# 安装BiocManager（如未安装）
> if (!require("BiocManager", quietly = TRUE))
+ install.packages("BiocManager")
> # 设置使用Bioconductor 3.14（适配R 4.1.2）
> BiocManager::install(version = "3.14")
'getOption("repos")' replaces Bioconductor standard repositories,
see 'help("repositories", package = "BiocManager")' for details.
Replacement repositories:
CRAN: http://mirrors.tuna.tsinghua.edu.cn/CRAN/
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/bioc/src/contrib:
cannot open URL 'http://mirrors.ustc.edu.cn/bioc//packages/3.14/bioc/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/annotation/src/contrib:
cannot open URL 'http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/annotation/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/experiment/src/contrib:
cannot open URL 'http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/experiment/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/workflows/src/contrib:
cannot open URL 'http://mirrors.ustc.edu.cn/bioc//packages/3.14/workflows/src/contrib/PACKAGES'
Bioconductor version 3.14 (BiocManager 1.30.26), R 4.1.2
(2021-11-01)
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/bioc/src/contrib:
cannot open URL 'http://mirrors.ustc.edu.cn/bioc//packages/3.14/bioc/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/annotation/src/contrib:
cannot open URL 'http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/annotation/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/experiment/src/contrib:
cannot open URL 'http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/experiment/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/workflows/src/contrib:
cannot open URL 'http://mirrors.ustc.edu.cn/bioc//packages/3.14/workflows/src/contrib/PACKAGES'
Old packages: 'backports', 'boot', 'class', 'cli', 'cluster',
'codetools', 'dplyr', 'farver', 'foreign', 'ggrepel', 'glue',
'KernSmooth', 'lattice', 'lme4', 'mgcv', 'minqa', 'nlme',
'nloptr', 'nnet', 'purrr', 'quantreg', 'rbibutils', 'Rcpp',
'RcppEigen', 'rlang', 'rpart', 'SparseM', 'spatial', 'stringi',
'survival', 'tibble', 'tidyr', 'tidyselect', 'utf8', 'vctrs'
Update all/some/none? [a/s/n]:
n
> # 设置清华镜像加速
> options(repos = c(CRAN = "https://mirrors.tuna.tsinghua.edu.cn/CRAN/"))
> # 安装基础依赖（必须）
> install.packages(c("Matrix", "lattice", "survival", "mgcv"))
Error in install.packages : Updating loaded packages
Restarting R session...
> install.packages(c("Matrix", "lattice", "survival", "mgcv"))
WARNING: Rtools is required to build R packages but is not currently installed. Please download and install the appropriate version of Rtools before proceeding:
https://cran.rstudio.com/bin/windows/Rtools/
Warning in install.packages :
package ‘Matrix’ is not available for this version of R
A version of this package for your version of R might be available elsewhere,
see the ideas at
https://cran.r-project.org/doc/manuals/r-patched/R-admin.html#Installing-packages
有二进制版本的，但源代码版本是后来的:
binary source needs_compilation
lattice 0.21-8 0.22-7 TRUE
survival 3.5-5 3.8-3 TRUE
mgcv 1.8-42 1.9-3 TRUE
Binaries will be installed
试开URL’https://mirrors.tuna.tsinghua.edu.cn/CRAN/bin/windows/contrib/4.1/lattice_0.21-8.zip'
Content type 'application/zip' length 1375422 bytes (1.3 MB)
downloaded 1.3 MB
试开URL’https://mirrors.tuna.tsinghua.edu.cn/CRAN/bin/windows/contrib/4.1/survival_3.5-5.zip'
Content type 'application/zip' length 6701861 bytes (6.4 MB)
downloaded 6.4 MB
试开URL’https://mirrors.tuna.tsinghua.edu.cn/CRAN/bin/windows/contrib/4.1/mgcv_1.8-42.zip'
Content type 'application/zip' length 3578468 bytes (3.4 MB)
downloaded 3.4 MB
package ‘lattice’ successfully unpacked and MD5 sums checked
package ‘survival’ successfully unpacked and MD5 sums checked
package ‘mgcv’ successfully unpacked and MD5 sums checked
The downloaded binary packages are in
C:\Users\Administrator\AppData\Local\Temp\Rtmp4ety9S\downloaded_packages
> # 安装Bioconductor依赖
> BiocManager::install(c("Biobase", "GenomeInfoDbData", "AnnotationDbi"))
'getOption("repos")' replaces Bioconductor standard repositories,
see 'help("repositories", package = "BiocManager")' for details.
Replacement repositories:
CRAN: https://mirrors.tuna.tsinghua.edu.cn/CRAN/
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/bioc/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/bioc/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/annotation/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/annotation/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/experiment/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/experiment/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/workflows/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/workflows/src/contrib/PACKAGES'
Bioconductor version 3.14 (BiocManager 1.30.26), R 4.1.2
(2021-11-01)
Installing package(s) 'GenomeInfoDbData', 'AnnotationDbi'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/bioc/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/bioc/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/annotation/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/annotation/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/experiment/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/experiment/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/workflows/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/workflows/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/bioc/bin/windows/contrib/4.1:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/bioc/bin/windows/contrib/4.1/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/annotation/bin/windows/contrib/4.1:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/annotation/bin/windows/contrib/4.1/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/experiment/bin/windows/contrib/4.1:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/experiment/bin/windows/contrib/4.1/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/workflows/bin/windows/contrib/4.1:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/workflows/bin/windows/contrib/4.1/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/bioc/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/bioc/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/annotation/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/annotation/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/experiment/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/experiment/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/workflows/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/workflows/src/contrib/PACKAGES'
Old packages: 'backports', 'boot', 'class', 'cli', 'cluster',
'codetools', 'dplyr', 'farver', 'foreign', 'ggrepel', 'glue',
'KernSmooth', 'lattice', 'lme4', 'mgcv', 'minqa', 'nlme',
'nloptr', 'nnet', 'purrr', 'quantreg', 'rbibutils', 'Rcpp',
'RcppEigen', 'rlang', 'rpart', 'SparseM', 'spatial', 'stringi',
'survival', 'tibble', 'tidyr', 'tidyselect', 'utf8', 'vctrs'
Update all/some/none? [a/s/n]:
n
Warning messages:
1: package(s) not installed when version(s) same as or greater than
current; use `force = TRUE` to re-install: 'Biobase'
2: packages ‘GenomeInfoDbData’, ‘AnnotationDbi’ are not available for Bioconductor version '3.14'
Versions of these packages for your version of R might be available elsewhere,
see the ideas at
https://cran.r-project.org/doc/manuals/r-patched/R-admin.html#Installing-packages
> force = TRUE
> library(sva)#
载入需要的程辑包：mgcv
载入需要的程辑包：nlme
This is mgcv 1.8-42. For overview type 'help("mgcv-package")'.
载入需要的程辑包：genefilter
Error: package or namespace load failed for ‘genefilter’ in inDL(x, as.logical(local), as.logical(now), ...):
无法载入共享目标对象‘F:/R/R-4.1.2/R-4.1.2/library/Biobase/libs/x64/Biobase.dll’：:
LoadLibrary failure: 鎵句笉鍒版寚瀹氱殑绋嬪簭銆
错误: 无法载入程辑包‘genefilter’
此外: Warning messages:
1: 程辑包‘sva’是用R版本4.5.0 来建造的
2: 程辑包‘mgcv’是用R版本4.1.3 来建造的
3: 程辑包‘genefilter’是用R版本4.5.0 来建造的
> library(ggplot2)
> library(pRRophetic)#
Error in library(pRRophetic) : 不存在叫‘pRRophetic’这个名字的程辑包
> library(genefilter)#
错误: package or namespace load failed for ‘genefilter’ in inDL(x, as.logical(local), as.logical(now), ...):
无法载入共享目标对象‘F:/R/R-4.1.2/R-4.1.2/library/Biobase/libs/x64/Biobase.dll’：:
LoadLibrary failure: 鎵句笉鍒版寚瀹氱殑绋嬪簭銆
此外: Warning message:
程辑包‘genefilter’是用R版本4.5.0 来建造的
> # 安装genefilter 1.76.0（兼容版本）
> BiocManager::install("genefilter@1.76.0")
'getOption("repos")' replaces Bioconductor standard repositories,
see 'help("repositories", package = "BiocManager")' for details.
Replacement repositories:
CRAN: https://mirrors.tuna.tsinghua.edu.cn/CRAN/
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/bioc/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/bioc/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/annotation/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/annotation/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/experiment/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/experiment/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/workflows/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/workflows/src/contrib/PACKAGES'
Bioconductor version 3.14 (BiocManager 1.30.26), R 4.1.2
(2021-11-01)
Installing package(s) 'genefilter@1.76.0'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/bioc/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/bioc/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/annotation/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/annotation/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/experiment/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/experiment/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/workflows/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/workflows/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/bioc/bin/windows/contrib/4.1:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/bioc/bin/windows/contrib/4.1/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/annotation/bin/windows/contrib/4.1:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/annotation/bin/windows/contrib/4.1/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/experiment/bin/windows/contrib/4.1:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/experiment/bin/windows/contrib/4.1/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/workflows/bin/windows/contrib/4.1:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/workflows/bin/windows/contrib/4.1/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/bioc/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/bioc/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/annotation/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/annotation/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/experiment/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/experiment/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/workflows/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/workflows/src/contrib/PACKAGES'
Old packages: 'backports', 'boot', 'class', 'cli', 'cluster',
'codetools', 'dplyr', 'farver', 'foreign', 'ggrepel', 'glue',
'KernSmooth', 'lattice', 'lme4', 'mgcv', 'minqa', 'nlme',
'nloptr', 'nnet', 'purrr', 'quantreg', 'rbibutils', 'Rcpp',
'RcppEigen', 'rlang', 'rpart', 'SparseM', 'spatial', 'stringi',
'survival', 'tibble', 'tidyr', 'tidyselect', 'utf8', 'vctrs'
Update all/some/none? [a/s/n]:
n
Warning message:
package ‘genefilter@1.76.0’ is not available for Bioconductor version '3.14'
A version of this package for your version of R might be available elsewhere,
see the ideas at
https://cran.r-project.org/doc/manuals/r-patched/R-admin.html#Installing-packages
> # 安装sva 3.42.0（兼容版本）
> BiocManager::install("sva@3.42.0")
'getOption("repos")' replaces Bioconductor standard repositories,
see 'help("repositories", package = "BiocManager")' for details.
Replacement repositories:
CRAN: https://mirrors.tuna.tsinghua.edu.cn/CRAN/
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/bioc/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/bioc/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/annotation/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/annotation/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/experiment/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/experiment/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/workflows/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/workflows/src/contrib/PACKAGES'
Bioconductor version 3.14 (BiocManager 1.30.26), R 4.1.2
(2021-11-01)
Installing package(s) 'sva@3.42.0'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/bioc/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/bioc/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/annotation/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/annotation/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/experiment/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/experiment/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/workflows/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/workflows/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/bioc/bin/windows/contrib/4.1:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/bioc/bin/windows/contrib/4.1/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/annotation/bin/windows/contrib/4.1:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/annotation/bin/windows/contrib/4.1/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/experiment/bin/windows/contrib/4.1:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/experiment/bin/windows/contrib/4.1/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/workflows/bin/windows/contrib/4.1:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/workflows/bin/windows/contrib/4.1/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/bioc/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/bioc/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/annotation/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/annotation/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/experiment/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/data/experiment/src/contrib/PACKAGES'
Warning: unable to access index for repository http://mirrors.ustc.edu.cn/bioc//packages/3.14/workflows/src/contrib:
无法打开URL'http://mirrors.ustc.edu.cn/bioc//packages/3.14/workflows/src/contrib/PACKAGES'
Old packages: 'backports', 'boot', 'class', 'cli', 'cluster',
'codetools', 'dplyr', 'farver', 'foreign', 'ggrepel', 'glue',
'KernSmooth', 'lattice', 'lme4', 'mgcv', 'minqa', 'nlme',
'nloptr', 'nnet', 'purrr', 'quantreg', 'rbibutils', 'Rcpp',
'RcppEigen', 'rlang', 'rpart', 'SparseM', 'spatial', 'stringi',
'survival', 'tibble', 'tidyr', 'tidyselect', 'utf8', 'vctrs'
Update all/some/none? [a/s/n]:
n
Warning message:
package ‘sva@3.42.0’ is not available for Bioconductor version '3.14'
A version of this package for your version of R might be available elsewhere,
see the ideas at
https://cran.r-project.org/doc/manuals/r-patched/R-admin.html#Installing-packages
最新发布
本文提供了一步式指南，教你如何卸载现有版本，下载并安装Keil C51 V9.00和MDK 4.13软件，确保在同一个文件夹中完成操作。
扫一扫
被折叠的 条评论
为什么被折叠?
到【灌水乐园】发言
5237
