【发布时间】：2021-04-26 13:23:05
【问题描述】：
我正在尝试向 CRAN 提交一个 R 包。我正处于使用 check_rhub() 对其进行测试的阶段。如果我使用 linux-x86_64-centos-epel 或 windows-x86_64-release 之类的平台，它可以毫无问题地安装。但是，当我尝试使用其中一种 debian 平台时，例如 debian-clang-devel，它会尝试安装 BiocManager 管理器，然后失败并出现错误
Error: Bioconductor version '3.13' requires R version '4.1'; R version is too new; see
https://bioconductor.org/install
Execution halted
这很奇怪，因为我的包不需要 bioconductor，而且我在任何依赖项列表中都没有 BiocManager。其实有一个依赖，reticulate，我的DESCRIPTION看起来是这样的
Imports:
reticulate
来自 check_rhub() 的完整错误跟踪是
❯ Build failed during preparation or aborted
[...]
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.
> install.packages('BiocManager')
Installing package into '/home/docker/R'
(as 'lib' is unspecified)
trying URL 'https://cloud.r-project.org/src/contrib/BiocManager_1.30.12.tar.gz'
Content type 'application/x-gzip' length 261321 bytes (255 KB)
==================================================
downloaded 255 KB
* installing *source* package 'BiocManager' ...
** package 'BiocManager' successfully unpacked and MD5 sums checked
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (BiocManager)
The downloaded source packages are in
'/tmp/RtmpOzRXET/downloaded_packages'
>
>
─ Querying package dependencies
% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
100 162k 100 162k 0 0 802k 0 --:--:-- --:--:-- --:--:-- 802k
R Under development (unstable) (2021-04-25 r80223) -- "Unsuffered Consequences"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)
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.
Natural language support but running in an English locale
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.
Error: Bioconductor version '3.13' requires R version '4.1'; R version is too new; see
https://bioconductor.org/install
Execution halted
─ Installing package dependencies
/opt/R-devel/bin:/usr/local/bin:/usr/bin:/bin:/usr/local/games:/usr/games
clang
Debian clang version 11.0.1-2
Target: x86_64-pc-linux-gnu
Thread model: posix
InstalledDir: /usr/bin
clang++ -std=gnu++14
Debian clang version 11.0.1-2
Target: x86_64-pc-linux-gnu
Thread model: posix
InstalledDir: /usr/bin
Pandoc:
/usr/bin/pandoc
-rwxr-xr-x 1 root root 63606952 Apr 26 06:04 /usr/bin/pandoc
-rwxr-xr-x 1 root root 58111640 Apr 26 06:04 /usr/bin/pandoc-citeproc
R Under development (unstable) (2021-04-25 r80223) -- "Unsuffered Consequences"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)
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.
Natural language support but running in an English locale
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.
Error: Bioconductor version '3.13' requires R version '4.1'; R version is too new; see
https://bioconductor.org/install
Execution halted
Error: Bioconductor version '3.13' requires R version '4.1'; R version is too new; see
https://bioconductor.org/install
Execution halted
Build step 'Execute shell' marked build as failure
【问题讨论】：
-
它可以在稳定的 Debian 平台上运行吗？这看起来像是一个只会在 R-devel 平台上发生的问题（无论发行版）。另外，您有任何建议或需要的软件包吗？无论如何，问题似乎是由BiocManager package itself 引起的，它正在经历一个解释（临时）版本不匹配的发布周期。