Back to Multiple platform build/check report for BioC 3.21:   simplified   long
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This page was generated on 2024-12-24 11:47 -0500 (Tue, 24 Dec 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.1 LTS)x86_64R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" 4754
palomino7Windows Server 2022 Datacenterx64R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" 4472
lconwaymacOS 12.7.1 Montereyx86_64R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" 4426
kjohnson3macOS 13.7.1 Venturaarm64R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" 4381
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch64R 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 2268/2274HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
zellkonverter 1.17.0  (landing page)
Luke Zappia
Snapshot Date: 2024-12-23 13:40 -0500 (Mon, 23 Dec 2024)
git_url: https://git.bioconductor.org/packages/zellkonverter
git_branch: devel
git_last_commit: 5381a5a
git_last_commit_date: 2024-11-21 11:40:57 -0500 (Thu, 21 Nov 2024)
nebbiolo1Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino7Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.1 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
kunpeng2Linux (openEuler 22.03 LTS-SP1) / aarch64  OK    OK    ERROR  


CHECK results for zellkonverter on kunpeng2

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.

raw results


Summary

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

Command output

##############################################################################
##############################################################################
###
### 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.


Installation output

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)

Tests output

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

Example timings

zellkonverter.Rcheck/zellkonverter-Ex.timings

nameusersystemelapsed
AnnData-Conversion22.980 1.31336.752
AnnData-Environment0.0070.0000.007
readH5AD1.0050.0761.374
setZellkonverterVerbose0.0010.0000.001
writeH5AD3.2450.3194.532