我正在尝试安装一些需要在R中编译的软件包。我从网站上安装了RTools，但出现了"；必须安装RTools来构建包"；。我直接从Rstudio重新安装了它，不再有同样的问题。但是，由于路径不可写的错误，我无法安装程序包。尝试执行命令BiocManager::install("org.Rn.eg.db")时我得到以下输出和错误消息
'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details
replacement repositories:
CRAN: https://cran.rstudio.com/
Bioconductor version 3.14 (BiocManager 1.30.16), R 4.1.0 (2021-05-18)
Installing package(s) 'org.Rn.eg.db'
installing the source package ‘org.Rn.eg.db’
trying URL 'https://bioconductor.org/packages/3.14/data/annotation/src/contrib/org.Rn.eg.db_3.13.0.tar.gz'
Content type 'application/x-gzip' length 57471764 bytes (54.8 MB)
downloaded 54.8 MB
'"C:PROGRA~1RR-41~1.0/bin/x64/Rterm.exe"' is not recognized as an internal or external command,
operable program or batch file.
The downloaded source packages are in
‘##MY PATH’
Installation paths not writeable, unable to update packages
path: C:/Program Files/R/R-4.1.0/library
packages:
affy, affyio, airway, AnnotationDbi, Biobase, BiocGenerics, BiocVersion, biomaRt, Biostrings, broom, colorspace, curl,
DelayedArray, devtools, dplyr, edgeR, EnhancedVolcano, fansi, GenomeInfoDb, GenomicRanges, gert, graph, Heatplus, IRanges,
KEGGREST, limma, marray, MatrixGenerics, mime, preprocessCore, S4Vectors, STRINGdb, SummarizedExperiment, topGO, VennDetail,
xfun, XVector, zip, zlibbioc
Old packages: 'BiocFileCache', 'BiocParallel', 'DESeq2', 'genefilter', 'glmnet', 'GSEABase', 'lme4', 'openxlsx', 'rio',
'stringi'
Update all/some/none? [a/s/n]:
n
Warning message:
In .inet_warning(msg) :
installation of package ‘org.Rn.eg.db’ had non-zero exit status
从运行sessionInfo((
R version 4.1.0 (2021-05-18)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 10 x64 (build 19043)
Matrix products: default
locale:
[1] LC_COLLATE=English_Canada.1252 LC_CTYPE=English_Canada.1252 LC_MONETARY=English_Canada.1252
[4] LC_NUMERIC=C LC_TIME=English_Canada.1252
attached base packages:
[1] parallel stats4 stats graphics grDevices utils datasets methods base
other attached packages:
[1] gprofiler2_0.2.0 DESeq2_1.32.0 SummarizedExperiment_1.22.0 Biobase_2.52.0
[5] MatrixGenerics_1.4.0 matrixStats_0.59.0 GenomicRanges_1.44.0 GenomeInfoDb_1.28.0
[9] IRanges_2.26.0 S4Vectors_0.30.0 BiocGenerics_0.38.0 factoextra_1.0.7
[13] dendextend_1.15.1 RColorBrewer_1.1-2 pheatmap_1.0.12 ggpubr_0.4.0
[17] ggtext_0.1.1 forcats_0.5.1 stringr_1.4.0 dplyr_1.0.6
[21] purrr_0.3.4 readr_1.4.0 tidyr_1.1.3 tibble_3.1.2
[25] tidyverse_1.3.1 EnhancedVolcano_1.10.0 ggrepel_0.9.1 ggplot2_3.3.4
loaded via a namespace (and not attached):
[1] readxl_1.3.1 backports_1.2.1 lazyeval_0.2.2 splines_4.1.0 BiocParallel_1.26.0
[6] digest_0.6.27 htmltools_0.5.1.1 viridis_0.6.1 fansi_0.5.0 magrittr_2.0.1
[11] memoise_2.0.0 openxlsx_4.2.3 Biostrings_2.61.1 annotate_1.71.0 modelr_0.1.8
[16] extrafont_0.17 extrafontdb_1.0 colorspace_2.0-1 blob_1.2.1 rvest_1.0.0
[21] haven_2.4.1 xfun_0.24 crayon_1.4.1 RCurl_1.98-1.3 jsonlite_1.7.2
[26] genefilter_1.74.0 survival_3.2-11 glue_1.4.2 gtable_0.3.0 zlibbioc_1.39.0
[31] XVector_0.33.0 DelayedArray_0.19.0 proj4_1.0-10.1 car_3.0-10 Rttf2pt1_1.3.8
[36] maps_3.3.0 abind_1.4-5 scales_1.1.1 DBI_1.1.1 rstatix_0.7.0
[41] Rcpp_1.0.6 viridisLite_0.4.0 xtable_1.8-4 gridtext_0.1.4 foreign_0.8-81
[46] bit_4.0.4 htmlwidgets_1.5.3 httr_1.4.2 ellipsis_0.3.2 farver_2.1.0
[51] pkgconfig_2.0.3 XML_3.99-0.6 dbplyr_2.1.1 locfit_1.5-9.4 utf8_1.2.1
[56] labeling_0.4.2 tidyselect_1.1.1 rlang_0.4.11 AnnotationDbi_1.54.1 munsell_0.5.0
[61] cellranger_1.1.0 tools_4.1.0 cachem_1.0.5 cli_2.5.0 generics_0.1.0
[66] RSQLite_2.2.7 broom_0.7.7 fastmap_1.1.0 knitr_1.33 bit64_4.0.5
[71] fs_1.5.0 zip_2.2.0 KEGGREST_1.33.0 ash_1.0-15 ggrastr_0.2.3
[76] xml2_1.3.2 compiler_4.1.0 rstudioapi_0.13 beeswarm_0.4.0 plotly_4.9.4.1
[81] curl_4.3.1 png_0.1-7 ggsignif_0.6.2 reprex_2.0.0 geneplotter_1.71.0
[86] stringi_1.6.1 ggalt_0.4.0 lattice_0.20-44 Matrix_1.3-4 markdown_1.1
[91] vctrs_0.3.8 pillar_1.6.1 lifecycle_1.0.0 BiocManager_1.30.16 data.table_1.14.0
[96] bitops_1.0-7 R6_2.5.0 KernSmooth_2.23-20 gridExtra_2.3 rio_0.5.26
[101] vipor_0.4.5 MASS_7.3-54 assertthat_0.2.1 withr_2.4.2 GenomeInfoDbData_1.2.6
[106] hms_1.1.0 grid_4.1.0 carData_3.0-4 lubridate_1.7.10 ggbeeswarm_0.6.0
在安装最新的R和Rstudio后的第一次使用时，我遇到了与您完全相同的问题。然后我以管理员的身份运行Rstuio，它就成功了。您可以参考类似的问题以获得其他解决方案：https://community.rstudio.com/t/error-after-r-update-lib-c-program-files-r-r-3-5-0-library-is-not-writable/7947/2