Installing, Managing, and Switching Between Distinct Sets of
Installed Packages
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Documentation for package ‘switchr’ version 0.14.8
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A B C D E F G H I L M N P R S T U V W misc
-- A --
| addPkg | addPkg |
| addPkg,PkgManifest | addPkg |
| addPkg,SessionManifest | addPkg |
| addPkg-method | addPkg |
| archive_retries | archive_retries |
| archive_retries,SwitchrParam | archive_retries |
| archive_retries-method | archive_retries |
| archive_retries<- | archive_retries |
| archive_retries<-,SwitchrParam | archive_retries |
| archive_retries<--method | archive_retries |
| archive_timing | archive_timing |
| archive_timing,SwitchrParam | archive_timing |
| archive_timing-method | archive_timing |
| archive_timing<- | archive_timing |
| archive_timing<-,SwitchrParam | archive_timing |
| archive_timing<--method | archive_timing |
-- B --
| BiocDevel | BiocDevel |
| BiocRelease | BiocRelease |
| biocReposForVers | biocReposForVers |
| BiocSource-class | PkgSource |
| BiocSVNManifest | DEPCRECATED - Create a manifest of Bioc SVN locations |
| BiocVers | BiocVers |
| branch | branch |
| branch,PkgSource | branch |
| branch-method | branch |
| branch<- | branch |
| branch<-,PkgSource | branch |
| branch<--method | branch |
-- C --
| c-method | cmethods |
| checkIsPkgDir | Check if a directory contains package sources |
| cranPkgVersManifest | cranPkgVersManifest |
| CRANSource-class | PkgSource |
| currentCompEnv | currentCompEnv |
| CVSSource-class | PkgSource |
-- D --
| defaultRepos | defaultRepos |
| dep_repos | dep_repos |
| dep_repos,PkgManifest | dep_repos |
| dep_repos,SessionManifest | dep_repos |
| dep_repos-method | dep_repos |
| dep_repos<- | dep_repos |
| dep_repos<-,PkgManifest | dep_repos |
| dep_repos<-,SessionManifest | dep_repos |
| dep_repos<--method | dep_repos |
| dl_method | dl_method |
| dl_method,SwitchrParam | dl_method |
| dl_method-method | dl_method |
| dl_method<- | dl_method |
| dl_method<-,SwitchrParam | dl_method |
| dl_method<--method | dl_method |
-- E --
| errorOrNonZero | Identify error states from R or external programs |
-- F --
| fileFromFileURL | Get path from file URL |
| findNewestPkgInds | Find newest packages in a package info data.frame |
| findNewestPkgRows | Find newest packages in a package info data.frame |
| findPkgDir | Find a package directory within an SCM checkout |
| findPkgVersionInRepo | findPkgVersionInRepo |
| findPkgVersionInRepo,character | findPkgVersionInRepo |
| findPkgVersionInRepo,NULL | findPkgVersionInRepo |
| findPkgVersionInRepo-method | findPkgVersionInRepo |
| flushSession | flushSession |
| full_libpaths | full_libpaths |
| full_libpaths,SwitchrCtx | full_libpaths |
| full_libpaths-method | full_libpaths |
-- G --
| getPkgDir | Construct pockage directory path |
| GithubManifest | GithubManifest |
| GithubSource-class | PkgSource |
| GitSource-class | PkgSource |
| gotoVersCommit | gotoVersCommit |
| gotoVersCommit,character,BiocSource | gotoVersCommit |
| gotoVersCommit,character,CRANSource | gotoVersCommit |
| gotoVersCommit,character,GitSource | gotoVersCommit |
| gotoVersCommit,character,SVNSource | gotoVersCommit |
| gotoVersCommit-method | gotoVersCommit |
| graceful_inet | Internal internet harness |
-- H --
| head | Head and tail operations on manifests |
| head,PkgManifest | Head and tail operations on manifests |
| head,SessionManifest | Head and tail operations on manifests |
| head-method | Head and tail operations on manifests |
-- I --
| install_packages | install_packages |
| install_packages,character,character | install_packages |
| install_packages,character,missing | install_packages |
| install_packages,character,PkgManifest | install_packages |
| install_packages,character,SessionManifest | install_packages |
| install_packages,SessionManifest,ANY | install_packages |
| install_packages-method | install_packages |
-- L --
| lazyRepo | lazyRepo |
| lazyRepo,character,PkgManifest | lazyRepo |
| lazyRepo,character,SessionManifest | lazyRepo |
| lazyRepo,PkgManifest,ANY | lazyRepo |
| lazyRepo,SessionManifest,ANY | lazyRepo |
| lazyRepo-method | lazyRepo |
| libManifest | libManifest |
| libManifest,character | libManifest |
| libManifest,missing | libManifest |
| libManifest,SwitchrCtx | libManifest |
| libManifest-method | libManifest |
| library_paths | library_paths |
| library_paths,SwitchrCtx | library_paths |
| library_paths-method | library_paths |
| loadGRAN | Load a GRAN repo package |
| loadManifest | loadManifest |
| LocalSource-class | PkgSource |
| locatePkgVersion | locatePkgVersion |
| location | location |
| location-method | location |
| logfun | logfun |
| logfun,SwitchrParam | logfun |
| logfun-method | logfun |
| logfun<- | logfun |
| logfun<-,SwitchrParam | logfun |
| logfun<--method | logfun |
-- M --
| makeBiocSVNURL | Make a Bioconductor SVN url for a package |
| makeFileURL | make file url |
| makeLibraryCtx | makeLibraryCtx |
| makeManifest | Manifest constructor |
| makePkgCheckout | Create a checkout of a package and all it's dependencies from a manifest |
| makePkgDir | makePkgDir |
| makePkgDir,ANY,ANY | makePkgDir |
| makePkgDir,ANY,BiocSource | makePkgDir |
| makePkgDir,ANY,CRANSource | makePkgDir |
| makePkgDir,ANY,GithubSource | makePkgDir |
| makePkgDir,ANY,GitSource | makePkgDir |
| makePkgDir,ANY,LocalSource | makePkgDir |
| makePkgDir,ANY,SVNSource | makePkgDir |
| makePkgDir,ANY,TarballSource | makePkgDir |
| makePkgDir-method | makePkgDir |
| makeSeedMan | makeSeedMan |
| makeSeedMan,data.frame | makeSeedMan |
| makeSeedMan,missing | makeSeedMan |
| makeSeedMan,parsedSessionInfo | makeSeedMan |
| makeSeedMan,sessionInfo | makeSeedMan |
| makeSeedMan-method | makeSeedMan |
| makeSource | Create a PkgSource object for a package |
| manifest | Get or set the manifest associated with an object |
| manifest,SessionManifest | Get or set the manifest associated with an object |
| manifest-method | Get or set the manifest associated with an object |
| manifest<- | Get or set the manifest associated with an object |
| manifest<-,SessionManifest | Get or set the manifest associated with an object |
| manifest<--method | Get or set the manifest associated with an object |
| manifestFromCheckoutDir | Create Manifest from 'checkedout' directory containing many pkg dirs |
| ManifestRow | ManifestRow |
| manifest_df | manifest_df |
| manifest_df,PkgManifest | manifest_df |
| manifest_df,SessionManifest | manifest_df |
| manifest_df-method | manifest_df |
| manifest_df<- | manifest_df |
| manifest_df<-,PkgManifest | manifest_df |
| manifest_df<-,SessionManifest | manifest_df |
| manifest_df<--method | manifest_df |
-- N --
| normalizePath2 | normalizePath2 |
| notrack | Notrack directory |
| notrack,NULL | Notrack directory |
| notrack-method | Notrack directory |
| nrow | Number of rows |
| nrow,PkgManifest | Number of rows |
| nrow,SessionManifest | Number of rows |
| nrow-method | Number of rows |
-- P --
| packages | packages |
| packages,SwitchrCtx | packages |
| packages-method | packages |
| parsedSessionInfo-class | Parsed sessionInfo output |
| parseSessionInfoString | Parse text output from printing SessionInfo objects |
| PkgManifest | PkgManifest |
| PkgManifest-class | PkgManifest |
| pkgname | pkgname |
| pkgname,PkgSource | pkgname |
| pkgname-method | pkgname |
| pkgname<- | pkgname |
| pkgname<-,PkgSource | pkgname |
| pkgname<--method | pkgname |
| PkgSource-class | PkgSource |
| publishManifest | publishManifest |
| publishManifest,missing,ANY | publishManifest |
| publishManifest,PkgManifest,character | publishManifest |
| publishManifest,SessionManifest,character | publishManifest |
| publishManifest,SwitchrCtx,ANY | publishManifest |
| publishManifest-method | publishManifest |
-- R --
| removeLib | removeLib |
| RepoSubset | RepoSubset |
| RepoSubset-class | RepoSubset |
| rVersionManifest | rVersionManifest |
-- S --
| SessionManifest | SessionManifest |
| SessionManifest-class | SessionManifest |
| shell_timing | Get or set the number of seconds to wait between successive shell commands |
| shell_timing,SwitchrParam | Get or set the number of seconds to wait between successive shell commands |
| shell_timing-method | Get or set the number of seconds to wait between successive shell commands |
| shell_timing<- | Get or set the number of seconds to wait between successive shell commands |
| shell_timing<-,SwitchrParam | Get or set the number of seconds to wait between successive shell commands |
| shell_timing<--method | Get or set the number of seconds to wait between successive shell commands |
| sh_init_script | shell init |
| sh_init_script,SwitchrParam | shell init |
| sh_init_script-method | shell init |
| sh_init_script<- | shell init |
| sh_init_script<-,SwitchrParam,ANY | shell init |
| sh_init_script<--method | shell init |
| subdir | subdir |
| subdir,PkgSource | subdir |
| subdir-method | subdir |
| subdir<- | subdir |
| subdir<-,PkgSource | subdir |
| subdir<--method | subdir |
| SVNSource-class | PkgSource |
| switchBack | switchBack |
| switchDeps | switchrDeps |
| switchrBaseDir | Get or set the base directory for switchr libraries |
| SwitchrCtx | SwitchrCtx |
| SwitchrCtx-class | SwitchrCtx |
| switchrDontUnload | Get or set packages to not unload when flushing the system |
| switchrManifest | switchrManifest |
| switchrNoUnload | Skip unloading of packages in session |
| SwitchrParam | SwitchrParam |
| SwitchrParam-class | SwitchrParam |
| switchTo | switchTo |
| switchTo,character,character | switchTo |
| switchTo,character,missing | switchTo |
| switchTo,character,PkgManifest | switchTo |
| switchTo,character,RepoSubset | switchTo |
| switchTo,character,SessionManifest | switchTo |
| switchTo,character,SwitchrCtx | switchTo |
| switchTo,SwitchrCtx,ANY | switchTo |
| switchTo-method | switchTo |
| system_w_init | system_w_init |
-- T --
| tail | Head and tail operations on manifests |
| tail,PkgManifest | Head and tail operations on manifests |
| tail,SessionManifest | Head and tail operations on manifests |
| tail-method | Head and tail operations on manifests |
| TarballSource-class | PkgSource |
-- U --
| updateManifest | updateManifest |
| update_PACKAGES | update existing package repository |
-- V --
| versions_df | versions_df |
| versions_df,SessionManifest | versions_df |
| versions_df-method | versions_df |
| versions_df<- | versions_df |
| versions_df<-,SessionManifest | versions_df |
| versions_df<--method | versions_df |
-- W --
| warning2 | Internal internet harness |
-- misc --
| .libPaths2 | .libpaths2 |