Question

我的文件夹结构是projet / code / test.R

在脚本'test.R'中，我写道：

getwd()
setwd(dirname(getwd()))
print(getwd())

但是，工作目录将取决于我在终端中获取脚本的位置。

在终端中，我从文件夹'project'和'project / code'启动了脚本，得到了以下结果：

~/Documents/project: Rscript code/test.R 
~/Documents/project
~/Documents

~/Documents/project/code: Rscript test.R
~/Documents/project/code
~/Documents/project

我想找到一个查找文件所在目录的方法。

我的会话信息在这里：

> sessionInfo()
R version 3.4.0 (2017-04-21)
Platform: x86_64-apple-darwin16.5.0 (64-bit)
Running under: macOS Sierra 10.12.6

Matrix products: default
BLAS: /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib
LAPACK: /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libLAPACK.dylib

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

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

other attached packages:
[1] bindrcpp_0.2 dplyr_0.7.2 

loaded via a namespace (and not attached):
 [1] Biobase_2.36.2             jsonlite_1.5              
 [3] bit64_0.9-7                splines_3.4.0             
 [5] Formula_1.2-2              assertthat_0.2.0          
 [7] stats4_3.4.0               latticeExtra_0.6-28       
 [9] blob_1.1.0                 GenomeInfoDbData_0.99.0   
[11] yaml_2.1.14                RSQLite_2.0               
[13] backports_1.1.0            lattice_0.20-35           
[15] glue_1.1.1                 digest_0.6.12             
[17] GenomicRanges_1.28.4       RColorBrewer_1.1-2        
[19] XVector_0.16.0             checkmate_1.8.3           
[21] colorspace_1.3-2           htmltools_0.3.6           
[23] Matrix_1.2-10              plyr_1.8.4                
[25] DESeq2_1.16.1              XML_3.98-1.9              
[27] pkgconfig_2.0.1            pheatmap_1.0.8            
[29] genefilter_1.58.1          zlibbioc_1.22.0           
[31] purrr_0.2.3                xtable_1.8-2              
[33] scales_0.4.1               BiocParallel_1.10.1       
[35] htmlTable_1.9              tibble_1.3.3              
[37] annotate_1.54.0            IRanges_2.10.2            
[39] ggplot2_2.2.1              SummarizedExperiment_1.6.3
[41] nnet_7.3-12                BiocGenerics_0.22.0       
[43] lazyeval_0.2.0             survival_2.41-3           
[45] magrittr_1.5               evaluate_0.10.1           
[47] memoise_1.1.0              foreign_0.8-69            
[49] tools_3.4.0                data.table_1.10.4         
[51] matrixStats_0.52.2         stringr_1.2.0             
[53] S4Vectors_0.14.3           munsell_0.4.3             
[55] locfit_1.5-9.1             cluster_2.0.6             
[57] DelayedArray_0.2.7         AnnotationDbi_1.38.2      
[59] compiler_3.4.0             GenomeInfoDb_1.12.2       
[61] rlang_0.1.2                grid_3.4.0                
[63] RCurl_1.95-4.8             rstudioapi_0.6            
[65] htmlwidgets_0.9            rmarkdown_1.6             
[67] bitops_1.0-6               base64enc_0.1-3           
[69] labeling_0.3               gtable_0.2.0              
[71] DBI_0.7                    R6_2.2.2                  
[73] gridExtra_2.2.1            knitr_1.17                
[75] bit_1.1-12                 rprojroot_1.2             
[77] bindr_0.1                  Hmisc_4.0-3               
[79] stringi_1.1.5              parallel_3.4.0            
[81] Rcpp_0.12.12               geneplotter_1.54.0        
[83] rpart_4.1-11               acepack_1.4.1

感谢。

最好，C。

Answer 1

这会将目录更改为源文件位置。

this.dir <- dirname(parent.frame(2)$ofile)
setwd(this.dir)

Answer 2

我尝试了dirname(parent.frame(2)$ofile)和dirname(sys.frame(2)$ofile)方法，但两者都不适合我（我在R 3.4.1，使用RStudio和Windows 10）。我试图在RStudio和R GUI中获取它。还尝试从命令行运行它。

以下来自用户rakensi（https://stackoverflow.com/users/1021892/rakensi）的方法对我来说非常有效。积分归他所有。链接回答：Getting path of an R script。

另一种方法（test_v2.R）适用于我使用Rscript。积分转到用户steamer25（https://stackoverflow.com/users/93345/steamer25）和答案的链接（Rscript: Determine path of the executing script）。

test.R 使用Rstudio中的source（test.R）运行此

## Run this from ~/Documents/project/code or directory of your choice
script.dir <- getSrcDirectory(function(x) {x})
print(script.dir)
# gives you ~/Documents/project/code
setwd(script.dir)

test_v2.R 使用Rscript.exe运行

thisFile <- function() {
    cmdArgs <- commandArgs(trailingOnly = FALSE)
    needle <- "--file="
    match <- grep(needle, cmdArgs)
    if (length(match) > 0) {
        # Rscript
        return(normalizePath(sub(needle, "", cmdArgs[match])))
    } else {
        # 'source'd via R console
        return(normalizePath(sys.frames()[[1]]$ofile))
    }
}
script.dir <- dirname(thisFile())
setwd(script.dir)
print(getwd())

将工作目录设置为R

2 个答案: