Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2024-12-24 11:47 -0500 (Tue, 24 Dec 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" | 4754 |
palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" | 4472 |
lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4426 |
kjohnson3 | macOS 13.7.1 Ventura | arm64 | R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" | 4381 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" | 4373 |
Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X |
Package 2268/2274 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
zellkonverter 1.17.0 (landing page) Luke Zappia
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson3 | macOS 13.7.1 Ventura / arm64 | OK | OK | OK | OK | |||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | ERROR | ||||||||||
To the developers/maintainers of the zellkonverter package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/zellkonverter.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
Package: zellkonverter |
Version: 1.17.0 |
Command: /home/biocbuild/R/R/bin/R CMD check --install=check:zellkonverter.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings zellkonverter_1.17.0.tar.gz |
StartedAt: 2024-12-24 12:40:08 -0000 (Tue, 24 Dec 2024) |
EndedAt: 2024-12-24 12:52:57 -0000 (Tue, 24 Dec 2024) |
EllapsedTime: 769.0 seconds |
RetCode: 1 |
Status: ERROR |
CheckDir: zellkonverter.Rcheck |
Warnings: NA |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD check --install=check:zellkonverter.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings zellkonverter_1.17.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/zellkonverter.Rcheck’ * using R Under development (unstable) (2024-11-24 r87369) * using platform: aarch64-unknown-linux-gnu * R was compiled by aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0 GNU Fortran (GCC) 14.2.0 * running under: openEuler 24.03 (LTS) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘zellkonverter/DESCRIPTION’ ... OK * this is package ‘zellkonverter’ version ‘1.17.0’ * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘zellkonverter’ can be installed ... NOTE Found the following notes/warnings: Non-staged installation was used See ‘/home/biocbuild/bbs-3.21-bioc/meat/zellkonverter.Rcheck/00install.out’ for details. * checking installed package size ... OK * checking package directory ... OK * checking ‘build’ directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking code files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the package can be unloaded cleanly ... OK * checking whether the namespace can be loaded with stated dependencies ... OK * checking whether the namespace can be unloaded cleanly ... OK * checking loading without being on the library search path ... OK * checking dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... OK * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd cross-references ... NOTE Found the following Rd file(s) with Rd \link{} targets missing package anchors: AnnData-Conversion.Rd: SingleCellExperiment-class, dgCMatrix-class, int_metadata, metadata, rowData, DataFrame-class expectSCE.Rd: SingleCellExperiment-class readH5AD.Rd: SingleCellExperiment-class validateH5ADSCE.Rd: SingleCellExperiment-class writeH5AD.Rd: SingleCellExperiment-class Please provide package anchors for all Rd \link{} targets not in the package itself and the base packages. * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking line endings in shell scripts ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed AnnData-Conversion 22.98 1.313 36.752 * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘spelling.R’ Running ‘testthat.R’ ERROR Running the tests in ‘tests/testthat.R’ failed. Last 13 lines of output: ── Error ('test-write.R:167:5'): writeH5AD works as expected with version 0.7.6 ── Error: one or more Python packages failed to install [error code 1] Backtrace: ▆ 1. └─zellkonverter::writeH5AD(sce, temp, version = "0.7.6") at test-write.R:167:5 2. └─basilisk::basiliskRun(...) 3. └─basilisk::basiliskStart(...) 4. └─basilisk::obtainEnvironmentPath(env) 5. └─basilisk::setupBasiliskEnv(...) 6. └─reticulate::conda_install(...) 7. └─reticulate:::stopf(fmt, result) [ FAIL 2 | WARN 24 | SKIP 4 | PASS 152 ] Error: Test failures Execution halted * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 1 ERROR, 2 NOTEs See ‘/home/biocbuild/bbs-3.21-bioc/meat/zellkonverter.Rcheck/00check.log’ for details.
zellkonverter.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL zellkonverter ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.5.0-devel_2024-11-24/site-library’ * installing *source* package ‘zellkonverter’ ... ** using non-staged installation via StagedInstall field ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded * DONE (zellkonverter)
zellkonverter.Rcheck/tests/spelling.Rout
R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: aarch64-unknown-linux-gnu R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > if (requireNamespace("spelling", quietly = TRUE)) { + spelling::spell_check_test( + vignettes = TRUE, + error = FALSE, + skip_on_cran = TRUE + ) + } NULL > > proc.time() user system elapsed 0.212 0.025 0.403
zellkonverter.Rcheck/tests/testthat.Rout.fail
R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: aarch64-unknown-linux-gnu R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > library(testthat) > library(zellkonverter) Registered S3 method overwritten by 'zellkonverter': method from py_to_r.pandas.core.arrays.categorical.Categorical reticulate > > test_check("zellkonverter") 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/1.19.0/zellkonverter/1.17.0/zellkonverterAnnDataEnv-0.7.6 added / updated specs: - python=3.7.10 The following NEW packages will be INSTALLED: _openmp_mutex conda-forge/linux-aarch64::_openmp_mutex-4.5-2_gnu ca-certificates conda-forge/linux-aarch64::ca-certificates-2024.12.14-hcefe29a_0 ld_impl_linux-aar~ conda-forge/linux-aarch64::ld_impl_linux-aarch64-2.43-h80caac9_2 libffi conda-forge/linux-aarch64::libffi-3.4.2-h3557bc0_5 libgcc conda-forge/linux-aarch64::libgcc-14.2.0-he277a41_1 libgcc-ng conda-forge/linux-aarch64::libgcc-ng-14.2.0-he9431aa_1 libgomp conda-forge/linux-aarch64::libgomp-14.2.0-he277a41_1 liblzma conda-forge/linux-aarch64::liblzma-5.6.3-h86ecc28_1 liblzma-devel conda-forge/linux-aarch64::liblzma-devel-5.6.3-h86ecc28_1 libnsl conda-forge/linux-aarch64::libnsl-2.0.1-h31becfc_0 libsqlite conda-forge/linux-aarch64::libsqlite-3.47.2-h5eb1b54_0 libstdcxx conda-forge/linux-aarch64::libstdcxx-14.2.0-h3f4de04_1 libstdcxx-ng conda-forge/linux-aarch64::libstdcxx-ng-14.2.0-hf1166c9_1 libzlib conda-forge/linux-aarch64::libzlib-1.3.1-h86ecc28_2 ncurses conda-forge/linux-aarch64::ncurses-6.5-hcccb83c_1 openssl conda-forge/linux-aarch64::openssl-3.4.0-h86ecc28_0 pip conda-forge/noarch::pip-24.0-pyhd8ed1ab_0 python conda-forge/linux-aarch64::python-3.7.10-h47f6e27_104_cpython readline conda-forge/linux-aarch64::readline-8.2-h8fc344f_1 setuptools conda-forge/noarch::setuptools-69.0.3-pyhd8ed1ab_0 sqlite conda-forge/linux-aarch64::sqlite-3.47.2-h578a6b9_0 tk conda-forge/linux-aarch64::tk-8.6.13-h194ca79_0 wheel conda-forge/noarch::wheel-0.42.0-pyhd8ed1ab_0 xz conda-forge/linux-aarch64::xz-5.6.3-h2dbfc1b_1 xz-gpl-tools conda-forge/linux-aarch64::xz-gpl-tools-5.6.3-h2dbfc1b_1 xz-tools conda-forge/linux-aarch64::xz-tools-5.6.3-h86ecc28_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: 24.3.0 latest version: 24.11.2 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: - nothing provides requested anndata 0.7.6** - package python-3.7.10-h47f6e27_104_cpython requires sqlite >=3.36.0,<4.0a0, but none of the providers can be installed Could not solve for environment specs The following packages are incompatible ├─ anndata 0.7.6** does not exist (perhaps a typo or a missing channel); ├─ h5py 3.2.1** is installable with the potential options │ ├─ h5py 3.2.1 would require │ │ └─ python_abi 3.7.* *_cp37m with the potential options │ │ ├─ python_abi 3.7, which can be installed; │ │ └─ python_abi 3.7 would require │ │ └─ python 3.7.* *_cpython, which can be installed; │ ├─ h5py 3.2.1 would require │ │ └─ python >=3.8,<3.9.0a0 with the potential options │ │ ├─ python [3.7.10|3.8.10|3.8.12|3.9.6|3.9.7] would require │ │ │ └─ sqlite >=3.36.0,<4.0a0 , which can be installed; │ │ ├─ python [3.8.0|3.8.1|...|3.8.8], which can be installed; │ │ └─ python [3.8.12|3.8.13|3.9.10|3.9.12] would require │ │ ├─ pypy3.8 7.3.8.* , which requires │ │ │ └─ sqlite >=3.37.1,<4.0a0 , which can be installed; │ │ ├─ pypy3.9 7.3.8.* , which requires │ │ │ └─ sqlite >=3.37.1,<4.0a0 , which can be installed; │ │ └─ sqlite >=3.37.1,<4.0a0 , which can be installed; │ ├─ h5py 3.2.1 would require │ │ └─ python >=3.9,<3.10.0a0 with the potential options │ │ ├─ python [3.7.10|3.8.10|3.8.12|3.9.6|3.9.7], which can be installed (as previously explained); │ │ ├─ python [3.8.12|3.8.13|3.9.10|3.9.12], which can be installed (as previously explained); │ │ ├─ python [3.9.0|3.9.1|...|3.9.5], which can be installed; │ │ ├─ python [3.9.10|3.9.9] would require │ │ │ └─ sqlite >=3.37.0,<4.0a0 , which can be installed; │ │ └─ python 3.9.13 would require │ │ └─ sqlite >=3.38.5,<4.0a0 , which can be installed; │ ├─ h5py 3.2.1 would require │ │ ├─ python >=3.8,<3.9.0a0 with the potential options │ │ │ ├─ python [3.7.10|3.8.10|3.8.12|3.9.6|3.9.7], which can be installed (as previously explained); │ │ │ ├─ python [3.8.0|3.8.1|...|3.8.8], which can be installed; │ │ │ └─ python [3.8.12|3.8.13|3.9.10|3.9.12], which can be installed (as previously explained); │ │ └─ python_abi 3.8.* *_cp38, which can be installed; │ └─ h5py 3.2.1 would require │ ├─ python >=3.9,<3.10.0a0 with the potential options │ │ ├─ python [3.7.10|3.8.10|3.8.12|3.9.6|3.9.7], which can be installed (as previously explained); │ │ ├─ python [3.8.12|3.8.13|3.9.10|3.9.12], which can be installed (as previously explained); │ │ ├─ python [3.9.0|3.9.1|...|3.9.5], which can be installed; │ │ ├─ python [3.9.10|3.9.9], which can be installed (as previously explained); │ │ └─ python 3.9.13, which can be installed (as previously explained); │ └─ python_abi 3.9.* *_cp39, which can be installed; ├─ python 3.7.10.*,3.7.10.* is installable with the potential options │ ├─ python 3.7.10 conflicts with any installable versions previously reported; │ ├─ python [3.7.10|3.8.10|3.8.12|3.9.6|3.9.7], which can be installed (as previously explained); │ └─ python 3.7.10 would require │ └─ python_abi 3.7.* *_cp37m, which conflicts with any installable versions previously reported; ├─ scipy 1.6.3** is installable with the potential options │ ├─ scipy 1.6.3 would require │ │ └─ python_abi 3.7 *_pypy37_pp73, which conflicts with any installable versions previously reported; │ ├─ scipy 1.6.3 would require │ │ ├─ python >=3.8,<3.9.0a0 with the potential options │ │ │ ├─ python [3.7.10|3.8.10|3.8.12|3.9.6|3.9.7], which can be installed (as previously explained); │ │ │ ├─ python [3.8.0|3.8.1|...|3.8.8], which can be installed; │ │ │ └─ python [3.8.12|3.8.13|3.9.10|3.9.12], which can be installed (as previously explained); │ │ └─ python_abi 3.8.* *_cp38, which can be installed; │ └─ scipy 1.6.3 would require │ ├─ python >=3.9,<3.10.0a0 with the potential options │ │ ├─ python [3.7.10|3.8.10|3.8.12|3.9.6|3.9.7], which can be installed (as previously explained); │ │ ├─ python [3.8.12|3.8.13|3.9.10|3.9.12], which can be installed (as previously explained); │ │ ├─ python [3.9.0|3.9.1|...|3.9.5], which can be installed; │ │ ├─ python [3.9.10|3.9.9], which can be installed (as previously explained); │ │ └─ python 3.9.13, which can be installed (as previously explained); │ └─ python_abi 3.9.* *_cp39, which can be installed; └─ sqlite 3.35.5** is not installable because it conflicts with any installable versions previously reported. sys:1: FutureWarning: X.dtype being converted to np.float32 from float64. In the next version of anndata (0.9) conversion will not be automatic. Pass dtype explicitly to avoid this warning. Pass `AnnData(X, dtype=X.dtype, ...)` to get the future behavour. 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/1.19.0/zellkonverter/1.17.0/zellkonverterAnnDataEnv-0.7.6 added / updated specs: - python=3.7.10 The following NEW packages will be INSTALLED: _openmp_mutex conda-forge/linux-aarch64::_openmp_mutex-4.5-2_gnu ca-certificates conda-forge/linux-aarch64::ca-certificates-2024.12.14-hcefe29a_0 ld_impl_linux-aar~ conda-forge/linux-aarch64::ld_impl_linux-aarch64-2.43-h80caac9_2 libffi conda-forge/linux-aarch64::libffi-3.4.2-h3557bc0_5 libgcc conda-forge/linux-aarch64::libgcc-14.2.0-he277a41_1 libgcc-ng conda-forge/linux-aarch64::libgcc-ng-14.2.0-he9431aa_1 libgomp conda-forge/linux-aarch64::libgomp-14.2.0-he277a41_1 liblzma conda-forge/linux-aarch64::liblzma-5.6.3-h86ecc28_1 liblzma-devel conda-forge/linux-aarch64::liblzma-devel-5.6.3-h86ecc28_1 libnsl conda-forge/linux-aarch64::libnsl-2.0.1-h31becfc_0 libsqlite conda-forge/linux-aarch64::libsqlite-3.47.2-h5eb1b54_0 libstdcxx conda-forge/linux-aarch64::libstdcxx-14.2.0-h3f4de04_1 libstdcxx-ng conda-forge/linux-aarch64::libstdcxx-ng-14.2.0-hf1166c9_1 libzlib conda-forge/linux-aarch64::libzlib-1.3.1-h86ecc28_2 ncurses conda-forge/linux-aarch64::ncurses-6.5-hcccb83c_1 openssl conda-forge/linux-aarch64::openssl-3.4.0-h86ecc28_0 pip conda-forge/noarch::pip-24.0-pyhd8ed1ab_0 python conda-forge/linux-aarch64::python-3.7.10-h47f6e27_104_cpython readline conda-forge/linux-aarch64::readline-8.2-h8fc344f_1 setuptools conda-forge/noarch::setuptools-69.0.3-pyhd8ed1ab_0 sqlite conda-forge/linux-aarch64::sqlite-3.47.2-h578a6b9_0 tk conda-forge/linux-aarch64::tk-8.6.13-h194ca79_0 wheel conda-forge/noarch::wheel-0.42.0-pyhd8ed1ab_0 xz conda-forge/linux-aarch64::xz-5.6.3-h2dbfc1b_1 xz-gpl-tools conda-forge/linux-aarch64::xz-gpl-tools-5.6.3-h2dbfc1b_1 xz-tools conda-forge/linux-aarch64::xz-tools-5.6.3-h86ecc28_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: 24.3.0 latest version: 24.11.2 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: - nothing provides requested anndata 0.7.6** - package python-3.7.10-h47f6e27_104_cpython requires sqlite >=3.36.0,<4.0a0, but none of the providers can be installed Could not solve for environment specs The following packages are incompatible ├─ anndata 0.7.6** does not exist (perhaps a typo or a missing channel); ├─ h5py 3.2.1** is installable with the potential options │ ├─ h5py 3.2.1 would require │ │ └─ python_abi 3.7.* *_cp37m with the potential options │ │ ├─ python_abi 3.7, which can be installed; │ │ └─ python_abi 3.7 would require │ │ └─ python 3.7.* *_cpython, which can be installed; │ ├─ h5py 3.2.1 would require │ │ └─ python >=3.8,<3.9.0a0 with the potential options │ │ ├─ python [3.7.10|3.8.10|3.8.12|3.9.6|3.9.7] would require │ │ │ └─ sqlite >=3.36.0,<4.0a0 , which can be installed; │ │ ├─ python [3.8.0|3.8.1|...|3.8.8], which can be installed; │ │ └─ python [3.8.12|3.8.13|3.9.10|3.9.12] would require │ │ ├─ pypy3.8 7.3.8.* , which requires │ │ │ └─ sqlite >=3.37.1,<4.0a0 , which can be installed; │ │ ├─ pypy3.9 7.3.8.* , which requires │ │ │ └─ sqlite >=3.37.1,<4.0a0 , which can be installed; │ │ └─ sqlite >=3.37.1,<4.0a0 , which can be installed; │ ├─ h5py 3.2.1 would require │ │ └─ python >=3.9,<3.10.0a0 with the potential options │ │ ├─ python [3.7.10|3.8.10|3.8.12|3.9.6|3.9.7], which can be installed (as previously explained); │ │ ├─ python [3.8.12|3.8.13|3.9.10|3.9.12], which can be installed (as previously explained); │ │ ├─ python [3.9.0|3.9.1|...|3.9.5], which can be installed; │ │ ├─ python [3.9.10|3.9.9] would require │ │ │ └─ sqlite >=3.37.0,<4.0a0 , which can be installed; │ │ └─ python 3.9.13 would require │ │ └─ sqlite >=3.38.5,<4.0a0 , which can be installed; │ ├─ h5py 3.2.1 would require │ │ ├─ python >=3.8,<3.9.0a0 with the potential options │ │ │ ├─ python [3.7.10|3.8.10|3.8.12|3.9.6|3.9.7], which can be installed (as previously explained); │ │ │ ├─ python [3.8.0|3.8.1|...|3.8.8], which can be installed; │ │ │ └─ python [3.8.12|3.8.13|3.9.10|3.9.12], which can be installed (as previously explained); │ │ └─ python_abi 3.8.* *_cp38, which can be installed; │ └─ h5py 3.2.1 would require │ ├─ python >=3.9,<3.10.0a0 with the potential options │ │ ├─ python [3.7.10|3.8.10|3.8.12|3.9.6|3.9.7], which can be installed (as previously explained); │ │ ├─ python [3.8.12|3.8.13|3.9.10|3.9.12], which can be installed (as previously explained); │ │ ├─ python [3.9.0|3.9.1|...|3.9.5], which can be installed; │ │ ├─ python [3.9.10|3.9.9], which can be installed (as previously explained); │ │ └─ python 3.9.13, which can be installed (as previously explained); │ └─ python_abi 3.9.* *_cp39, which can be installed; ├─ python 3.7.10.*,3.7.10.* is installable with the potential options │ ├─ python 3.7.10 conflicts with any installable versions previously reported; │ ├─ python [3.7.10|3.8.10|3.8.12|3.9.6|3.9.7], which can be installed (as previously explained); │ └─ python 3.7.10 would require │ └─ python_abi 3.7.* *_cp37m, which conflicts with any installable versions previously reported; ├─ scipy 1.6.3** is installable with the potential options │ ├─ scipy 1.6.3 would require │ │ └─ python_abi 3.7 *_pypy37_pp73, which conflicts with any installable versions previously reported; │ ├─ scipy 1.6.3 would require │ │ ├─ python >=3.8,<3.9.0a0 with the potential options │ │ │ ├─ python [3.7.10|3.8.10|3.8.12|3.9.6|3.9.7], which can be installed (as previously explained); │ │ │ ├─ python [3.8.0|3.8.1|...|3.8.8], which can be installed; │ │ │ └─ python [3.8.12|3.8.13|3.9.10|3.9.12], which can be installed (as previously explained); │ │ └─ python_abi 3.8.* *_cp38, which can be installed; │ └─ scipy 1.6.3 would require │ ├─ python >=3.9,<3.10.0a0 with the potential options │ │ ├─ python [3.7.10|3.8.10|3.8.12|3.9.6|3.9.7], which can be installed (as previously explained); │ │ ├─ python [3.8.12|3.8.13|3.9.10|3.9.12], which can be installed (as previously explained); │ │ ├─ python [3.9.0|3.9.1|...|3.9.5], which can be installed; │ │ ├─ python [3.9.10|3.9.9], which can be installed (as previously explained); │ │ └─ python 3.9.13, which can be installed (as previously explained); │ └─ python_abi 3.9.* *_cp39, which can be installed; └─ sqlite 3.35.5** is not installable because it conflicts with any installable versions previously reported. [ FAIL 2 | WARN 24 | SKIP 4 | PASS 152 ] ══ Skipped tests (4) ═══════════════════════════════════════════════════════════ • On CRAN (4): 'test-read.R:192:5', 'test-read.R:234:5', 'test-zzz-anndata.R:6:5', 'test-zzz-anndata.R:63:5' ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test-read.R:72:5'): Reading H5AD works with version 0.7.6 ─────────── Error: one or more Python packages failed to install [error code 1] Backtrace: ▆ 1. └─zellkonverter::readH5AD(file, version = "0.7.6") at test-read.R:72:5 2. └─basilisk::basiliskRun(...) 3. └─basilisk::basiliskStart(...) 4. └─basilisk::obtainEnvironmentPath(env) 5. └─basilisk::setupBasiliskEnv(...) 6. └─reticulate::conda_install(...) 7. └─reticulate:::stopf(fmt, result) ── Error ('test-write.R:167:5'): writeH5AD works as expected with version 0.7.6 ── Error: one or more Python packages failed to install [error code 1] Backtrace: ▆ 1. └─zellkonverter::writeH5AD(sce, temp, version = "0.7.6") at test-write.R:167:5 2. └─basilisk::basiliskRun(...) 3. └─basilisk::basiliskStart(...) 4. └─basilisk::obtainEnvironmentPath(env) 5. └─basilisk::setupBasiliskEnv(...) 6. └─reticulate::conda_install(...) 7. └─reticulate:::stopf(fmt, result) [ FAIL 2 | WARN 24 | SKIP 4 | PASS 152 ] Error: Test failures Execution halted
zellkonverter.Rcheck/zellkonverter-Ex.timings
name | user | system | elapsed | |
AnnData-Conversion | 22.980 | 1.313 | 36.752 | |
AnnData-Environment | 0.007 | 0.000 | 0.007 | |
readH5AD | 1.005 | 0.076 | 1.374 | |
setZellkonverterVerbose | 0.001 | 0.000 | 0.001 | |
writeH5AD | 3.245 | 0.319 | 4.532 | |