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bvieth / powsimR

Power analysis is essential to optimize the design of RNA-seq experiments and to assess and compare the power to detect differentially expressed genes. PowsimR is a flexible tool to simulate and evaluate differential expression from bulk and especially single-cell RNA-seq data making it suitable for a priori and posterior power analyses.
https://bvieth.github.io/powsimR/
Artistic License 2.0
103 stars 23 forks source link

Package installation failed #55

Closed rjb67 closed 11 months ago

rjb67 commented 3 years ago

I'm working on trying to this package to try it out and keep running into issues. I run the following code after installing the dependencies as suggested in the installation guide:

devtools::install_github("bvieth/powsimR", build_vignettes = TRUE, dependencies = FALSE)

Doing this, I get the following output:

`✓ checking for file ‘/private/var/folders/jb/kvywbk4j6xg_c0h748ttbklh0000gq/T/RtmpfwkzCi/remotes1412126554b05/bvieth-powsimR-49fd951/DESCRIPTION’ ... ─ preparing ‘powsimR’: ✓ checking DESCRIPTION meta-information ... ─ installing the package to build vignettes

─ installing source package ‘powsimR’ ... using staged installation R ** data * moving datasets to lazyload DB inst ** byte-compile and prepare package for lazy loading Warning: replacing previous import ‘DECENT::lrTest’ by ‘MAST::lrTest’ when loading ‘powsimR’ Warning in system2(command = python, args = shQuote(config_script), stdout = TRUE, : running command ''/usr/local/bin/python' '/Library/Frameworks/R.framework/Versions/4.0/Resources/library/reticulate/config/config.py' 2>/dev/null' had status 126 Error: .onLoad failed in loadNamespace() for 'Rmagic', details: call: python_config(python_version, required_module, python_versions) error: Error 126 occurred running /usr/local/bin/python Execution halted ERROR: lazy loading failed for package ‘powsimR’ ─ removing ‘/private/var/folders/jb/kvywbk4j6xg_c0h748ttbklh0000gq/T/RtmpaT9cAI/Rinst1415b2778158f/powsimR’

ERROR: package installation failed Error: Failed to install 'powsimR' from GitHub: System command 'R' failed, exit status: 1, stdout + stderr (last 10 lines): E> Warning in system2(command = python, args = shQuote(config_script), stdout = TRUE, : E> running command ''/usr/local/bin/python' '/Library/Frameworks/R.framework/Versions/4.0/Resources/library/reticulate/config/config.py' 2>/dev/null' had status 126 E> Error: .onLoad failed in loadNamespace() for 'Rmagic', details: E> call: python_config(python_version, required_module, python_versions) E> error: Error 126 occurred running /usr/local/bin/python E> Execution halted E> ERROR: lazy loading failed for package ‘powsimR’ E> * removing ‘/private/var/folders/jb/kvywbk4j6xg_c0h748ttbklh0000gq/T/RtmpaT9cAI/Rinst1415b2778158f/powsimR’ E> ----------------------------------- E> ERROR: package installation failed`

Here is my sessionInfo:

`R version 4.0.3 (2020-10-10) Platform: x86_64-apple-darwin17.0 (64-bit) Running under: macOS Big Sur 10.16

Matrix products: default LAPACK: /Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libRlapack.dylib

locale: [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8

attached base packages: [1] stats graphics grDevices utils datasets methods base

loaded via a namespace (and not attached): [1] rstudioapi_0.13 magrittr_2.0.1 usethis_2.0.1 devtools_2.3.2 pkgload_1.2.0
[6] R6_2.5.0 rlang_0.4.10 fastmap_1.1.0 tools_4.0.3 pkgbuild_1.2.0
[11] sessioninfo_1.1.1 cli_2.3.1 withr_2.4.1 ellipsis_0.3.1 remotes_2.2.0
[16] assertthat_0.2.1 rprojroot_2.0.2 lifecycle_1.0.0 crayon_1.4.1 processx_3.4.5
[21] purrr_0.3.4 callr_3.5.1 fs_1.5.0 ps_1.6.0 curl_4.3
[26] testthat_3.0.2 memoise_2.0.0 glue_1.4.2 cachem_1.0.4 compiler_4.0.3
[31] desc_1.3.0 prettyunits_1.1.1`

bvieth commented 11 months ago

Hey,

I have removed the Rmagic dependency in the powsimR version on the lite branch. You can install it using: remotes::install_github("bvieth/powsimR", ref = "lite", dependencies = TRUE, upgrade = "ask")

HTH Beate