0.9.0

A new release 0.9.0 of the TileDB R package with support for the TileDB Embedded library version 2.2.4 (or later, also tested with 2.1.6 + 2.0.8)

Entries from the NEWS.md file follow:

0.9.0

• This release of the R package builds against TileDB 2.2.4, but has also been tested against two previous release series as well as the development version.

Improvements

• The older implementations tiledb_dense and tiledb_sparse are now marked as deprecated in favor of tiledb_array. No removal date is set or planned yet, but it is recommended to migrate to new code. (#180)

• Updated the underlying TileDB library to use TileDB 2.1.2 on macOS and Linux (when no system library is found) (#181)

• There is extended support for array creation directly from DataFrame objects. (#182)

• Internal TileDB performance statistics can now be exported 'raw' in JSON format (for TileDB versions greater than 2.0.3). (#183, #186)

• The vignette was updated with respect to the preferred used of tiledb_array. (#184)

• The Hilbert cell layout added recently to TileDB Embbeded is supported. (#185)

• Virtual File System functions now use the default VFS object which allows for a simpler interface (#187)

• TileDB Array Dimension support has been extended to more data types (#188)

• Datetime support for Dimensions and Attributes has been extended (#189)

• The API coverage has been increased alongside an update of the documentation (#190)

• The Array schema can now be accessed and printed directly from a URI (#191)

• The accessor for the estimated array result size was updated with the updaded API (#192)

• Initial Arrow support for importing and exporting vector has been added (#193, #199)

• Support for the default TileDB Embedded library was set to 2.1.3 and 2.1.4 (#194, #195)

• The package documentation was updated and extended (#196)

• Support for 'time-traveling' access to arrays was extended (#197)

• Support for the default TileDB Embedded library was set to 2.1.5 and 2.1.6 (#198, #200)

• Support for the default TileDB Embedded library was set to 2.2.0 and 2.2.1 (#201, #202)

• The vignettes were updated and extended (#203)

• The fromDataFrame() function was extended (#204)

• Some unit tests were conditioned on having TileDB Embedded 2.1.0 or later (#205)

• Support for the default TileDB Embedded library was set to 2.2.2 and 2.2.3 (#206, #208)

• The default TileDB Embedded library version is now set centrally (#207)

• Support was added to write and read sparse matrices directly via higher-level functions (#209)

• Arrow array and schema allocation and deallocation helper functions were added (#210)

• Support for Nullable vectors has been added (#211)

• Support for the default TileDB Embedded library has been set to 2.2.4 (#212)

• Small tweaks to timezone and factor settings in unit tests, and vignette (#213, #214, #215)

0.8.2

A new release 0.8.2 of the TileDB R package with extended support for the TileDB Embedded library version 2.1.1 and later.

Entries from the NEWS.md file follow:

0.8.2

• This release of the R package builds against TileDB 2.1.1, but has also been tested against previous releases as well as the development version.

Improvements

Bug Fixes

• The tiledb_stats_reset() function is now exported, and tiledb_stats_print() has been re-added as a wrapper to tiledb_stats_dump() (#174)

• Configuration options for compute and input/output concurrency set only the new TileDB 2.1 configuration options; documentation on how to checking values has been expanded. (#175)

• The download.file() use now (re-)sets the timeout to the standard value to accomodate uses where a lower value may be set such as some CRAN builders (#176)

• Build scripts have been updated for use of TileDB 2.1.1 on Windows, macOS and Linux (when no system library is found) (#178)

0.8.1

A new release 0.8.1 of the TileDB R package with extended support for the TileDB Embedded library version 2.1.0 and later.

Entries from the NEWS.md file follow:

0.8.1

• This release of the R package supports TileDB 2.1.0, but has also been tested against the previous release TileDB 2.0.8.

Improvements

• R-based metadata accessors have been extended to also support tiledb_array arrays (#169)

• configure now also checks the hardware platform before attempting a download of a prebuilt library (#170)

• SystemRequirements: in the DESCRIPTION file has been expanded (#170)

Bug Fixes

• A typo in the manual page source, copied three more times, has been corrected (#167)

0.8.0

A new release 0.8.0 of the R package with extended support for the TileDB Embedded library version 2.0.*.

Entries from the NEWS.md file follow:

0.8.0

• This release of the R package supports TileDB 2.0.8, but has also been tested against the previous release TileDB 1.7.7.

Improvements

• A new function limitTileDBCores() controls resource use, it is being used in tests (#139)

• The function tiledb_get_context() is now exported (#140)

• A new S4 class tiledb_vfs provides access to the virtual file system functionality (#140)

• Functionality of selected_ranges() was extended (#142)

• More (signed and unsigned) integer types are supported as dimension types in sparse arrays (#143), as well as in dense arrays (#144) and as attributes (#144)

• A new S4 class tiledb_query offers access to the query object functionality in the underlying library (#145, #161)

• Examples are running with a lowered thread count setting per CRAN Policies (#152)

• External pointer objects now use explicitly set finalizers (#149)

• Users can explicitly select a TileDB Embedded shared library built to be used (#151)

• Compile-time configuration was refactored and changes (#158)

• Windows builds are now possible also using TileDB Embedded build 2.0.8 (#159, #164)

• Continuous integration now uses Azure for macOS and Linux (#160) and GitHub Actions for Windows (#162,#165)

Bug Fixes

• Conda builds no longer call install_name_tool (#133, #146)

• Downloading the prebuild library accomodates multitple targets per architecture (#150)

• The number of TBB threads will only be set once (#158)

0.7.1

A minor release 0.7.1 of the R package with extended support for the TileDB 2.0.*. Entries from the NEWS.md file follow:

0.7.1

• This release of the R package supports TileDB 1.7.7 and TileDB 2.0.5

Improvements

• Range selection for tiledb_array objects can get/set matrices defining range (#132)

• The show methods are now consistently exported and documented (#134)

• TileDB is listed as copyright owner in DESCRIPTION as well (#134)

• The selected_ranges method for tiledb_array types was improved, and more tests were added (#135)

• C++ source code was rearranged slightly with respect to possible API deprecations in the libary (#136)

• A very simple example for using TileDB Cloud from R was added (#136)

• The helper scripts for the package build are now in the tools/ directory (#137)

• The (optional) library download now relied on suggested R packages 'jsonlite' and 'curl' (#137)

Bug Fixes

• A character conversion when retrieving array metadata resulting in an out-of-bounds reads has been corrected (#137)

0.7.0

A new release 0.7.0 of the R package with extended support for the TileDB 2.0.0. Entries from the NEWS.md file follow:

0.7.0

• This release of the R package supports TileDB 1.7.7 and TileDB 2.0.5

Improvements

• All S4 classes are now consistently documented or aliased (#117)

• If needed, the build system now builds TileDB and its required component (#118)

• Data.frame support has been extended further and made more robust (#119, #123, #128)

• The Description: in DESCRIPTION has been refreshed (#120)

• Builds on Linux and macOS can use a pre-built TileDB library (#121, #122, #124, #127)

• Copyright headers were added to source files (#125)

• The pkg-config helper can be used when building from source (#126)

• An introductory vignette was added (#129)

0.6.0

TileDB 0.6.0 is new release with support for many features TileDB 2.0.0.

Entries from the included NEWS.md follow:

0.6.0

• This release of the R package supports TileDB 1.7.7 and TileDB 2.0.0

Improvements

• Added support for heterogenous domains

• Added support for string dimensions

• Added support for duplicate dimension values in sparse arrays

• Added support for data.frame object import and conversion to dense and
  sparse arrays

• Added enhanced support for data.frame returns from dense array

• Added support for data.frame column selection (i.e. attributes) from dense array

• Added support for new filter types for md5 and sha256 checksums

• Added support for Date, Datetime (i.e. POSIXct) and nanosecond dense and
  sparse array attributes and domains

• Documentation and examples were enhanced and extended

• tiledb_stats_dump() is now simpler (but needs to be enabled first as
  usual)

• Support for nanosecond and integer64 columns was added, this is an optional
  feature for which the nanotime (and bit64) packages need to be installed

Changes

• Dimension attributes must now be named

0.5.0

TileDB R 0.5.0 is another release with extended support for the TileDB API.

Highlights include:

• Added support for i) multi-range subarrays, ii) incomplete queries,
  iii) result size estimation and iv) 'time travel' at to time-points has been
  added #105

• Added additional support for metadata #106

0.4.0

TileDB R 0.4.0 is another release with extended support for the TileDB API.

Highlights include:

• This release of the R package builds against the 1.7.* releases of tiledb.

• This release contains increased coverage of the underlying API, additional
  documentation as well as unit tests.

0.3.1

TileDB-R 0.3.1 is a snapshot release with a large change-set reflecting accelerated development by @eddelbuettel, including major refactoring, improvement of error handling and object display, and additional examples.

The highlight feature addition is support for array metadata (#87)