| BiocDevel |
BiocDevel |
| BiocRelease |
BiocRelease |
| biocReposForVers |
biocReposForVers |
| BiocSource-class |
PkgSource An object representing the source location of a package. This is a virtual used exlusively through its subclasses, which are used to differentiate the different types of package source locations. |
| BiocSVNManifest |
Create a manifest of Bioc SVN locations |
| BiocVers |
BiocVers A constructor for creating a RepoSubset object for a specified release of Bioconductor, which includes only the BiocInstaller package. |
| branch |
Get or set the branch associated with a Package Source |
| branch,PkgSource |
Get or set the branch associated with a Package Source |
| branch-method |
Get or set the branch associated with a Package Source |
| branch<- |
Get or set the branch associated with a Package Source |
| branch<-,PkgSource |
Get or set the branch associated with a Package Source |
| branch<--method |
Get or set the branch associated with a Package Source |
| c,PkgManifest |
cmethods Combine 2 or more manifests of the same type (PkgManifest or SessionManifest) |
| c-method |
cmethods Combine 2 or more manifests of the same type (PkgManifest or SessionManifest) |
| checkIsPkgDir |
Check if a directory contains package sources |
| cranPkgVersManifest |
cranPkgVersManifest Create a Pkg manifest which points to tarballs representing a particular version of a CRAN package and versions of its (recursive) dependencies that were contemporary on the first or last day the specified package version resided on CRAN |
| CRANSource-class |
PkgSource An object representing the source location of a package. This is a virtual used exlusively through its subclasses, which are used to differentiate the different types of package source locations. |
| currentCompEnv |
currentCompEnv |
| CVSSource-class |
PkgSource An object representing the source location of a package. This is a virtual used exlusively through its subclasses, which are used to differentiate the different types of package source locations. |
| getPkgDir |
Construct pockage directory path |
| GithubManifest |
GithubManifest |
| GithubSource-class |
PkgSource An object representing the source location of a package. This is a virtual used exlusively through its subclasses, which are used to differentiate the different types of package source locations. |
| GitSource-class |
PkgSource An object representing the source location of a package. This is a virtual used exlusively through its subclasses, which are used to differentiate the different types of package source locations. |
| gotoVersCommit |
gotoVersCommit This is a low-level function not intended for direct use by the end user. |
| gotoVersCommit,character,BiocSource |
gotoVersCommit This is a low-level function not intended for direct use by the end user. |
| gotoVersCommit,character,CRANSource |
gotoVersCommit This is a low-level function not intended for direct use by the end user. |
| gotoVersCommit,character,GitSource |
gotoVersCommit This is a low-level function not intended for direct use by the end user. |
| gotoVersCommit,character,SVNSource |
gotoVersCommit This is a low-level function not intended for direct use by the end user. |
| gotoVersCommit-method |
gotoVersCommit This is a low-level function not intended for direct use by the end user. |
| lazyRepo |
lazyRepo |
| lazyRepo,character,PkgManifest |
lazyRepo |
| lazyRepo,character,SessionManifest |
lazyRepo |
| lazyRepo,PkgManifest,ANY |
lazyRepo |
| lazyRepo,SessionManifest,ANY |
lazyRepo |
| lazyRepo-method |
lazyRepo |
| libManifest |
libManifest Create a Session- or PkgManifest for the contents of a switchr library. |
| libManifest,character |
libManifest Create a Session- or PkgManifest for the contents of a switchr library. |
| libManifest,missing |
libManifest Create a Session- or PkgManifest for the contents of a switchr library. |
| libManifest,SwitchrCtx |
libManifest Create a Session- or PkgManifest for the contents of a switchr library. |
| libManifest-method |
libManifest Create a Session- or PkgManifest for the contents of a switchr library. |
| LibraryProfile-class |
LibraryProfile (experimental) Currently unused/under heavy development. |
| 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 An object representing the source location of a package. This is a virtual used exlusively through its subclasses, which are used to differentiate the different types of package source locations. |
| locatePkgVersion |
locatePkgVersion |
| location |
location generic Retreive the directory associated with an object |
| location-method |
location generic Retreive the directory associated with an object |
| logfun |
Get or set the logging function in an object associated with a SwitchrParam |
| logfun,SwitchrParam |
Get or set the logging function in an object associated with a SwitchrParam |
| logfun-method |
Get or set the logging function in an object associated with a SwitchrParam |
| logfun<- |
Get or set the logging function in an object associated with a SwitchrParam |
| logfun<-,SwitchrParam |
Get or set the logging function in an object associated with a SwitchrParam |
| logfun<--method |
Get or set the logging function in an object associated with a SwitchrParam |
| makeBiocSVNURL |
Make a Bioconductor SVN url for a package |
| makeFileURL |
make file url |
| makeLibraryCtx |
makeLibraryCtx |
| makeManifest |
Manifest constructor Create a package manifest |
| makePkgCheckout |
Create a checkout of a package and all it's dependencies from a manifest |
| makePkgDir |
makePkgDir This is an internal function not intended to be called directly by end users |
| makePkgDir,ANY,ANY |
makePkgDir This is an internal function not intended to be called directly by end users |
| makePkgDir,ANY,BiocSource |
makePkgDir This is an internal function not intended to be called directly by end users |
| makePkgDir,ANY,CRANSource |
makePkgDir This is an internal function not intended to be called directly by end users |
| makePkgDir,ANY,GithubSource |
makePkgDir This is an internal function not intended to be called directly by end users |
| makePkgDir,ANY,GitSource |
makePkgDir This is an internal function not intended to be called directly by end users |
| makePkgDir,ANY,LocalSource |
makePkgDir This is an internal function not intended to be called directly by end users |
| makePkgDir,ANY,SVNSource |
makePkgDir This is an internal function not intended to be called directly by end users |
| makePkgDir,ANY,TarballSource |
makePkgDir This is an internal function not intended to be called directly by end users |
| makePkgDir-method |
makePkgDir This is an internal function not intended to be called directly by end users |
| makeSeedMan |
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 |
| 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 |
| packages |
List the packages installed in a switchr context (library) |
| packages,SwitchrCtx |
List the packages installed in a switchr context (library) |
| packages-method |
List the packages installed in a switchr context (library) |
| parsedSessionInfo-class |
Parsed sessionInfo output |
| parseSessionInfoString |
Parse text output from printing SessionInfo objects |
| PkgManifest |
PkgManifest |
| PkgManifest-class |
PkgManifest |
| pkgname |
Get or set the package name associated with a Package Source |
| pkgname,PkgSource |
Get or set the package name associated with a Package Source |
| pkgname-method |
Get or set the package name associated with a Package Source |
| pkgname<- |
Get or set the package name associated with a Package Source |
| pkgname<-,PkgSource |
Get or set the package name associated with a Package Source |
| pkgname<--method |
Get or set the package name associated with a Package Source |
| PkgSource-class |
PkgSource An object representing the source location of a package. This is a virtual used exlusively through its subclasses, which are used to differentiate the different types of package source locations. |
| publishManifest |
publishManifest |
| publishManifest,missing,ANY |
publishManifest |
| publishManifest,PkgManifest,character |
publishManifest |
| publishManifest,SessionManifest,character |
publishManifest |
| publishManifest,SwitchrCtx,ANY |
publishManifest |
| publishManifest-method |
publishManifest |
| 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 |
Set or Retrieve the shell initialization script for an object |
| sh_init_script,SwitchrParam |
Set or Retrieve the shell initialization script for an object |
| sh_init_script-method |
Set or Retrieve the shell initialization script for an object |
| sh_init_script<- |
Set or Retrieve the shell initialization script for an object |
| sh_init_script<-,SwitchrParam,ANY |
Set or Retrieve the shell initialization script for an object |
| sh_init_script<--method |
Set or Retrieve the shell initialization script for an object |
| subdir |
subdir |
| subdir,PkgSource |
subdir |
| subdir-method |
subdir |
| subdir<- |
subdir |
| subdir<-,PkgSource |
subdir |
| subdir<--method |
subdir |
| SVNSource-class |
PkgSource An object representing the source location of a package. This is a virtual used exlusively through its subclasses, which are used to differentiate the different types of package source locations. |
| switchBack |
switchBack |
| switchDeps |
switchrDeps The base packages, as well as switchr and its dependencies. |
| switchrBaseDir |
Get or set the base directory for switchr libraries |
| SwitchrCtx |
SwitchrCtx |
| SwitchrCtx-class |
SwitchrCtx |
| switchrDontUnload |
Get or set the packages to not unload when flushing the system |
| switchrManifest |
switchrManifest |
| switchrNoUnload |
Skip unloading of packages in session |
| SwitchrParam |
SwitchrParam A contstructor for a SwitchrParam object representing a number of common parameters understood by the switchr framework |
| SwitchrParam-class |
SwitchrParam A contstructor for a SwitchrParam object representing a number of common parameters understood by the switchr framework |
| 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 |