Open new script r mac
Setup a private space for you and your coworkers to ask questions and share information. I have a simple script file called test.
How to Write R Script Explained with an Awesome Example
It's saved in the working directory. R , it opens the file in the editor without executing the code, which is what I want. How do I do this by typing a command in the console window? To be clear, I just want to open not execute the file. You are looking for file. Learn more about Teams. How do I open a script file in RStudio using an R command? Ask Question. Asked 5 years, 3 months ago. Active 1 year, 5 months ago.
Run shell script mac terminal
Viewed 31k times. R' should open the file in an editor if you are in RStudio , this should default to RStudio. While R. Double clicking on files bound to "Open With APP is started and the file is sourced or opened in editor. APP is running, the file is opened in the editor. The Help screen allows a user to go back or forward to previous help pages. It is possible to print help pages. Next: Authentication and. APP uses history files that are superset compatible with history files created by R. Multiline support remains available from inside R. Multiline is particularly useful when using the Command - Return feature while editing an R script.
Import and export allows storing and importing history from files visible in the Mac OS Finder. Multiline is preserved. This can be set through the StartUp Preference Panel. Default number of kept history entries is A variety of history entry cleanup modes is possible. At a minimum it is suggested to select "Cleanup history entries". Note: Command-line R stores history in a file usually called. It is suggested to use a different name for the R. APP history file, and the default is. Note that the functions loadhistory , savehistory and hence history are not currently supported in R.
Previous: History , Up: General Features. The official CRAN binaries come pre-packaged in such a way that administrator have sufficient privileges to update R and install packages system-wide. However, the default Unix build requires root-authentication for package installation and other administrative tasks. As it is not feasible to run the GUI as root, we provide the possibility to authenticate system commands issued from the GUI. The authentication requires an administrator login and causes all subsequent system commands to be executed as root.
Use with care! In order to allow non-administrators to maintain their own set of packages, R. It is possible to use the Package Installer to install packages either globally admin users only or for the current user only. Note that user-local packages are only used when the corresponding preference option is enabled. The default for admin users is to use system-wide directories, for non-admin users the personal library directory will be used.
With this menu you can access three items: 1. This menu provides standard functionalities. The open command is associated to the action Source R code , which means that you can select a file, which is a script, and it will be executed in R.
This is a interface to the R source command source. Apart for standard functionalities, the only relevant item in this menu is Edit Object which is an interface to the R edit function. You can also change the current working directory, let R show you the current working directory or set it back to the startup directory.
From release 1. Here you find self explanatory menu items for manage your workspace in R. You can either load and save the workspace also by specifying file name. All of these are interfaces to the load and save R commands. This will open a window with a summary description of the objects in your workspace. Recursive objects like lists, data. Using this menu you can have access to the list of packages and data-sets installed on your system and to the ones on CRAN or on the Bioconductor site.
With the first two menus you can load and detach packages and data-set from the workspace. This opens a window with several columns displayed. On window closure, the checked packaged will be loaded and the unchecked ones if loaded will the detached not completely as on Mac OS X you cannot unload completely dynamic libraries. You can than get or update packages CRAN either in binary or source format. In this case, you should always choose for the binary option. These binary packages work for sure!
When you attempt to install packages from CRAN , R first tries to get a connection to the Internet to download the list of available packages. Than a window will open similar to the one in the package manager with the only difference that for each package there is also the information concerning the version of the package installed on your system if any and the version of the prebuilt package available on CRAN. When you close the window, the select packages will be downloaded. The same strategy applies to the Bioconductor menu item, with some more options typical of the Bioconductor way of managing packages.
For some reason it could happen that you have the package you want to install either in binary or source form on one of your local disks, or even a directory containing a package source. You can use the last menu to do the task of installing the package. Having a package in a directory form usually applies to people that are developing packages themselves.
For more information on this topic see also How to install packages. There are also interfaces to the R help and help. Next: R.
You can set several aspects of the R GUI via preferences. You can access the Preferences window via the Application menu when the R Console is open. Previous: Preferences , Up: Preferences. Options are to open file in an editor or to source file. Default is to source the file. The Default Library Paths section enables, on next start-up of R, to add a directory, e. The initial working directory section can be used to enforce the initial working directory. If no directory is specified, this directory is used as the default. The Change button allows to select a new directory.
The Always apply selection will enforce the specified intial start-up directory.
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The history section controls reading of the history file on startup. If selected, R will read history file on start-up.
Save a script as an app
This field can be edited to allow selecting files starting with a period e. If you want the same history file regardless of your selected working directory, specify a fixed path e. The Default button will reset the history file name to its default value. The History handling area allows setting of the max number of entries to be kept in history, to remove duplicate entries, to cleanup history entries this is very useful to remove blank lines when submitting multiple lines using Command-Return and the strip comments before the entry is added to the history.
If External editor is selected, allows specifying which external editor. That editor will be used for all editing functions. It runs as a separate application. Using an external editor means that R will never wait while editing e. Command-E and Command-Return like functionality would need to be implemented by other means, i. The external editor can be any application e.
Previous: Console Colors , Up: Startup. Previous: Preferences , Up: R. On Unix systems a bug report can be generated using the function bug. Before you file a bug report, please try to reproduce it using both R. APP and the console version of R if applicable. If the bug if R. Please do NOT forget to mention the exact R.
APP version and include the output of sessionInfo. In any circumstances, in case of a crash, please report the crash. You can get this crash. Next: R and external applications , Previous: R. You have several options for installing new packages on your system. We discuss here only the GUI interface to the standard R functions like install. For the R functions see the standard R documentation. You can also install packages from local files, either binary of source packages, as explained below.
Otherwise you can use the appropriate R commands see install. R for Mac OS X recognizes packages in two forms: binary packages and source packages. Binary packages are R packages in ready-to-use form, such that no additional tools are necessary for their use. Binary packages are specific for a given R version and OS. Additional tools may be necessary for that, see see Installation of source packages for details. For most users binary packages are sufficient if available and current.
The latter two methods are common to all Unix systems and as such described in the general R documentation. In the following we will concentrate on using the Package Installer. Select the repository, package type binary or source and press Get List. This will connect to the repository through the Internet and a list all packages available for installation. The list tells you if a package is already installed on your system, the version of the package available on CRAN and the version of the same package if already installed.
You can use the search field to narrow the list of package to those matching your search criteria. Additionally you can use the search list menu to list only packages that are already installed on your system which is useful for comparing versions of available and installed packages. Finally, you can filter down to packages that have been installed by a previous R version as to allow a simple upgrade.
Select any package you want to install and press the Install button. You can follow the progress of the installation in the R Console. Once the required packages are installed, the list is re-loaded to reflect the versions of newly installed packages. If you want to update all packages to the latest version, select the repository to use for the packages and press Update All. R will automatically determine the list of packages that can be updated and present you with a selection of packages to update. You can also download any other package from the Internet yourself and decide to install it from source.
In such case select one of the local entries in the top left list and press the Install button which is now enabled. Packages can also be installed from other repositories by selecting Other Repository source.
Enter the repository URL in the adjacent field. Note that currently the Package Installer assumes that custom repositories maintain proper hierarchy for both source and binary packages the same way CRAN does when using Other Repository. Next: Where are the packages I've installed? Source packages which do not contain compiled code can with rare exceptions be installed with no additional tools.
APP or command-line R. For R. APP you may need to add e. Previous: Installation of source packages , Up: How to install packages. The main library of packages is the one located inside the R. This library contains the packages base and recommended ones distributed along with R. Only administrators are allowed to install packages in this system-wide directory. Note that this directory is R -version-specific. The Package Installer performs installation to either place depending on the installation target setting. The default for an admin users is to install packages system-wide, whereas the default for regular users is their personal library tree.
If you use install. For default setup this means that the packages are installed according to the startup preference setting. You can check the current defaults by issuing. R has partial support for Apple-Scripts. At the moment R can be invoked and asked to run commands from an AppleScript script. What follows is an example of script that interacts with R.
It first invokes R and then sends commands to R with the cmd applescript command. In the above, cmd is the only applescript command in the R dictionary that is used to tell R to execute an R command in the R Console. The syntax is. Actually, the output of the command is not sent back to the application that is calling R but to the R Console directly.
There are some issues. The first is that if R is still not running, it will take a while depending on how fast your machine is to startup. In the meanwhile the script sends commands without waiting and it could happen that some commands are missed by R , i. The second issue, is that it could be that the applescript calls a bad version of R. This could happen if you have an old version of R for example the old Carbon R installed on your System. As an example, we report here a small script that asks R to source a file using a file dialog. R accepts the Apple Event command open. This means than an external editor can communicate with R sending portions of R code to execute via files.
Previous: External editors , Up: R and external applications. RData , the data is loaded in the workspace and every object with the same name in the workspace is overwritten without notice. Loading a data file is equivalent to the R command load. At the moment there is no control over the file types, i. It is up to the user to do the right thing. The quartz device can be used from R.
APP or a suitable build of R running at the Mac console. Where supported it is the default graphics device. The quartz device allows for interaction. You can use both identify and locator functions. You can save the content of the quartz device window into a PDF file, via the R menu when the device window has focus. This is a simple way to export high quality graphics from R into other applications on Mac OS X as graphics is PDF-based so are almost all applications available. For other solutions, see see Copying the image into the clipboard and the quartz.
Previous: Saving the image , Up: Quartz device. You can copy the content of the quartz device window in the clipboard to make the resulting image available for pasting into other applications. The clipboard will contain both a PDF version and a bitmap version of the quartz device window. Which version will be used depends on the pasting applications, most modern application will prefer the PDF version which is of higher quality as it supports vector graphics.