在 bash 脚本中运行 R 脚本
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Running R scripts within a bash script
提问by user27976
I have 2 R scripts in the sub-folders of folder1, and ran the following script. "No such file or directory" error was returened for the R scripts. Does anyone know how to solve this problem? Thanks
我在 folder1 的子文件夹中有 2 个 R 脚本，并运行了以下脚本。R 脚本返回“没有这样的文件或目录”错误。有谁知道如何解决这个问题？谢谢
Bash script:
bash脚本：
#! /usr/bin/env Rscript
for dir in folder1/* ; do
Rscript script1.R
Rscript script2.R
done
回答by Dirk Eddelbuettel
You #!specifies R, not bash. And your loop is wrong.
您#!指定的是 R，而不是 bash。而你的循环是错误的。
Maybe try this:
也许试试这个：
#!/bin/bash Rscript
for dir in folder1/script*.R ; do
echo "Now running $dir"
Rscript folder1/$dir
done
回答by dogbane
Are script1.Rand script2.Rinside the subdirectories of folder1? If so, try this:
是script1.R和script2.R在 的子目录中folder1吗？如果是这样，试试这个：
#! /bin/bash
for dir in folder1/* ; do
Rscript "$dir"/script1.R
Rscript "$dir"/script2.R
done
Another way to run all R scripts inside folder1is to use find:
在内部运行所有 R 脚本的另一种方法folder1是使用find：
find folder1 -type f -name "*.R" -exec Rscript {} \;
回答by Michael Schlottke-Lakemper
You never changed the directory, so you should either switch to the new subfolder before executing the scripts or execute them using the full path.
您从未更改过目录，因此您应该在执行脚本之前切换到新的子文件夹，或者使用完整路径执行它们。
Thus, try to replace
因此，尝试更换
Rscript script1.R
Rscript script2.R
either by
或者通过
cd folder1/$dir; Rscript script1.R; cd -
cd folder1/$dir; Rscript script2.R; cd -
or
或者
Rscript folder1/$dir/script1.R
Rscript folder1/$dir/script2.R
Also, your shebang is wrong, it should be
另外，你的shebang是错的，应该是
#!/bin/bash
or something similar if you want your script to be a shell script. Right now it is executed as an Rscript.
或者类似的东西，如果你想让你的脚本成为一个 shell 脚本。现在它作为R脚本执行。
