APP is not running, R.
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APP is started, the file is either restored if it is a saved workspace , sourced into R. APP or opened in the selected editor. Whether the file is opened or sourced is specified by a Preference setting in the StartUp Preference Pane.
At this point opening a file in the editor before R. APP is finished loading will crash R. 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. History , Previous: The Help screen allows a user to go back or forward to previous help pages.
It is possible to print help pages. Authentication and. Help system , Up: 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.
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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". 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.
History , Up: The official CRAN binaries come pre-packaged in such a way that administrator have sufficient privileges to update R and install packages system-wide.go to link
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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. Preferences , Previous: File Menu , Previous: The Menus , Up: The Menus.
With this menu you can access three items: Edit Menu , Previous: Application Menu , Up: 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. Misc Menu , Previous: File Menu , Up: Apart for standard functionalities, the only relevant item in this menu is Edit Object which is an interface to the R edit function. Workspace Menu , Previous: Edit Menu , Up: 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. Packages Menu , Previous: Misc Menu , Up: 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.
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The Help Menu , Previous: Workspace Menu , Up: 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.
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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. Packages Menu , Up: There are also interfaces to the R help and help. 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. Preferences , Up: 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.
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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.
The history section controls reading of the history file on startup. If selected, R will read history file on start-up. 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. Syntax Colors , Previous: Startup , Up: If External editor is selected, allows specifying which external editor. That editor will be used for all editing functions.
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