############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data velociraptor ### ############################################################################## ############################################################################## * checking for file ‘velociraptor/DESCRIPTION’ ... OK * preparing ‘velociraptor’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘velociraptor.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/1.20.0/velociraptor/1.18.0/env added / updated specs: - python=3.12.8 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/noarch::ca-certificates-2025.4.26-hbd8a1cb_0 ld_impl_linux-aar~ conda-forge/linux-aarch64::ld_impl_linux-aarch64-2.43-h80caac9_4 libexpat conda-forge/linux-aarch64::libexpat-2.7.0-h5ad3122_0 libffi conda-forge/linux-aarch64::libffi-3.4.6-he21f813_1 libgcc conda-forge/linux-aarch64::libgcc-15.1.0-he277a41_2 libgcc-ng conda-forge/linux-aarch64::libgcc-ng-15.1.0-he9431aa_2 libgomp conda-forge/linux-aarch64::libgomp-15.1.0-he277a41_2 liblzma conda-forge/linux-aarch64::liblzma-5.8.1-h86ecc28_1 libnsl conda-forge/linux-aarch64::libnsl-2.0.1-h31becfc_0 libsqlite conda-forge/linux-aarch64::libsqlite-3.50.0-h5eb1b54_0 libuuid conda-forge/linux-aarch64::libuuid-2.38.1-hb4cce97_0 libxcrypt conda-forge/linux-aarch64::libxcrypt-4.4.36-h31becfc_1 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-3.5.0-hd08dc88_1 pip conda-forge/noarch::pip-25.1.1-pyh8b19718_0 python conda-forge/linux-aarch64::python-3.12.8-h1683364_1_cpython readline conda-forge/linux-aarch64::readline-8.2-h8382b9d_2 setuptools conda-forge/noarch::setuptools-80.8.0-pyhff2d567_0 tk conda-forge/linux-aarch64::tk-8.6.13-noxft_h5688188_102 tzdata conda-forge/noarch::tzdata-2025b-h78e105d_0 wheel conda-forge/noarch::wheel-0.45.1-pyhd8ed1ab_1 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: 25.5.0 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... failed LibMambaUnsatisfiableError: Encountered problems while solving: - package pillow-10.0.0-py38hc8bea21_0 requires python_abi 3.8 *_pypy38_pp73, but none of the providers can be installed Could not solve for environment specs The following packages are incompatible ├─ libtiff 4.5.1** is requested and can be installed; ├─ pillow 10.0.0** is installable with the potential options │ ├─ pillow 10.0.0 would require │ │ └─ python_abi 3.8 *_pypy38_pp73, which can be installed; │ ├─ pillow 10.0.0 would require │ │ └─ libtiff >=4.6.0,<4.8.0a0 , which conflicts with any installable versions previously reported; │ ├─ pillow 10.0.0 would require │ │ └─ python_abi 3.10.* *_cp310, which can be installed; │ ├─ pillow 10.0.0 would require │ │ └─ python_abi 3.11.* *_cp311, which can be installed; │ ├─ pillow 10.0.0 would require │ │ └─ python_abi 3.8.* *_cp38, which can be installed; │ ├─ pillow 10.0.0 would require │ │ └─ python_abi 3.9.* *_cp39, which can be installed; │ └─ pillow 10.0.0 would require │ └─ python_abi 3.9 *_pypy39_pp73, which can be installed; └─ python 3.12.8** is not installable because it conflicts with any installable versions previously reported. Quitting from velociraptor.Rmd:75-82 [unnamed-chunk-5] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: ! one or more Python packages failed to install [error code 1] --- Backtrace: ▆ 1. ├─velociraptor::scvelo(...) 2. └─velociraptor::scvelo(...) 3. └─velociraptor (local) .local(x, ...) 4. ├─methods::callNextMethod(x, ..., sf.X = sf.X, dimred = dimred) 5. │ └─base::eval(call, callEnv) 6. │ └─base::eval(call, callEnv) 7. └─velociraptor (local) .nextMethod(x, ..., sf.X = sf.X, dimred = dimred) 8. └─velociraptor (local) .local(x, ...) 9. └─velociraptor:::.scvelo(...) 10. └─basilisk::basiliskRun(...) 11. └─basilisk::basiliskStart(...) 12. └─basilisk::obtainEnvironmentPath(env) 13. └─basilisk::setupBasiliskEnv(...) 14. └─reticulate::conda_install(...) 15. └─reticulate:::stopf(fmt, result) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'velociraptor.Rmd' failed with diagnostics: one or more Python packages failed to install [error code 1] --- failed re-building ‘velociraptor.Rmd’ SUMMARY: processing the following file failed: ‘velociraptor.Rmd’ Error: Vignette re-building failed. Execution halted