library(AnnotationDbi) 载入需要的程辑包：stats4 载入需要的程辑包：BiocGenerics
载入程辑包：‘BiocGenerics’
The following objects are masked from ‘package:stats’:
IQR, mad, sd, var, xtabs
The following objects are masked from ‘package:base’:
anyDuplicated, append, as.data.frame,
basename, cbind, colnames, dirname,
do.call, duplicated, eval, evalq,
Filter, Find, get, grep, grepl,
intersect, is.unsorted, lapply, Map,
mapply, match, mget, order, paste,
pmax, pmax.int, pmin, pmin.int,
Position, rank, rbind, Reduce,
rownames, sapply, setdiff, sort,
table, tapply, union, unique,
unsplit, which.max, which.min
载入需要的程辑包：Biobase Welcome to Bioconductor
Vignettes contain introductory
material; view with
'browseVignettes()'. To cite
Bioconductor, see
'citation("Biobase")', and for
packages 'citation("pkgname")'.
载入需要的程辑包：IRanges 载入需要的程辑包：S4Vectors
载入程辑包：‘S4Vectors’
The following objects are masked from ‘package:base’:
expand.grid, I, unname
载入程辑包：‘IRanges’
The following object is masked from ‘package:grDevices’:
windows
library(AnnotationDbi) BiocManager::install('org.Hs.eg.db') #下载相应的包 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details
replacement repositories: CRAN: https://mirrors.tuna.tsinghua.edu.cn/CRAN/
Bioconductor version 3.15 (BiocManager 1.30.18), R 4.2.0 (2022-04-22 ucrt) Installing package(s) 'org.Hs.eg.db' 安装源码包‘org.Hs.eg.db’
trying URL 'https://bioconductor.org/packages/3.15/data/annotation/src/contrib/org.Hs.eg.db_3.15.0.tar.gz' Content type 'application/x-gzip' length 83788492 bytes (79.9 MB) downloaded 79.9 MB
- installing source package 'org.Hs.eg.db' ... using staged installation R inst byte-compile and prepare package for lazy loading Error: package 'AnnotationDbi' required by 'org.Hs.eg.db' could not be found Execution halted ERROR: lazy loading failed for package 'org.Hs.eg.db'
- removing 'C:/Users/H/AppData/Local/R/win-library/4.2/org.Hs.eg.db'
replacement repositories: CRAN: https://mirrors.tuna.tsinghua.edu.cn/CRAN/
Bioconductor version 3.14 (BiocManager 1.30.18), R 4.1.3 (2022-03-10) Installing package(s) 'AnnotationDbi' trying URL 'https://bioconductor.org/packages/3.14/bioc/bin/windows/contrib/4.1/AnnotationDbi_1.56.2.zip' Content type 'application/zip' length 5387247 bytes (5.1 MB) downloaded 5.1 MB
package ‘AnnotationDbi’ successfully unpacked and MD5 sums checked
The downloaded binary packages are in C:\Users\H\AppData\Local\Temp\Rtmpc373KX\downloaded_packages Installation paths not writeable, unable to update packages path: C:/Program Files/R/R-4.1.3/library packages: cluster, MASS, Matrix, mgcv, nlme, survival Old packages: 'openssl' Update all/some/none? [a/s/n]: n
replacement repositories: CRAN: https://mirrors.tuna.tsinghua.edu.cn/CRAN/
Bioconductor version 3.14 (BiocManager 1.30.18), R 4.1.3 (2022-03-10) Installing package(s) 'org.Hs.eg.db' 安装源码包‘org.Hs.eg.db’
trying URL 'https://bioconductor.org/packages/3.14/data/annotation/src/contrib/org.Hs.eg.db_3.14.0.tar.gz' Content type 'application/x-gzip' length 82195112 bytes (78.4 MB) downloaded 78.4 MB
It dosen't work
Rtoolsinstalled. Be sure to use the proper version that matches your version of R. https://cran.r-project.org/bin/windows/Rtools/I have updated Rtools
replacement repositories: CRAN: https://mirrors.tuna.tsinghua.edu.cn/CRAN/
Bioconductor version 3.15 (BiocManager 1.30.18), R 4.2.0 (2022-04-22 ucrt) Installing package(s) 'AnnotationDbi' trying URL 'https://bioconductor.org/packages/3.15/bioc/bin/windows/contrib/4.2/AnnotationDbi_1.58.0.zip' Content type 'application/zip' length 5242384 bytes (5.0 MB) downloaded 5.0 MB
程序包‘AnnotationDbi’打开成功，MD5和检查也通过
下载的二进制程序包在 C:\Users\H\AppData\Local\Temp\RtmpKCd3lm\downloaded_packages里 Installation paths not writeable, unable to update packages path: C:/Program Files/R/R-4.2.0/library packages: MASS Old packages: 'openssl' Update all/some/none? [a/s/n]: n
载入程辑包：‘S4Vectors’
The following objects are masked from ‘package:dplyr’:
The following objects are masked from ‘package:base’:
载入程辑包：‘IRanges’
The following objects are masked from ‘package:dplyr’:
The following object is masked from ‘package:grDevices’:
载入程辑包：‘AnnotationDbi’
The following object is masked from ‘package:dplyr’:
replacement repositories: CRAN: https://mirrors.tuna.tsinghua.edu.cn/CRAN/
Bioconductor version 3.15 (BiocManager 1.30.18), R 4.2.0 (2022-04-22 ucrt) Installing package(s) 'org.Hs.eg.db' 安装源码包‘org.Hs.eg.db’
trying URL 'https://bioconductor.org/packages/3.15/data/annotation/src/contrib/org.Hs.eg.db_3.15.0.tar.gz' Content type 'application/x-gzip' length 83788492 bytes (79.9 MB) downloaded 79.9 MB
what is the result of
.libPaths()and"AnnotationDbi" %in% rownames(installed.packages())