ##1 | 21%  scipy-1.8.1 | 24.7 MB | 5 | 5% pandas-1.4.3 | 12.1 MB | # | 11%  pandas-1.4.3 | 12.1 MB | #3 | 13%  scikit-learn-1.1.1 | 8.0 MB | ##2 | 23%  h5py-3.6.0 | 6.6 MB | 9 | 9%  scipy-1.8.1 | 24.7 MB | 5 | 6% h5py-3.6.0 | 6.6 MB | # | 10%  scipy-1.8.1 | 24.7 MB | 6 | 6% scipy-1.8.1 | 24.7 MB | 6 | 7% pandas-1.4.3 | 12.1 MB | #4 | 15%  scikit-learn-1.1.1 | 8.0 MB | ##6 | 27%  h5py-3.6.0 | 6.6 MB | #1 | 11%  scipy-1.8.1 | 24.7 MB | 7 | 7% pandas-1.4.3 | 12.1 MB | #7 | 17%  scikit-learn-1.1.1 | 8.0 MB | ##7 | 28%  h5py-3.6.0 | 6.6 MB | #1 | 12%  scikit-learn-1.1.1 | 8.0 MB | ### | 30%  scikit-learn-1.1.1 | 8.0 MB | ###1 | 32%  scipy-1.8.1 | 24.7 MB | 9 | 10% h5py-3.6.0 | 6.6 MB | #2 | 12%  pandas-1.4.3 | 12.1 MB | ## | 21%  scipy-1.8.1 | 24.7 MB | # | 10% h5py-3.6.0 | 6.6 MB | #2 | 13%  scikit-learn-1.1.1 | 8.0 MB | ###2 | 33%  pandas-1.4.3 | 12.1 MB | ##2 | 23%  scipy-1.8.1 | 24.7 MB | #1 | 11% h5py-3.6.0 | 6.6 MB | #2 | 13%  scikit-learn-1.1.1 | 8.0 MB | ###3 | 34%  pandas-1.4.3 | 12.1 MB | ##3 | 23%  scipy-1.8.1 | 24.7 MB | #2 | 13% scikit-learn-1.1.1 | 8.0 MB | ###6 | 36%  pandas-1.4.3 | 12.1 MB | ##4 | 24%  scipy-1.8.1 | 24.7 MB | #3 | 13% scikit-learn-1.1.1 | 8.0 MB | ###7 | 37%  pandas-1.4.3 | 12.1 MB | ##6 | 26%  scipy-1.8.1 | 24.7 MB | #3 | 14% scikit-learn-1.1.1 | 8.0 MB | ###8 | 38%  h5py-3.6.0 | 6.6 MB | #2 | 13%  pandas-1.4.3 | 12.1 MB | ##7 | 28%  h5py-3.6.0 | 6.6 MB | #3 | 13%  scikit-learn-1.1.1 | 8.0 MB | ###9 | 39%  pandas-1.4.3 | 12.1 MB | ##9 | 29%  h5py-3.6.0 | 6.6 MB | #3 | 13%  scipy-1.8.1 | 24.7 MB | #4 | 14% pandas-1.4.3 | 12.1 MB | ###3 | 34%  scipy-1.8.1 | 24.7 MB | #4 | 14% scipy-1.8.1 | 24.7 MB | #4 | 15% scipy-1.8.1 | 24.7 MB | #5 | 15% scikit-learn-1.1.1 | 8.0 MB | ####2 | 42%  scipy-1.8.1 | 24.7 MB | #5 | 16% pandas-1.4.3 | 12.1 MB | ###5 | 35%  scikit-learn-1.1.1 | 8.0 MB | ####4 | 45%  h5py-3.6.0 | 6.6 MB | #3 | 14%  scipy-1.8.1 | 24.7 MB | #6 | 16% pandas-1.4.3 | 12.1 MB | ###6 | 37%  scikit-learn-1.1.1 | 8.0 MB | ####7 | 47%  scipy-1.8.1 | 24.7 MB | #8 | 18% scipy-1.8.1 | 24.7 MB | #8 | 18% scikit-learn-1.1.1 | 8.0 MB | ####9 | 50%  pandas-1.4.3 | 12.1 MB | ###7 | 38%  scipy-1.8.1 | 24.7 MB | #8 | 19% scikit-learn-1.1.1 | 8.0 MB | #####1 | 52%  scipy-1.8.1 | 24.7 MB | #9 | 19% pandas-1.4.3 | 12.1 MB | ###8 | 39%  scikit-learn-1.1.1 | 8.0 MB | #####3 | 54%  pandas-1.4.3 | 12.1 MB | ###9 | 39%  scipy-1.8.1 | 24.7 MB | #9 | 20% pandas-1.4.3 | 12.1 MB | #### | 40%  scipy-1.8.1 | 24.7 MB | #9 | 20% scikit-learn-1.1.1 | 8.0 MB | #####8 | 59%  pandas-1.4.3 | 12.1 MB | ####1 | 41%  scipy-1.8.1 | 24.7 MB | ## | 20% scikit-learn-1.1.1 | 8.0 MB | ###### | 61%  h5py-3.6.0 | 6.6 MB | #3 | 14%  h5py-3.6.0 | 6.6 MB | #4 | 14%  pandas-1.4.3 | 12.1 MB | ####2 | 42%  scikit-learn-1.1.1 | 8.0 MB | ######3 | 63%  pandas-1.4.3 | 12.1 MB | ####3 | 43%  scipy-1.8.1 | 24.7 MB | ## | 20% h5py-3.6.0 | 6.6 MB | #4 | 14%  pandas-1.4.3 | 12.1 MB | ####4 | 44%  scikit-learn-1.1.1 | 8.0 MB | ######5 | 66%  scipy-1.8.1 | 24.7 MB | ## | 20% pandas-1.4.3 | 12.1 MB | ####4 | 45%  scipy-1.8.1 | 24.7 MB | ## | 21% pandas-1.4.3 | 12.1 MB | ####5 | 46%  h5py-3.6.0 | 6.6 MB | #4 | 15%  h5py-3.6.0 | 6.6 MB | #5 | 15%  pandas-1.4.3 | 12.1 MB | ####6 | 46%  scipy-1.8.1 | 24.7 MB | ## | 21% scikit-learn-1.1.1 | 8.0 MB | ######9 | 70%  h5py-3.6.0 | 6.6 MB | #6 | 16%  h5py-3.6.0 | 6.6 MB | #7 | 17%  pandas-1.4.3 | 12.1 MB | ####8 | 48%  h5py-3.6.0 | 6.6 MB | #8 | 18%  scikit-learn-1.1.1 | 8.0 MB | #######1 | 72%  h5py-3.6.0 | 6.6 MB | #9 | 19%  pandas-1.4.3 | 12.1 MB | ####8 | 49%  scipy-1.8.1 | 24.7 MB | ##1 | 21% h5py-3.6.0 | 6.6 MB | ## | 21%  scikit-learn-1.1.1 | 8.0 MB | #######2 | 73%  pandas-1.4.3 | 12.1 MB | #####1 | 51%  scipy-1.8.1 | 24.7 MB | ##1 | 21% scikit-learn-1.1.1 | 8.0 MB | #######3 | 74%  scipy-1.8.1 | 24.7 MB | ##1 | 22% pandas-1.4.3 | 12.1 MB | #####2 | 52%  h5py-3.6.0 | 6.6 MB | ##1 | 22%  scikit-learn-1.1.1 | 8.0 MB | #######4 | 75%  scipy-1.8.1 | 24.7 MB | ##1 | 22% pandas-1.4.3 | 12.1 MB | #####2 | 53%  scipy-1.8.1 | 24.7 MB | ##2 | 22% scikit-learn-1.1.1 | 8.0 MB | #######5 | 75%  h5py-3.6.0 | 6.6 MB | ##2 | 22%  pandas-1.4.3 | 12.1 MB | #####4 | 54%  scikit-learn-1.1.1 | 8.0 MB | #######7 | 78%  pandas-1.4.3 | 12.1 MB | #####5 | 55%  scipy-1.8.1 | 24.7 MB | ##2 | 23% h5py-3.6.0 | 6.6 MB | ##4 | 24%  scipy-1.8.1 | 24.7 MB | ##3 | 24% scikit-learn-1.1.1 | 8.0 MB | ########1 | 82%  h5py-3.6.0 | 6.6 MB | ##8 | 29%  pandas-1.4.3 | 12.1 MB | #####8 | 58%  scipy-1.8.1 | 24.7 MB | ##3 | 24% h5py-3.6.0 | 6.6 MB | ###1 | 32%  pandas-1.4.3 | 12.1 MB | ###### | 60%  scipy-1.8.1 | 24.7 MB | ##4 | 24% scikit-learn-1.1.1 | 8.0 MB | ########5 | 85%  pandas-1.4.3 | 12.1 MB | ###### | 61%  scipy-1.8.1 | 24.7 MB | ##4 | 25% h5py-3.6.0 | 6.6 MB | ###3 | 33%  scikit-learn-1.1.1 | 8.0 MB | ########7 | 88%  pandas-1.4.3 | 12.1 MB | ######1 | 62%  h5py-3.6.0 | 6.6 MB | ###5 | 35%  scipy-1.8.1 | 24.7 MB | ##5 | 25% scikit-learn-1.1.1 | 8.0 MB | #########4 | 94%  h5py-3.6.0 | 6.6 MB | #### | 41%  pandas-1.4.3 | 12.1 MB | ######5 | 65%  scikit-learn-1.1.1 | 8.0 MB | #########7 | 98%  h5py-3.6.0 | 6.6 MB | ####1 | 42%  scipy-1.8.1 | 24.7 MB | ##6 | 26% pandas-1.4.3 | 12.1 MB | ######6 | 67%  h5py-3.6.0 | 6.6 MB | ####3 | 44%  scipy-1.8.1 | 24.7 MB | ##6 | 27% scipy-1.8.1 | 24.7 MB | ##7 | 27% scipy-1.8.1 | 24.7 MB | ##8 | 28% scipy-1.8.1 | 24.7 MB | ##8 | 28% h5py-3.6.0 | 6.6 MB | ####6 | 47%  pandas-1.4.3 | 12.1 MB | ######9 | 69%  scipy-1.8.1 | 24.7 MB | ##9 | 30% pandas-1.4.3 | 12.1 MB | #######1 | 72%  h5py-3.6.0 | 6.6 MB | #####1 | 52%  scipy-1.8.1 | 24.7 MB | ### | 30% pandas-1.4.3 | 12.1 MB | #######3 | 73%  h5py-3.6.0 | 6.6 MB | #####3 | 53%  scipy-1.8.1 | 24.7 MB | ### | 31% pandas-1.4.3 | 12.1 MB | #######3 | 74%  scipy-1.8.1 | 24.7 MB | ### | 31% h5py-3.6.0 | 6.6 MB | #####4 | 54%  h5py-3.6.0 | 6.6 MB | #####5 | 56%  pandas-1.4.3 | 12.1 MB | #######5 | 75%  scipy-1.8.1 | 24.7 MB | ###1 | 31% pandas-1.4.3 | 12.1 MB | #######7 | 78%  h5py-3.6.0 | 6.6 MB | #####6 | 56%  pandas-1.4.3 | 12.1 MB | #######9 | 79%  scipy-1.8.1 | 24.7 MB | ###1 | 31% pandas-1.4.3 | 12.1 MB | ########1 | 82%  h5py-3.6.0 | 6.6 MB | #####7 | 57%  pandas-1.4.3 | 12.1 MB | ########3 | 84%  h5py-3.6.0 | 6.6 MB | #####7 | 58%  pandas-1.4.3 | 12.1 MB | ########6 | 86%  scipy-1.8.1 | 24.7 MB | ###1 | 32% h5py-3.6.0 | 6.6 MB | #####8 | 58%  pandas-1.4.3 | 12.1 MB | ########9 | 89%  scipy-1.8.1 | 24.7 MB | ###1 | 32% h5py-3.6.0 | 6.6 MB | #####8 | 59%  libopenblas-0.3.25 | 4.3 MB | | 0%  pandas-1.4.3 | 12.1 MB | ######### | 91%  scipy-1.8.1 | 24.7 MB | ###1 | 32% h5py-3.6.0 | 6.6 MB | #####9 | 59%  scipy-1.8.1 | 24.7 MB | ###2 | 32% pandas-1.4.3 | 12.1 MB | #########2 | 92%  pandas-1.4.3 | 12.1 MB | #########4 | 95%  h5py-3.6.0 | 6.6 MB | #####9 | 60%  scipy-1.8.1 | 24.7 MB | ###2 | 32% scipy-1.8.1 | 24.7 MB | ###2 | 33% pandas-1.4.3 | 12.1 MB | #########6 | 97%  scipy-1.8.1 | 24.7 MB | ###2 | 33% h5py-3.6.0 | 6.6 MB | ######1 | 62%  pandas-1.4.3 | 12.1 MB | #########7 | 97%  pandas-1.4.3 | 12.1 MB | #########8 | 98%  h5py-3.6.0 | 6.6 MB | ######4 | 64%  scipy-1.8.1 | 24.7 MB | ###2 | 33% pandas-1.4.3 | 12.1 MB | #########8 | 99%  h5py-3.6.0 | 6.6 MB | ######5 | 65%  pandas-1.4.3 | 12.1 MB | #########9 | 100%  h5py-3.6.0 | 6.6 MB | ######8 | 69%  scipy-1.8.1 | 24.7 MB | ###4 | 34% h5py-3.6.0 | 6.6 MB | ######9 | 69%  scipy-1.8.1 | 24.7 MB | ###4 | 34% scipy-1.8.1 | 24.7 MB | ###4 | 35% h5py-3.6.0 | 6.6 MB | #######2 | 73%  scikit-learn-1.1.1 | 8.0 MB | #########9 | 100%  scikit-learn-1.1.1 | 8.0 MB | ########## | 100%  h5py-3.6.0 | 6.6 MB | #######4 | 75%  scipy-1.8.1 | 24.7 MB | ###5 | 35% hdf5-1.12.1 | 3.9 MB | | 0%  hdf5-1.12.1 | 3.9 MB | 9 | 9%  scipy-1.8.1 | 24.7 MB | ###5 | 36% hdf5-1.12.1 | 3.9 MB | #7 | 18%  scipy-1.8.1 | 24.7 MB | ###6 | 36% hdf5-1.12.1 | 3.9 MB | ##9 | 30%  scipy-1.8.1 | 24.7 MB | ###6 | 37% h5py-3.6.0 | 6.6 MB | #######5 | 76%  scipy-1.8.1 | 24.7 MB | ###7 | 38% h5py-3.6.0 | 6.6 MB | #######9 | 80%  hdf5-1.12.1 | 3.9 MB | ####2 | 42%  hdf5-1.12.1 | 3.9 MB | ####7 | 47%  scikit-learn-1.1.1 | 8.0 MB | ########## | 100%  hdf5-1.12.1 | 3.9 MB | #####5 | 55%  hdf5-1.12.1 | 3.9 MB | ######1 | 62%  hdf5-1.12.1 | 3.9 MB | #######1 | 72%  scipy-1.8.1 | 24.7 MB | ###8 | 38% hdf5-1.12.1 | 3.9 MB | #######7 | 77%  scipy-1.8.1 | 24.7 MB | ###8 | 38% hdf5-1.12.1 | 3.9 MB | ########2 | 83%  hdf5-1.12.1 | 3.9 MB | ########6 | 86%  hdf5-1.12.1 | 3.9 MB | ######### | 91%  scipy-1.8.1 | 24.7 MB | ###8 | 39% hdf5-1.12.1 | 3.9 MB | #########3 | 94%  h5py-3.6.0 | 6.6 MB | ########1 | 82%  scipy-1.8.1 | 24.7 MB | ###9 | 39% hdf5-1.12.1 | 3.9 MB | #########6 | 97%  h5py-3.6.0 | 6.6 MB | ########2 | 83%  scipy-1.8.1 | 24.7 MB | ###9 | 40% h5py-3.6.0 | 6.6 MB | ########5 | 85%  hdf5-1.12.1 | 3.9 MB | #########9 | 99%  hdf5-1.12.1 | 3.9 MB | ########## | 100%  sqlite-3.46.0 | 1.0 MB | 1 | 2%  scipy-1.8.1 | 24.7 MB | #### | 40% h5py-3.6.0 | 6.6 MB | ########6 | 86%  sqlite-3.46.0 | 1.0 MB | 7 | 8%  sqlite-3.46.0 | 1.0 MB | #5 | 15%  scipy-1.8.1 | 24.7 MB | ####1 | 41% hdf5-1.12.1 | 3.9 MB | ########## | 100%  sqlite-3.46.0 | 1.0 MB | ## | 20%  h5py-3.6.0 | 6.6 MB | ########9 | 90%  sqlite-3.46.0 | 1.0 MB | ##6 | 26%  scipy-1.8.1 | 24.7 MB | ####1 | 42% sqlite-3.46.0 | 1.0 MB | ### | 31%  h5py-3.6.0 | 6.6 MB | #########2 | 93%  sqlite-3.46.0 | 1.0 MB | ###7 | 37%  scipy-1.8.1 | 24.7 MB | ####2 | 43% sqlite-3.46.0 | 1.0 MB | ####4 | 45%  h5py-3.6.0 | 6.6 MB | #########3 | 94%  pandas-1.4.3 | 12.1 MB | ########## | 100%  scipy-1.8.1 | 24.7 MB | ####2 | 43% sqlite-3.46.0 | 1.0 MB | #####1 | 51%  libsqlite-3.46.0 | 1019 KB | 1 | 2%  h5py-3.6.0 | 6.6 MB | #########4 | 95%  libsqlite-3.46.0 | 1019 KB | 3 | 3%  scipy-1.8.1 | 24.7 MB | ####3 | 43% scipy-1.8.1 | 24.7 MB | ####3 | 44% libsqlite-3.46.0 | 1019 KB | # | 11%  sqlite-3.46.0 | 1.0 MB | #####7 | 57%  sqlite-3.46.0 | 1.0 MB | ######6 | 67%  scipy-1.8.1 | 24.7 MB | ####4 | 44% libsqlite-3.46.0 | 1019 KB | #8 | 19%  h5py-3.6.0 | 6.6 MB | #########5 | 95%  scipy-1.8.1 | 24.7 MB | ####4 | 45% sqlite-3.46.0 | 1.0 MB | #######2 | 73%  h5py-3.6.0 | 6.6 MB | #########6 | 96%  libsqlite-3.46.0 | 1019 KB | ##1 | 22%  sqlite-3.46.0 | 1.0 MB | #######9 | 79%  scipy-1.8.1 | 24.7 MB | ####5 | 45% libsqlite-3.46.0 | 1019 KB | ###2 | 33%  h5py-3.6.0 | 6.6 MB | #########6 | 97%  sqlite-3.46.0 | 1.0 MB | ########6 | 87%  libsqlite-3.46.0 | 1019 KB | ###7 | 38%  scipy-1.8.1 | 24.7 MB | ####5 | 45% h5py-3.6.0 | 6.6 MB | #########7 | 97%  scipy-1.8.1 | 24.7 MB | ####5 | 46% sqlite-3.46.0 | 1.0 MB | #########1 | 91%  libsqlite-3.46.0 | 1019 KB | ####2 | 42%  h5py-3.6.0 | 6.6 MB | #########7 | 98%  libsqlite-3.46.0 | 1019 KB | #######2 | 72%  h5py-3.6.0 | 6.6 MB | #########9 | 100%  scipy-1.8.1 | 24.7 MB | ####5 | 46% libsqlite-3.46.0 | 1019 KB | ######## | 80%  sqlite-3.46.0 | 1.0 MB | #########6 | 96%  libsqlite-3.46.0 | 1019 KB | #########2 | 93%  sqlite-3.46.0 | 1.0 MB | #########9 | 99%  sqlite-3.46.0 | 1.0 MB | ########## | 100%  sqlite-3.46.0 | 1.0 MB | ########## | 100%  scipy-1.8.1 | 24.7 MB | ####6 | 46% libsqlite-3.46.0 | 1019 KB | ########## | 100%  libsqlite-3.46.0 | 1019 KB | ########## | 100%  libsqlite-3.46.0 | 1019 KB | ########## | 100%  scipy-1.8.1 | 24.7 MB | ####6 | 46% libnghttp2-1.58.0 | 662 KB | 2 | 2%  libnghttp2-1.58.0 | 662 KB | 4 | 5%  scipy-1.8.1 | 24.7 MB | ####6 | 46% scipy-1.8.1 | 24.7 MB | ####6 | 47% libnghttp2-1.58.0 | 662 KB | 9 | 10%  scipy-1.8.1 | 24.7 MB | ####6 | 47% scipy-1.8.1 | 24.7 MB | ####6 | 47% libnghttp2-1.58.0 | 662 KB | #4 | 15%  scipy-1.8.1 | 24.7 MB | ####6 | 47% libnghttp2-1.58.0 | 662 KB | #6 | 17%  h5py-3.6.0 | 6.6 MB | ########## | 100%  scipy-1.8.1 | 24.7 MB | ####7 | 47% libnghttp2-1.58.0 | 662 KB | ##1 | 22%  scipy-1.8.1 | 24.7 MB | ####7 | 47% libssh2-1.11.0 | 278 KB | 5 | 6%  libssh2-1.11.0 | 278 KB | ########## | 100%  libnghttp2-1.58.0 | 662 KB | ##4 | 24%  scipy-1.8.1 | 24.7 MB | ####7 | 47% libcurl-8.8.0 | 412 KB | 3 | 4%  libssh2-1.11.0 | 278 KB | ########## | 100%  libssh2-1.11.0 | 278 KB | ########## | 100%  scipy-1.8.1 | 24.7 MB | ####7 | 47% libcurl-8.8.0 | 412 KB | #1 | 12%  libnghttp2-1.58.0 | 662 KB | ##9 | 29%  scipy-1.8.1 | 24.7 MB | ####7 | 48% libcurl-8.8.0 | 412 KB | ##3 | 23%  libnghttp2-1.58.0 | 662 KB | ###1 | 31%  libcurl-8.8.0 | 412 KB | ###4 | 35%  libnghttp2-1.58.0 | 662 KB | ###3 | 34%  scipy-1.8.1 | 24.7 MB | ####7 | 48% pandas-1.4.3 | 12.1 MB | ########## | 100%  libnghttp2-1.58.0 | 662 KB | ###6 | 36%  scipy-1.8.1 | 24.7 MB | ####8 | 48% libcurl-8.8.0 | 412 KB | ####6 | 47%  libopenblas-0.3.25 | 4.3 MB | | 1%  libcurl-8.8.0 | 412 KB | #####8 | 58%  scipy-1.8.1 | 24.7 MB | ####8 | 48% dtw-python-1.2.2 | 263 KB | 6 | 6%  libnghttp2-1.58.0 | 662 KB | ####1 | 41%  libcurl-8.8.0 | 412 KB | ######9 | 70%  scipy-1.8.1 | 24.7 MB | ####8 | 48% dtw-python-1.2.2 | 263 KB | #2 | 12%  libcurl-8.8.0 | 412 KB | ########1 | 81%  scipy-1.8.1 | 24.7 MB | ####8 | 48% h5py-3.6.0 | 6.6 MB | ########## | 100%  libnghttp2-1.58.0 | 662 KB | ####5 | 46%  dtw-python-1.2.2 | 263 KB | ###6 | 36%  libcurl-8.8.0 | 412 KB | #########3 | 93%  libcurl-8.8.0 | 412 KB | ########## | 100%  libcurl-8.8.0 | 412 KB | ########## | 100%  dtw-python-1.2.2 | 263 KB | #######2 | 73%  libnghttp2-1.58.0 | 662 KB | ####8 | 48%  zlib-1.2.13 | 94 KB | #7 | 17%  dtw-python-1.2.2 | 263 KB | ########## | 100%  scipy-1.8.1 | 24.7 MB | ####8 | 49% libzlib-1.2.13 | 66 KB | ##4 | 24%  libnghttp2-1.58.0 | 662 KB | ##### | 51%  dtw-python-1.2.2 | 263 KB | ########## | 100%  dtw-python-1.2.2 | 263 KB | ########## | 100%  zlib-1.2.13 | 94 KB | ######8 | 68%  scipy-1.8.1 | 24.7 MB | ####8 | 49% zlib-1.2.13 | 94 KB | ########## | 100%  zlib-1.2.13 | 94 KB | ########## | 100%  scipy-1.8.1 | 24.7 MB | ####9 | 49% libblas-3.9.0 | 14 KB | ########## | 100%  libblas-3.9.0 | 14 KB | ########## | 100%  libblas-3.9.0 | 14 KB | ########## | 100%  liblapack-3.9.0 | 14 KB | ########## | 100%  liblapack-3.9.0 | 14 KB | ########## | 100%  liblapack-3.9.0 | 14 KB | ########## | 100%  libnghttp2-1.58.0 | 662 KB | #####5 | 56%  libcblas-3.9.0 | 14 KB | ########## | 100%  libcblas-3.9.0 | 14 KB | ########## | 100%  scipy-1.8.1 | 24.7 MB | ####9 | 49% libcblas-3.9.0 | 14 KB | ########## | 100%  python_abi-3.10 | 6 KB | ########## | 100%  python_abi-3.10 | 6 KB | ########## | 100%  python_abi-3.10 | 6 KB | ########## | 100%  scipy-1.8.1 | 24.7 MB | ##### | 50% libnghttp2-1.58.0 | 662 KB | ###### | 60%  libnghttp2-1.58.0 | 662 KB | ######2 | 63%  scipy-1.8.1 | 24.7 MB | ##### | 51% scipy-1.8.1 | 24.7 MB | #####1 | 52% libnghttp2-1.58.0 | 662 KB | ######5 | 65%  libnghttp2-1.58.0 | 662 KB | ######7 | 68%  libnghttp2-1.58.0 | 662 KB | #######2 | 73%  scipy-1.8.1 | 24.7 MB | #####2 | 52% libnghttp2-1.58.0 | 662 KB | ########4 | 85%  scipy-1.8.1 | 24.7 MB | #####3 | 53% libnghttp2-1.58.0 | 662 KB | #########6 | 97%  libzlib-1.2.13 | 66 KB | #########7 | 97%  libzlib-1.2.13 | 66 KB | ########## | 100%  libzlib-1.2.13 | 66 KB | ########## | 100%  scipy-1.8.1 | 24.7 MB | #####3 | 54% scipy-1.8.1 | 24.7 MB | #####4 | 54% scipy-1.8.1 | 24.7 MB | #####5 | 55% libnghttp2-1.58.0 | 662 KB | ########## | 100%  libnghttp2-1.58.0 | 662 KB | ########## | 100%  scipy-1.8.1 | 24.7 MB | #####5 | 56% scipy-1.8.1 | 24.7 MB | #####7 | 57% scipy-1.8.1 | 24.7 MB | #####7 | 58% scipy-1.8.1 | 24.7 MB | #####8 | 58% scipy-1.8.1 | 24.7 MB | ###### | 60% scipy-1.8.1 | 24.7 MB | ######1 | 61% scipy-1.8.1 | 24.7 MB | ######2 | 62% scipy-1.8.1 | 24.7 MB | ######4 | 64% scipy-1.8.1 | 24.7 MB | ######5 | 65% scipy-1.8.1 | 24.7 MB | ######5 | 66% scipy-1.8.1 | 24.7 MB | ######7 | 67% scipy-1.8.1 | 24.7 MB | ######8 | 68% scipy-1.8.1 | 24.7 MB | ######9 | 70% scipy-1.8.1 | 24.7 MB | ####### | 70% scipy-1.8.1 | 24.7 MB | #######1 | 71% scipy-1.8.1 | 24.7 MB | #######1 | 72% scipy-1.8.1 | 24.7 MB | #######1 | 72% libopenblas-0.3.25 | 4.3 MB | 1 | 1%  scipy-1.8.1 | 24.7 MB | #######2 | 72% scipy-1.8.1 | 24.7 MB | #######2 | 73% scipy-1.8.1 | 24.7 MB | #######3 | 73% scipy-1.8.1 | 24.7 MB | #######3 | 73% scipy-1.8.1 | 24.7 MB | #######3 | 74% scipy-1.8.1 | 24.7 MB | #######4 | 74% scipy-1.8.1 | 24.7 MB | #######4 | 75% scipy-1.8.1 | 24.7 MB | #######5 | 76% scipy-1.8.1 | 24.7 MB | #######8 | 78% scipy-1.8.1 | 24.7 MB | ######## | 80% scipy-1.8.1 | 24.7 MB | ########1 | 81% scipy-1.8.1 | 24.7 MB | ########2 | 82% scipy-1.8.1 | 24.7 MB | ########3 | 84% scipy-1.8.1 | 24.7 MB | ########4 | 84% scipy-1.8.1 | 24.7 MB | ########5 | 85% scipy-1.8.1 | 24.7 MB | ########6 | 86% scipy-1.8.1 | 24.7 MB | ########8 | 88% libopenblas-0.3.25 | 4.3 MB | 1 | 1%  scipy-1.8.1 | 24.7 MB | ######### | 91% scipy-1.8.1 | 24.7 MB | #########1 | 92% scipy-1.8.1 | 24.7 MB | #########2 | 93% scipy-1.8.1 | 24.7 MB | #########3 | 94% scipy-1.8.1 | 24.7 MB | #########5 | 95% scipy-1.8.1 | 24.7 MB | #########5 | 96% scipy-1.8.1 | 24.7 MB | #########6 | 97% scipy-1.8.1 | 24.7 MB | #########7 | 98% scipy-1.8.1 | 24.7 MB | #########9 | 99% scipy-1.8.1 | 24.7 MB | #########9 | 100% scipy-1.8.1 | 24.7 MB | ########## | 100% scipy-1.8.1 | 24.7 MB | ########## | 100% libopenblas-0.3.25 | 4.3 MB | 1 | 2%  libopenblas-0.3.25 | 4.3 MB | 2 | 2%  libopenblas-0.3.25 | 4.3 MB | 2 | 3%  libopenblas-0.3.25 | 4.3 MB | 2 | 3%  libopenblas-0.3.25 | 4.3 MB | 3 | 3%  libopenblas-0.3.25 | 4.3 MB | 3 | 4%  libopenblas-0.3.25 | 4.3 MB | 3 | 4%  libopenblas-0.3.25 | 4.3 MB | 4 | 4%  libopenblas-0.3.25 | 4.3 MB | 4 | 5%  libopenblas-0.3.25 | 4.3 MB | 5 | 5%  libopenblas-0.3.25 | 4.3 MB | 5 | 5%  libopenblas-0.3.25 | 4.3 MB | 5 | 6%  libopenblas-0.3.25 | 4.3 MB | 6 | 6%  libopenblas-0.3.25 | 4.3 MB | 6 | 6%  libopenblas-0.3.25 | 4.3 MB | 6 | 7%  libopenblas-0.3.25 | 4.3 MB | 7 | 7%  libopenblas-0.3.25 | 4.3 MB | 7 | 8%  libopenblas-0.3.25 | 4.3 MB | 7 | 8%  libopenblas-0.3.25 | 4.3 MB | 8 | 8%  libopenblas-0.3.25 | 4.3 MB | 8 | 9%  libopenblas-0.3.25 | 4.3 MB | 9 | 9%  libopenblas-0.3.25 | 4.3 MB | 9 | 9%  libopenblas-0.3.25 | 4.3 MB | 9 | 10%  libopenblas-0.3.25 | 4.3 MB | # | 10%  libopenblas-0.3.25 | 4.3 MB | # | 10%  libopenblas-0.3.25 | 4.3 MB | # | 11%  libopenblas-0.3.25 | 4.3 MB | #1 | 11%  libopenblas-0.3.25 | 4.3 MB | #1 | 12%  libopenblas-0.3.25 | 4.3 MB | #1 | 12%  libopenblas-0.3.25 | 4.3 MB | #2 | 12%  libopenblas-0.3.25 | 4.3 MB | #2 | 13%  libopenblas-0.3.25 | 4.3 MB | #2 | 13%  libopenblas-0.3.25 | 4.3 MB | #3 | 13%  libopenblas-0.3.25 | 4.3 MB | #3 | 14%  libopenblas-0.3.25 | 4.3 MB | #4 | 14%  libopenblas-0.3.25 | 4.3 MB | #4 | 14%  libopenblas-0.3.25 | 4.3 MB | #4 | 15%  libopenblas-0.3.25 | 4.3 MB | #5 | 15%  libopenblas-0.3.25 | 4.3 MB | #5 | 16%  libopenblas-0.3.25 | 4.3 MB | #5 | 16%  libopenblas-0.3.25 | 4.3 MB | #6 | 17%  libopenblas-0.3.25 | 4.3 MB | #8 | 18%  libopenblas-0.3.25 | 4.3 MB | ##4 | 24%                    ('Connection broken: IncompleteRead(2341211 bytes read, 2201978 more expected)', IncompleteRead(2341211 bytes read, 2201978 more expected)) ('Connection broken: IncompleteRead(2341211 bytes read, 2201978 more expected)', IncompleteRead(2341211 bytes read, 2201978 more expected)) done Quitting from MEFISTO_temporal.Rmd:95-98 [unnamed-chunk-7] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: ! one or more Python packages failed to install [error code 1] --- Backtrace: ▆ 1. └─MOFA2::run_mofa(sm, outfile, use_basilisk = TRUE) 2. └─basilisk::basiliskStart(mofa_env) 3. └─basilisk::obtainEnvironmentPath(env) 4. └─basilisk::setupBasiliskEnv(...) 5. └─reticulate::conda_install(...) 6. └─reticulate:::stopf(fmt, result) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'MEFISTO_temporal.Rmd' failed with diagnostics: one or more Python packages failed to install [error code 1] --- failed re-building ‘MEFISTO_temporal.Rmd’ --- re-building ‘downstream_analysis.Rmd’ using rmarkdown --- finished re-building ‘downstream_analysis.Rmd’ --- re-building ‘getting_started_R.Rmd’ using rmarkdown Channels: - conda-forge Platform: linux-aarch64 Collecting package metadata (repodata.json): ...working... done Solving environment: ...working... done ## Package Plan ## environment location: /home/biocbuild/.cache/R/basilisk/1.19.3/MOFA2/1.17.0/mofa_env added / updated specs: - python=3.10.5 The following NEW packages will be INSTALLED: _openmp_mutex conda-forge/linux-aarch64::_openmp_mutex-4.5-2_gnu bzip2 conda-forge/linux-aarch64::bzip2-1.0.8-h68df207_7 ca-certificates conda-forge/linux-aarch64::ca-certificates-2025.1.31-hcefe29a_0 ld_impl_linux-aar~ conda-forge/linux-aarch64::ld_impl_linux-aarch64-2.43-h80caac9_4 libffi conda-forge/linux-aarch64::libffi-3.4.6-he21f813_0 libgcc conda-forge/linux-aarch64::libgcc-14.2.0-he277a41_2 libgcc-ng conda-forge/linux-aarch64::libgcc-ng-14.2.0-he9431aa_2 libgomp conda-forge/linux-aarch64::libgomp-14.2.0-he277a41_2 liblzma conda-forge/linux-aarch64::liblzma-5.6.4-h86ecc28_0 liblzma-devel conda-forge/linux-aarch64::liblzma-devel-5.6.4-h86ecc28_0 libnsl conda-forge/linux-aarch64::libnsl-2.0.1-h31becfc_0 libsqlite conda-forge/linux-aarch64::libsqlite-3.49.1-h5eb1b54_2 libuuid conda-forge/linux-aarch64::libuuid-2.38.1-hb4cce97_0 libzlib conda-forge/linux-aarch64::libzlib-1.3.1-h86ecc28_2 ncurses conda-forge/linux-aarch64::ncurses-6.5-ha32ae93_3 openssl conda-forge/linux-aarch64::openssl-3.4.1-hd08dc88_0 pip conda-forge/noarch::pip-25.0.1-pyh8b19718_0 python conda-forge/linux-aarch64::python-3.10.5-h92ab765_0_cpython readline conda-forge/linux-aarch64::readline-8.2-h8382b9d_2 setuptools conda-forge/noarch::setuptools-75.8.2-pyhff2d567_0 sqlite conda-forge/linux-aarch64::sqlite-3.49.1-h578a6b9_2 tk conda-forge/linux-aarch64::tk-8.6.13-h194ca79_0 tzdata conda-forge/noarch::tzdata-2025a-h78e105d_0 wheel conda-forge/noarch::wheel-0.45.1-pyhd8ed1ab_1 xz conda-forge/linux-aarch64::xz-5.6.4-h2dbfc1b_0 xz-gpl-tools conda-forge/linux-aarch64::xz-gpl-tools-5.6.4-h2dbfc1b_0 xz-tools conda-forge/linux-aarch64::xz-tools-5.6.4-h86ecc28_0 Preparing transaction: ...working... done Verifying transaction: ...working... done Executing transaction: ...working... done Channels: - conda-forge Platform: linux-aarch64 Collecting package metadata (repodata.json): ...working... done Solving environment: ...working... done ==> WARNING: A newer version of conda exists. <== current version: 24.11.3 latest version: 25.1.1 Please update conda by running $ conda update -n base -c conda-forge conda # All requested packages already installed. Channels: - conda-forge Platform: linux-aarch64 Collecting package metadata (repodata.json): ...working... done Solving environment: ...working... done ==> WARNING: A newer version of conda exists. <== current version: 24.11.3 latest version: 25.1.1 Please update conda by running $ conda update -n base -c conda-forge conda ## Package Plan ## environment location: /home/biocbuild/.cache/R/basilisk/1.19.3/MOFA2/1.17.0/mofa_env added / updated specs: - dtw-python=1.2.2 - h5py=3.6.0 - numpy=1.23.1 - pandas=1.4.3 - python[version='3.10.5.*,3.10.5.*'] - scikit-learn=1.1.1 - scipy=1.8.1 The following packages will be downloaded: package | build ---------------------------|----------------- hdf5-1.12.1 |nompi_h7bde11e_104 3.9 MB conda-forge krb5-1.20.1 | h519e096_0 1.4 MB conda-forge libcurl-7.87.0 | h4f97d7c_0 351 KB conda-forge libnghttp2-1.51.0 | h4173d3e_0 657 KB conda-forge libopenblas-0.3.25 |pthreads_h5a5ec62_0 4.3 MB conda-forge libssh2-1.10.0 | h4bb3959_3 242 KB conda-forge openssl-1.1.1w | h31becfc_0 1.8 MB conda-forge python-3.10.5 |h023d47c_0_cpython 13.0 MB conda-forge ------------------------------------------------------------ Total: 25.7 MB The following NEW packages will be INSTALLED: c-ares conda-forge/linux-aarch64::c-ares-1.34.4-h86ecc28_0 cached-property conda-forge/noarch::cached-property-1.5.2-hd8ed1ab_1 cached_property conda-forge/noarch::cached_property-1.5.2-pyha770c72_1 dtw-python conda-forge/linux-aarch64::dtw-python-1.2.2-py310h761cc84_0 h5py conda-forge/linux-aarch64::h5py-3.6.0-nompi_py310hd005ad3_100 hdf5 conda-forge/linux-aarch64::hdf5-1.12.1-nompi_h7bde11e_104 joblib conda-forge/noarch::joblib-1.4.2-pyhd8ed1ab_1 keyutils conda-forge/linux-aarch64::keyutils-1.6.1-h4e544f5_0 krb5 conda-forge/linux-aarch64::krb5-1.20.1-h519e096_0 libblas conda-forge/linux-aarch64::libblas-3.9.0-20_linuxaarch64_openblas libcblas conda-forge/linux-aarch64::libcblas-3.9.0-20_linuxaarch64_openblas libcurl conda-forge/linux-aarch64::libcurl-7.87.0-h4f97d7c_0 libedit conda-forge/linux-aarch64::libedit-3.1.20250104-pl5321h976ea20_0 libev conda-forge/linux-aarch64::libev-4.33-h31becfc_2 libgfortran conda-forge/linux-aarch64::libgfortran-14.2.0-he9431aa_2 libgfortran-ng conda-forge/linux-aarch64::libgfortran-ng-14.2.0-he9431aa_2 libgfortran5 conda-forge/linux-aarch64::libgfortran5-14.2.0-hb6113d0_2 liblapack conda-forge/linux-aarch64::liblapack-3.9.0-20_linuxaarch64_openblas libnghttp2 conda-forge/linux-aarch64::libnghttp2-1.51.0-h4173d3e_0 libopenblas conda-forge/linux-aarch64::libopenblas-0.3.25-pthreads_h5a5ec62_0 libssh2 conda-forge/linux-aarch64::libssh2-1.10.0-h4bb3959_3 libstdcxx conda-forge/linux-aarch64::libstdcxx-14.2.0-h3f4de04_2 libstdcxx-ng conda-forge/linux-aarch64::libstdcxx-ng-14.2.0-hf1166c9_2 numpy conda-forge/linux-aarch64::numpy-1.23.1-py310he617cf3_0 pandas conda-forge/linux-aarch64::pandas-1.4.3-py310h9e1bc84_0 python-dateutil conda-forge/noarch::python-dateutil-2.9.0.post0-pyhff2d567_1 python_abi conda-forge/linux-aarch64::python_abi-3.10-5_cp310 pytz conda-forge/noarch::pytz-2025.1-pyhd8ed1ab_0 scikit-learn conda-forge/linux-aarch64::scikit-learn-1.1.1-py310h960e1e0_0 scipy conda-forge/linux-aarch64::scipy-1.8.1-py310hdd6f644_3 six conda-forge/noarch::six-1.17.0-pyhd8ed1ab_0 threadpoolctl conda-forge/noarch::threadpoolctl-3.6.0-pyhecae5ae_0 zlib conda-forge/linux-aarch64::zlib-1.2.13-h68df207_6 The following packages will be DOWNGRADED: libsqlite 3.49.1-h5eb1b54_2 --> 3.46.0-hf51ef55_0 libzlib 1.3.1-h86ecc28_2 --> 1.2.13-h68df207_6 openssl 3.4.1-hd08dc88_0 --> 1.1.1w-h31becfc_0 python 3.10.5-h92ab765_0_cpython --> 3.10.5-h023d47c_0_cpython sqlite 3.49.1-h578a6b9_2 --> 3.46.0-hdc7ab3c_0 Downloading and Extracting Packages: ...working... python-3.10.5 | 13.0 MB | | 0% libopenblas-0.3.25 | 4.3 MB | | 0%  hdf5-1.12.1 | 3.9 MB | | 0%  openssl-1.1.1w | 1.8 MB | | 0%  krb5-1.20.1 | 1.4 MB | | 0%  libnghttp2-1.51.0 | 657 KB | | 0%  libcurl-7.87.0 | 351 KB | | 0%  libssh2-1.10.0 | 242 KB | | 0%  openssl-1.1.1w | 1.8 MB | ########## | 100%  openssl-1.1.1w | 1.8 MB | ########## | 100%  libopenblas-0.3.25 | 4.3 MB | ########## | 100%  libopenblas-0.3.25 | 4.3 MB | ########## | 100%  openssl-1.1.1w | 1.8 MB | ########## | 100%  libopenblas-0.3.25 | 4.3 MB | ########## | 100%  libnghttp2-1.51.0 | 657 KB | 2 | 2%  krb5-1.20.1 | 1.4 MB | 1 | 1%  python-3.10.5 | 13.0 MB | | 0% krb5-1.20.1 | 1.4 MB | 6 | 7%  libcurl-7.87.0 | 351 KB | 4 | 5%  python-3.10.5 | 13.0 MB | 1 | 1% hdf5-1.12.1 | 3.9 MB | | 0%  hdf5-1.12.1 | 3.9 MB | 2 | 2%  hdf5-1.12.1 | 3.9 MB | 3 | 4%  hdf5-1.12.1 | 3.9 MB | 5 | 5%  hdf5-1.12.1 | 3.9 MB | 8 | 8%  krb5-1.20.1 | 1.4 MB | #1 | 11%  hdf5-1.12.1 | 3.9 MB | #1 | 11%  krb5-1.20.1 | 1.4 MB | ##6 | 26%  hdf5-1.12.1 | 3.9 MB | #6 | 16%  python-3.10.5 | 13.0 MB | 2 | 2% libcurl-7.87.0 | 351 KB | 9 | 9%  krb5-1.20.1 | 1.4 MB | ####1 | 42%  python-3.10.5 | 13.0 MB | 2 | 3% hdf5-1.12.1 | 3.9 MB | #9 | 20%  krb5-1.20.1 | 1.4 MB | ######4 | 65%  hdf5-1.12.1 | 3.9 MB | ###2 | 33%  libnghttp2-1.51.0 | 657 KB | ########7 | 88%  krb5-1.20.1 | 1.4 MB | #######2 | 73%  libnghttp2-1.51.0 | 657 KB | #########7 | 97%  krb5-1.20.1 | 1.4 MB | ########## | 100%  python-3.10.5 | 13.0 MB | 3 | 3% libssh2-1.10.0 | 242 KB | 6 | 7%  krb5-1.20.1 | 1.4 MB | ########## | 100%  krb5-1.20.1 | 1.4 MB | ########## | 100%  hdf5-1.12.1 | 3.9 MB | #####6 | 56%  python-3.10.5 | 13.0 MB | 3 | 3% libssh2-1.10.0 | 242 KB | #########2 | 92%  python-3.10.5 | 13.0 MB | 4 | 5% hdf5-1.12.1 | 3.9 MB | ######1 | 61%  python-3.10.5 | 13.0 MB | 6 | 6% hdf5-1.12.1 | 3.9 MB | ####### | 71%  hdf5-1.12.1 | 3.9 MB | ########3 | 83%  python-3.10.5 | 13.0 MB | 6 | 7% python-3.10.5 | 13.0 MB | 7 | 8% libcurl-7.87.0 | 351 KB | #8 | 18%  python-3.10.5 | 13.0 MB | 9 | 9% libcurl-7.87.0 | 351 KB | ###6 | 36%  python-3.10.5 | 13.0 MB | 9 | 10% python-3.10.5 | 13.0 MB | #1 | 11% libcurl-7.87.0 | 351 KB | ####5 | 46%  hdf5-1.12.1 | 3.9 MB | ########9 | 90%  python-3.10.5 | 13.0 MB | #2 | 12% libcurl-7.87.0 | 351 KB | #####4 | 55%  hdf5-1.12.1 | 3.9 MB | #########4 | 94%  python-3.10.5 | 13.0 MB | #3 | 13% libcurl-7.87.0 | 351 KB | ######3 | 64%  hdf5-1.12.1 | 3.9 MB | #########9 | 99%  libssh2-1.10.0 | 242 KB | ########## | 100%  python-3.10.5 | 13.0 MB | #7 | 17% libssh2-1.10.0 | 242 KB | ########## | 100%  libcurl-7.87.0 | 351 KB | #######2 | 73%  python-3.10.5 | 13.0 MB | ##2 | 23% libcurl-7.87.0 | 351 KB | ########2 | 82%  python-3.10.5 | 13.0 MB | ##5 | 25% libcurl-7.87.0 | 351 KB | ########6 | 87%  libcurl-7.87.0 | 351 KB | #########1 | 91%  libcurl-7.87.0 | 351 KB | #########5 | 96%  libcurl-7.87.0 | 351 KB | ########## | 100%  python-3.10.5 | 13.0 MB | ##6 | 27% libcurl-7.87.0 | 351 KB | ########## | 100%  libnghttp2-1.51.0 | 657 KB | ########## | 100%  libnghttp2-1.51.0 | 657 KB | ########## | 100%  python-3.10.5 | 13.0 MB | ### | 31% python-3.10.5 | 13.0 MB | ###6 | 36% python-3.10.5 | 13.0 MB | ###9 | 40% python-3.10.5 | 13.0 MB | ####1 | 42% python-3.10.5 | 13.0 MB | ####5 | 45% python-3.10.5 | 13.0 MB | ####8 | 48% python-3.10.5 | 13.0 MB | #####1 | 52% python-3.10.5 | 13.0 MB | #####3 | 53% python-3.10.5 | 13.0 MB | #####5 | 55% python-3.10.5 | 13.0 MB | #####7 | 58% python-3.10.5 | 13.0 MB | ###### | 61% python-3.10.5 | 13.0 MB | ######4 | 64% python-3.10.5 | 13.0 MB | ######6 | 66% python-3.10.5 | 13.0 MB | ######7 | 68% python-3.10.5 | 13.0 MB | #######1 | 72% python-3.10.5 | 13.0 MB | #######3 | 73% python-3.10.5 | 13.0 MB | #######4 | 74% python-3.10.5 | 13.0 MB | #######5 | 75% python-3.10.5 | 13.0 MB | #######6 | 76% python-3.10.5 | 13.0 MB | #######6 | 77% python-3.10.5 | 13.0 MB | #######7 | 77% python-3.10.5 | 13.0 MB | #######8 | 78% hdf5-1.12.1 | 3.9 MB | ########## | 100%  python-3.10.5 | 13.0 MB | #######8 | 79% python-3.10.5 | 13.0 MB | #######9 | 79% python-3.10.5 | 13.0 MB | ########2 | 82% python-3.10.5 | 13.0 MB | #########9 | 100% hdf5-1.12.1 | 3.9 MB | ########## | 100%  python-3.10.5 | 13.0 MB | ########## | 100% python-3.10.5 | 13.0 MB | ########## | 100%        done Preparing transaction: - \ | / - \ done Verifying transaction: / - \ | / - \ | / - \ | / - \ | / - \ | / - \ | / done Executing transaction: \ | / - \ | / - \ | / - \ | / - \ | / - \ | / - \ | / - \ | / - \ | / done Collecting mofapy2==0.7.0 Using cached mofapy2-0.7.0-py3-none-any.whl.metadata (1.7 kB) Collecting anndata<0.9,>=0.8 (from mofapy2==0.7.0) Using cached anndata-0.8.0-py3-none-any.whl.metadata (4.6 kB) Requirement already satisfied: h5py<4,>=3 in /home/biocbuild/.cache/R/basilisk/1.19.3/MOFA2/1.17.0/mofa_env/lib/python3.10/site-packages (from mofapy2==0.7.0) (3.6.0) Requirement already satisfied: numpy<2.0.0,>=1.21.0 in /home/biocbuild/.cache/R/basilisk/1.19.3/MOFA2/1.17.0/mofa_env/lib/python3.10/site-packages (from mofapy2==0.7.0) (1.23.1) Requirement already satisfied: pandas<2.0.0,>=1.2.0 in /home/biocbuild/.cache/R/basilisk/1.19.3/MOFA2/1.17.0/mofa_env/lib/python3.10/site-packages (from mofapy2==0.7.0) (1.4.3) Requirement already satisfied: scikit-learn<2,>=1 in /home/biocbuild/.cache/R/basilisk/1.19.3/MOFA2/1.17.0/mofa_env/lib/python3.10/site-packages (from mofapy2==0.7.0) (1.1.1) Requirement already satisfied: scipy<2,>=1 in /home/biocbuild/.cache/R/basilisk/1.19.3/MOFA2/1.17.0/mofa_env/lib/python3.10/site-packages (from mofapy2==0.7.0) (1.8.1) Collecting natsort (from anndata<0.9,>=0.8->mofapy2==0.7.0) Using cached natsort-8.4.0-py3-none-any.whl.metadata (21 kB) Collecting packaging>=20 (from anndata<0.9,>=0.8->mofapy2==0.7.0) Using cached packaging-24.2-py3-none-any.whl.metadata (3.2 kB) Requirement already satisfied: python-dateutil>=2.8.1 in /home/biocbuild/.cache/R/basilisk/1.19.3/MOFA2/1.17.0/mofa_env/lib/python3.10/site-packages (from pandas<2.0.0,>=1.2.0->mofapy2==0.7.0) (2.9.0.post0) Requirement already satisfied: pytz>=2020.1 in /home/biocbuild/.cache/R/basilisk/1.19.3/MOFA2/1.17.0/mofa_env/lib/python3.10/site-packages (from pandas<2.0.0,>=1.2.0->mofapy2==0.7.0) (2025.1) Requirement already satisfied: joblib>=1.0.0 in /home/biocbuild/.cache/R/basilisk/1.19.3/MOFA2/1.17.0/mofa_env/lib/python3.10/site-packages (from scikit-learn<2,>=1->mofapy2==0.7.0) (1.4.2) Requirement already satisfied: threadpoolctl>=2.0.0 in /home/biocbuild/.cache/R/basilisk/1.19.3/MOFA2/1.17.0/mofa_env/lib/python3.10/site-packages (from scikit-learn<2,>=1->mofapy2==0.7.0) (3.6.0) Requirement already satisfied: six>=1.5 in /home/biocbuild/.cache/R/basilisk/1.19.3/MOFA2/1.17.0/mofa_env/lib/python3.10/site-packages (from python-dateutil>=2.8.1->pandas<2.0.0,>=1.2.0->mofapy2==0.7.0) (1.17.0) Using cached mofapy2-0.7.0-py3-none-any.whl (1.0 MB) Using cached anndata-0.8.0-py3-none-any.whl (96 kB) Using cached packaging-24.2-py3-none-any.whl (65 kB) Using cached natsort-8.4.0-py3-none-any.whl (38 kB) Installing collected packages: packaging, natsort, anndata, mofapy2 Successfully installed anndata-0.8.0 mofapy2-0.7.0 natsort-8.4.0 packaging-24.2 --- finished re-building ‘getting_started_R.Rmd’ SUMMARY: processing the following file failed: ‘MEFISTO_temporal.Rmd’ Error: Vignette re-building failed. Execution halted