Changes in version 1.9 New features - New functions write_zattrs() and read_zattrs() provide support for reading, writing and updating Zarr v2 attributes. Bug fixes - .url_parse_other() now accounts for port numbers in host name and colons in S3 buckets. - writeZarrArray() now allows writing character arrays, and no longer errors complaining about null 'nchar' argument value. Default of 'nchar' is now NULL. - writeZarrArray() no longer silently and incorrectly fills the last rows/columns when dim is not divisible by chunk_dim. - The object name is no longer repeated (e.g., name.zarrname.zarr) when writing a Zarr array to a file in the current working directory. - Invalid URLs for examples with S3 storage in read_zarr_array() and zarr_overview() have been updated. - read_zarr_array() no longer errors on arrays with numeric values other than float, int, uint and complex. Internal changes - Coding style throughout the package has been harmonized using the air tool. Contributors using RStudio, Positron or VS Code should have their code styled automatically on save. - Continuous integration checks have been made stricter by setting biocCheck() error level to "error" rather than "never", and R CMD check error level to "warning" rather than "error". - Static analysis via the lintr package is now performed on each push and PR. It should mostly be invisible to users but might result in slightly increased performance in some cases. - The superseded httr dependency has been replaced with the lighter curl package, thus reducing the total number of dependencies for the package from 42 to 40. - The unused stringr dependency has been removed, reducing the total number of dependencies for the package from 40 to 38. Changes in version 1.7 - Added path() method for ZarrArray class that returns the location of the zarr array root. - Removed used of non-API call SETLENGTH in C code. - Small changes to compilation of internal blosc libraries to cope with the C23 compiler becoming the default in R-4.5.0 Changes in version 1.5 - Fixed bug when creating an empty array with a floating datatype. The fill value would be interpreted as an integer by read_metadata() and create and array of the wrong type. - Fixed bug in update_zarr_array() when NULL was provided to one or more dimensions in the index argument. This was parsed incorrectly and the underlying zarr was not modified. - Fixed bug in reading 64-bit integer arrays compressed with ZLIB or LZ4. The calculated decompression buffer size was too small and reading would fail. (Thanks to Dan Auerbach for the report: https://github.com/grimbough/Rarr/issues/10) - Added support for the ZarrArray S4 class and the DelayedArray framework. - Improvements to read and write performance. Changes in version 1.3 - Added support for using the zstd compression library for reading and writing. Changes in version 1.1 - Fixed bug when reading an array if the fill value in .zarray was null. - Addressed bug in makevars where Rarr.so could be compiled before libblosc.a was ready. Also backported to Rarr 1.0.2. (Thanks to Michael Sumner for reporting this issue: https://github.com/grimbough/Rarr/issues/5) - Corrected issue where fixed length string datatypes would be written with null terminators, resulting in strings that were one byte longer than the dtype value written in the .zarray metadata. Also backported to Rarr 1.0.3. - Added support for reading and writing the fixed length Unicode datatype, and for reading variable length UTF-8 datatype. Changes in version 0.99.9 - Response it initial package review (thanks @Kayla-Morrell) - Provided manual page examples for use_* compression filter functions. - Add details of how example data in inst/extdata/zarr_examples was created. - General code tidying Changes in version 0.99.8 - Patch compression libraries to remove R CMD check warnings about C functions that might crash R or write to something other than the R console. Working in Linux only. Changes in version 0.99.7 - Allow reading and writing chunks with GZIP compression. - Add compression level arguments to several compression tools. Changes in version 0.99.6 - Allow reading and writing chunks with no compression. - Enable LZ4 compression for writing. - Fix bug in blosc compression that could result in larger chunks than necessary. - Improve speed of indexing when combining chunks into the final output array. Changes in version 0.99.5 - Fixed bug when specifying nested chunks, where the chunk couldn't be written unless the directory already existed. Changes in version 0.99.4 - When writing chunks that overlap the array edge, even the undefined overhang region should be written to disk. Changes in version 0.99.3 - Allow choice between column and row ordering when creating a Zarr array Changes in version 0.99.2 - Catch bug when chunk files contain values outside the array extent. - Add manual page issues identified by BBS Changes in version 0.99.1 - Switch from aws.s3 to paws.storage for S3 data retrieval. Changes in version 0.99.0 - Initial Bioconductor submission. Changes in version 0.0.1 - Added a NEWS.md file to track changes to the package.