Package: switchr 0.14.5.1
switchr: Installing, Managing, and Switching Between Distinct Sets of Installed Packages
Provides an abstraction for managing, installing, and switching between sets of installed R packages. This allows users to maintain multiple package libraries simultaneously, e.g. to maintain strict, package-version-specific reproducibility of many analyses, or work within a development/production release paradigm. Introduces a generalized package installation process which supports multiple repository and non-repository sources and tracks package provenance.
Authors:
switchr_0.14.5.1.tar.gz
switchr_0.14.5.1.zip(r-4.5)switchr_0.14.5.1.zip(r-4.4)switchr_0.14.5.1.zip(r-4.3)
switchr_0.14.5.1.tgz(r-4.4-any)switchr_0.14.5.1.tgz(r-4.3-any)
switchr_0.14.5.1.tar.gz(r-4.5-noble)switchr_0.14.5.1.tar.gz(r-4.4-noble)
switchr_0.14.5.1.tgz(r-4.4-emscripten)switchr_0.14.5.1.tgz(r-4.3-emscripten)
switchr.pdf |switchr.html✨
switchr/json (API)
NEWS
| # Install 'switchr' in R: |
| install.packages('switchr', repos = c('https://gmbecker.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/gmbecker/switchr/issues
Last updated 2 years agofrom:4d4e72f200. Checks:OK: 7. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Oct 31 2024 |
| R-4.5-win | OK | Oct 31 2024 |
| R-4.5-linux | OK | Oct 31 2024 |
| R-4.4-win | OK | Oct 31 2024 |
| R-4.4-mac | OK | Oct 31 2024 |
| R-4.3-win | OK | Oct 31 2024 |
| R-4.3-mac | OK | Oct 31 2024 |
Exports:.libPaths2addPkgarchive_retriesarchive_retries<-archive_timingarchive_timing<-BiocDevelBiocReleasebiocReposForVersBiocSVNManifestBiocVersbranchcheckIsPkgDircranPkgVersManifestcurrentCompEnvdefaultReposdep_reposdep_repos<-dl_methoddl_method<-errorOrNonZerofileFromFileURLfindNewestPkgIndsfindNewestPkgRowsfindPkgDirfindPkgVersionInRepoflushSessionfull_libpathsgetPkgDirGithubManifestgotoVersCommitgraceful_inetheadinstall_packageslazyRepolibManifestlibrary_pathsloadGRANloadManifestlocatePkgVersionlocationlogfunlogfun<-makeBiocSVNURLmakeFileURLmakeLibraryCtxmakeManifestmakePkgCheckoutmakePkgDirmakeSeedManmakeSourcemanifestmanifest_dfmanifest_df<-manifest<-manifestFromCheckoutDirManifestRownormalizePath2notracknrowpackagesparseSessionInfoStringPkgManifestpkgnamepublishManifestremoveLibRepoSubsetrVersionManifestSessionManifestsh_init_scriptsh_init_script<-shell_timingshell_timing<-subdirsubdir<-switchBackswitchDepsswitchrBaseDirSwitchrCtxswitchrDontUnloadswitchrManifestswitchrNoUnloadSwitchrParamswitchTosystem_w_inittailupdate_PACKAGESversions_dfversions_df<-warning2
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| .libpaths2 | .libPaths2 |
| addPkg | addPkg addPkg,PkgManifest addPkg,PkgManifest-method addPkg,SessionManifest addPkg,SessionManifest-method |
| archive_retries | archive_retries archive_retries,SwitchrParam archive_retries,SwitchrParam-method archive_retries<- archive_retries<-,SwitchrParam archive_retries<-,SwitchrParam-method |
| archive_timing | archive_timing archive_timing,SwitchrParam archive_timing,SwitchrParam-method archive_timing<- archive_timing<-,SwitchrParam archive_timing<-,SwitchrParam-method |
| BiocDevel | BiocDevel |
| BiocRelease | BiocRelease |
| biocReposForVers | biocReposForVers |
| DEPCRECATED - Create a manifest of Bioc SVN locations | BiocSVNManifest |
| BiocVers | BiocVers |
| branch | branch branch,PkgSource branch,PkgSource-method branch<- branch<-,PkgSource branch<-,PkgSource-method |
| cmethods | c,PkgManifest-method c,SessionManifest-method |
| Check if a directory contains package sources | checkIsPkgDir |
| cranPkgVersManifest | cranPkgVersManifest |
| currentCompEnv | currentCompEnv |
| defaultRepos | defaultRepos |
| dep_repos | dep_repos dep_repos,PkgManifest dep_repos,PkgManifest-method dep_repos,SessionManifest dep_repos,SessionManifest-method dep_repos<- dep_repos<-,PkgManifest dep_repos<-,PkgManifest-method dep_repos<-,SessionManifest dep_repos<-,SessionManifest-method |
| dl_method | dl_method dl_method,SwitchrParam dl_method,SwitchrParam-method dl_method<- dl_method<-,SwitchrParam dl_method<-,SwitchrParam-method |
| Identify error states from R or external programs | errorOrNonZero |
| Get path from file URL | fileFromFileURL |
| Find newest packages in a package info data.frame | findNewestPkgInds findNewestPkgRows |
| Find a package directory within an SCM checkout | findPkgDir |
| findPkgVersionInRepo | findPkgVersionInRepo findPkgVersionInRepo,character findPkgVersionInRepo,character-method findPkgVersionInRepo,NULL findPkgVersionInRepo,NULL-method |
| flushSession | flushSession |
| full_libpaths | full_libpaths full_libpaths,SwitchrCtx full_libpaths,SwitchrCtx-method |
| Construct pockage directory path | getPkgDir |
| GithubManifest | GithubManifest |
| gotoVersCommit | gotoVersCommit gotoVersCommit,character,BiocSource gotoVersCommit,character,BiocSource-method gotoVersCommit,character,CRANSource gotoVersCommit,character,CRANSource-method gotoVersCommit,character,GitSource gotoVersCommit,character,GitSource-method gotoVersCommit,character,SVNSource gotoVersCommit,character,SVNSource-method |
| Internal internet harness | graceful_inet warning2 |
| Head and tail operations on manifests | head head,PkgManifest head,PkgManifest-method head,SessionManifest head,SessionManifest-method tail tail,PkgManifest tail,PkgManifest-method tail,SessionManifest tail,SessionManifest-method |
| install_packages | install_packages install_packages,character,character install_packages,character,character-method install_packages,character,missing install_packages,character,missing-method install_packages,character,PkgManifest install_packages,character,PkgManifest-method install_packages,character,SessionManifest install_packages,character,SessionManifest-method install_packages,SessionManifest,ANY install_packages,SessionManifest,ANY-method |
| lazyRepo | lazyRepo lazyRepo,character,PkgManifest lazyRepo,character,PkgManifest-method lazyRepo,character,SessionManifest lazyRepo,character,SessionManifest-method lazyRepo,PkgManifest,ANY lazyRepo,PkgManifest,ANY-method lazyRepo,SessionManifest,ANY lazyRepo,SessionManifest,ANY-method |
| libManifest | libManifest libManifest,character libManifest,character-method libManifest,missing libManifest,missing-method libManifest,SwitchrCtx libManifest,SwitchrCtx-method |
| library_paths | library_paths library_paths,SwitchrCtx library_paths,SwitchrCtx-method |
| LibraryProfile (experimental) | LibraryProfile-class |
| Load a GRAN repo package | loadGRAN |
| loadManifest | loadManifest |
| locatePkgVersion | locatePkgVersion |
| location | location location,PkgSource-method |
| logfun | logfun logfun,SwitchrParam logfun,SwitchrParam-method logfun<- logfun<-,SwitchrParam logfun<-,SwitchrParam-method |
| Make a Bioconductor SVN url for a package | makeBiocSVNURL |
| make file url | makeFileURL |
| makeLibraryCtx | makeLibraryCtx |
| Manifest constructor | makeManifest |
| Create a checkout of a package and all it's dependencies from a manifest | makePkgCheckout |
| makePkgDir | makePkgDir makePkgDir,ANY,ANY makePkgDir,ANY,ANY-method makePkgDir,ANY,BiocSource makePkgDir,ANY,BiocSource-method makePkgDir,ANY,CRANSource makePkgDir,ANY,CRANSource-method makePkgDir,ANY,GithubSource makePkgDir,ANY,GithubSource-method makePkgDir,ANY,GitSource makePkgDir,ANY,GitSource-method makePkgDir,ANY,LocalSource makePkgDir,ANY,LocalSource-method makePkgDir,ANY,SVNSource makePkgDir,ANY,SVNSource-method makePkgDir,ANY,TarballSource makePkgDir,ANY,TarballSource-method |
| makeSeedMan | makeSeedMan makeSeedMan,data.frame makeSeedMan,data.frame-method makeSeedMan,missing makeSeedMan,missing-method makeSeedMan,parsedSessionInfo makeSeedMan,parsedSessionInfo-method makeSeedMan,sessionInfo makeSeedMan,sessionInfo-method |
| Create a PkgSource object for a package | makeSource |
| Get or set the manifest associated with an object | manifest manifest,SessionManifest manifest,SessionManifest-method manifest<- manifest<-,SessionManifest manifest<-,SessionManifest-method |
| manifest_df | manifest_df manifest_df,PkgManifest manifest_df,PkgManifest-method manifest_df,SessionManifest manifest_df,SessionManifest-method manifest_df<- manifest_df<-,PkgManifest manifest_df<-,PkgManifest-method manifest_df<-,SessionManifest manifest_df<-,SessionManifest-method |
| Create Manifest from 'checkedout' directory containing many pkg dirs | manifestFromCheckoutDir |
| ManifestRow | ManifestRow |
| normalizePath2 | normalizePath2 |
| Notrack directory | notrack notrack,NULL notrack,NULL-method |
| Number of rows | nrow nrow,PkgManifest nrow,PkgManifest-method nrow,SessionManifest nrow,SessionManifest-method |
| packages | packages packages,SwitchrCtx packages,SwitchrCtx-method |
| Parsed sessionInfo output | parsedSessionInfo-class |
| Parse text output from printing SessionInfo objects | parseSessionInfoString |
| PkgManifest | PkgManifest PkgManifest-class |
| pkgname | pkgname pkgname,PkgSource pkgname,PkgSource-method pkgname<- pkgname<-,PkgSource pkgname<-,PkgSource-method |
| PkgSource | BiocSource-class CRANSource-class CVSSource-class GithubSource-class GitSource-class LocalSource-class PkgSource-class SVNSource-class TarballSource-class |
| publishManifest | publishManifest publishManifest,missing,ANY publishManifest,missing,ANY-method publishManifest,PkgManifest,character publishManifest,PkgManifest,character-method publishManifest,SessionManifest,character publishManifest,SessionManifest,character-method publishManifest,SwitchrCtx,ANY publishManifest,SwitchrCtx,ANY-method |
| removeLib | removeLib |
| RepoSubset | RepoSubset RepoSubset-class |
| rVersionManifest | rVersionManifest |
| SessionManifest | SessionManifest SessionManifest-class |
| shell init | sh_init_script sh_init_script,SwitchrParam sh_init_script,SwitchrParam-method sh_init_script<- sh_init_script<-,SwitchrParam,ANY sh_init_script<-,SwitchrParam-method |
| Get or set the number of seconds to wait between successive shell commands | shell_timing shell_timing,SwitchrParam shell_timing,SwitchrParam-method shell_timing<- shell_timing<-,SwitchrParam shell_timing<-,SwitchrParam-method |
| subdir | subdir subdir,PkgSource subdir,PkgSource-method subdir<- subdir<-,PkgSource subdir<-,PkgSource-method |
| switchBack | switchBack |
| switchrDeps | switchDeps |
| Get or set the base directory for switchr libraries | switchrBaseDir |
| SwitchrCtx | SwitchrCtx SwitchrCtx-class |
| Get or set packages to not unload when flushing the system | switchrDontUnload |
| switchrManifest | switchrManifest |
| Skip unloading of packages in session | switchrNoUnload |
| SwitchrParam | SwitchrParam SwitchrParam-class |
| switchTo | switchTo switchTo,character,character switchTo,character,character-method switchTo,character,missing switchTo,character,missing-method switchTo,character,PkgManifest switchTo,character,PkgManifest-method switchTo,character,RepoSubset switchTo,character,RepoSubset-method switchTo,character,SessionManifest switchTo,character,SessionManifest-method switchTo,character,SwitchrCtx switchTo,character,SwitchrCtx-method switchTo,SwitchrCtx,ANY switchTo,SwitchrCtx,ANY-method |
| system_w_init | system_w_init |
| update existing package repository | update_PACKAGES |
| updateManifest | updateManifest |
| versions_df | versions_df versions_df,SessionManifest versions_df,SessionManifest-method versions_df<- versions_df<-,SessionManifest versions_df<-,SessionManifest-method |
