Changes in version 0.11.4.2 (2017-05-24)
-------------------------

Bugfixes
  * Fix bug that doesn't look for the DESCRIPTION file in a complex git repo

Miscellaneous
  * Corrected typos in vignette

Changes in version 0.10.7 (2016-05-10)
-------------------------

Minor API changes
  * Rename Rcmd function to Rcmd2 to avoid conflict in R 3.3.*

Miscellaneous
	* Gracefully handle expected failures of BiocSVNManifest test,
	  on systems which choke on https svn urls.
	* No longer evaluate libManifest chunk in vignette due to problems on
	  CRAN build system.


Changes in version 0.10.0 (2016-05-04)
-------------------------

API changes
	* addPkgs generic now has replace argument controlling behavior in case
	  that the package already appears in the manifest.
	* New nrow generic and methods for PkgManifest and SessionManifest.
	* makeBiocSVNUrl now takes pkgtype argument and supports both software
	  and experimental data packages.

Bugfixes
	* Fix major bug which broke versioned package installation from CRAN
	  archive.
	* download.packages2 utility function now has necessary type argument.
	* BiocSVNManifest now grabs the correct branch of the data repository
	  when software_only is FALSE.
	* Reordered NEWS to be most-recent-first


Changes in version 0.9.27 (2016-02-09)
-------------------------

Minor API changes
    * export .libPaths2


Changes in version 0.9.26 (2016-02-09)
-------------------------

Bugfixes
	* fix bug in updateSVN when user/password are not specified


Changes in version 0.9.25 (2015-11-17)
-------------------------

Bugfixes
	* Switch R system call to Rcmd in findPkgVersionInBioc
	* Fix code which determines bioconductor branch to search for exact bioc
	  version.
	* Make download method defaults more robust (on systems without wget)


Changes in version 0.9.23 (2015-11-17)
-------------------------

Bugfixes
	* Fix svn update code by initializing args variable so function is not
	  hit
	* Fix code in findSVNRev to use new system_w_init api


Changes in version 0.9.21 (2015-10-20)
-------------------------

API Changes
        * system_w_init not accepts args and env arguments a la system2, though
	  ... still accepts system() based arguments, as that is called
	  underneath
	* BiocSVNManifest now uses 'svn ls' rather than available.packages to
	  populate the manifest. not_in_repo argument removed.

Bugfixes
	* Updated Bioc devel and Bioc release version numbers
	* Fixed system calls which were failing on Windows
	* annotateDESC now protects against packages appearing in more than one
	  place in the provided manifest

Miscellaneous
	* Added basic testing for svn-based ops, including makePkgSource and
	  BiocSVNManifest


Changes in version 0.9.19 (2015-08-16)
-------------------------

API changes
        * makeManifest() constructor now normalizes path for local packages in
	  manifest

Miscellaneous
	* disable git-based tests on build systems that don't have git installed


Changes in version 0.9.18 (2015-04-08)
-------------------------

Bugfixes
	* fix dependencies test.
	* fix documentation


Changes in version 0.9.17 (2015-07-29)
-------------------------

Bugfixes
	* fix problems related to git checkouts that were breaking tests (and
	  functionality) in Windows

API Changes
        * Add mustWork argument to normalizePath2, passthrough on Windows


Changes in version 0.9.16 (2015-07-28)
-------------------------

API Changes
	* Add shell_timing slot to SwitchrParam, and add accessor
	* Use shell_timing to split git commands
	* add experimental makePkgCheckout function

Bugfixes
	* fix typo in git command
	* findPkgDir no longer takes a repo argument, which was unused.

Changes in version 0.9.14 (2015-07-16)
-------------------------

Bugfixes
	* further iteration on how git checkouts are updated.


Changes in version 0.9.13 (2015-07-15)
-------------------------

Bugfixes
	* refine how git existing git checkouts are updated.
	* Add testing of git-based makePkgDir and updateGit functions


Changes in version 0.9.12 (2015-07-06)
-------------------------

Bugfixes
	* Fix regression in publishManifest resulting in files which contain
	  only the header comments

Miscellaneous
	* Remove unnecessary usage of globalVariable to increase compatability
	  with old R versions
	* Add requireNamespace2 for backwards compatability with old Rs, switch
	  to using that throughout package
	* Add alternative definition of paste0 for backwards compatability with
	  Rs old enough not to have it.


Changes in version 0.9.11 (2015-07-06)
-------------------------

Miscellaneous
	* We no longer use tools::package_dependencies to determine depedencies
	  because it is relatively new and prevents switchr from installing in
	  older Rs.

Changes in version 0.9.10 (2015-07-01)
-------------------------

Bugfixes
	* Fix regression(?) where specifying a SessionManifest seed for an
	  existing library would force it to rebuild and reinstall everything in
	  the seed.
	* Calling switchTo with a seed for  library that already exists now
	  invokes a message rather than a warning
	* We now import symbols from base packages (other than base) as per new
	  R CMD check requirements.


Changes in version 0.9.8
------------------

API changes
  * SessionManifest now defaults to defining a cohort of 0 specified package
    versions on top of the specified package manifest
  * Added head and tail methods for PkgManifest and SessionManifest objects
  * makeBiocSVNURL and related functions will now accept "devel" or "trunk" to
    indicate the current devel version. Default is now "devel"

New features
    * Added BiocSVNManifest function which creates a manifest of all svn
      locations for Bioc packages for a specific release (or the current devel
      trunk).

Bugfixes
  * Fix extraneous warning from dir.create call within lazyRepo when dir already
    exists
  * When specifying a package in switchrDontUnload, its (recursive) dependencies
    are now included also.
  * libManifest will no longer list base packages, as they are not installable
    in the normal sense.
  * lazyRepo ignores base packages
  * install_packages no longer builds a lazy repo when passed urls for existing
    repositories
  * empty calls to ManifestRow now correctly return an empty (0 row) manifest
    df, rather than a df with 1 row filled with NAs
  * crandb related methods (rVersionManifest and cranPkgVersManifest) now return
    SessionManifests rather than PkgManifests with tarball sources.
  * install_packages no longer prompts the user to select a CRAN mirror
    unnecessarily (bypass bug when avail is specified in install.packages)
  * Switched to dynamic determination of Bioc devel version using yaml across
    the whole package


Changes in version 0.9.6 (2015-06-16)
------------------------

API changes
  * Installation will no longer fail if bioconductor.com/config.yaml is
    unreachable. In this case the package will attempt to read it when the
    package is loaded, and throw a warning if this fails as well.
  * makeFileURL and fileFromFileURL are now exported.

Bugfixes
  * Fix transformation to and from file URLs in Windows (added regression test)


Changes in version 0.9.4 (2015-06-05)
------------------------

Minor new features
   * Add a lazyRepo,PkgManifest,ANY convenience method for building a lazy
     repo of an entire manifest

Bugfixes
   * Fix test for whether a url points to a repository to handle gist urls
     correctly
   * Fix handling of package checkout directories for Git branches
   * Fix typo strSplit -> strsplit
   * Fix gist-based manifest (url) support
