Changelog

Source: NEWS.md

Version 1.99.5 - 2026-07-13

Updated:

  • Preparing for Bioconductor submission

Added:

  • biocViews

Version 1.7.5 - 2026-07-11

Updated:

  • Reduced warnings entirely
  • Moved CMakeLists.txt to tools/
  • Moved compiled makeblastdb executable to bin/
  • pragma to compile cloudflare-zlib and suppress warnings

Removed:

  • install.libs.R - libs are copied in respective Makevars
  • O3 optimization

Version 1.7.4 - 2026-07-08

Fixed:

  • Parquet threads crashing vignettes on windows. Single thread enforced for parquet writers.

Updated:

  • Vignette block for outputformats
  • RccpThread::R* wherever necessary

Added:

  • CSV and IPC output format support
  • O3 optimization

Version 1.7.2 - 2026-07-01

Updated:

  • Included CMake variables to prevent home folder usage for CRAN policy compliance.

Version 1.7.1 - 2026-06-30

Updated:

  • [Windows] Fix for MakeBLASTDB()
  • Checked for cross-platform builds using r-hub
  • CRAN friendly build

Version 1.7.0 - 2026-04-12

Updated:

  • CXX STD to CXX20
  • Package directory structure
  • Startup message moved to .OnAttach()
  • manpages and vignettes

Added:

  • Patch fix to arrow for timezone format with GCC > 14 and C++20
  • QuickBLAST logo

Removed:

  • Non-portable flags: -fPIC -O3 -Wall
  • pkgdown site files

Version 1.6.5 - 2026-04-09

Updated:

  • README
  • vignettes
  • R doc site

Fixed:

  • roxygen //’ tags
  • File existence check for file BLAST
  • Race conditions and corruptions in file BLAST when the no. of threads was greater than the input sequence count
  • When return_values==F and writing to output file, return of empty record batch is not erroreous.

Version 1.6.4 - 2026-04-08

Updated:

  • Static dependencies + Shared R library as imposed by the R package policy - Shared libs are not built and copied over anymore
  • C std=gnu2x, CXX std=gnu++20
  • [Windows] Using source built sqlite3 due to missing aux functions
  • [Windows] Toolchain injection provides 40+ patches to compile ncbi-cxx-toolkit with Rtools45 toolchain
  • Seperated *nix and Windows build flow using preprocessor directives and build vars
  • BLAST_dbs() parallelization
  • [Windows] OpenMP Support

Fixed:

  • Windows build
  • iconv for multi-UTF support & unbounded file mapping and finish of dangling file writer thread in arrow wrapper

Added:

  • [Windows] Dependencies provided as external projects to be compiled by CMake
  • multi-os memory mapping, parquet and csv format support to arrow wrapper
  • Chunking of large sequences to support genome scale megablast - blast does not work for some reason

Removed:

  • patchelf, R source compilation

Version 1.5.0 - 2026-03-25

Updated:

  • Added optimal Visit() functions that uses the visitor pattern of Arrow to flatten arrow types to R lists

Version 1.4.7 - 2026-03-13

Updated:

  • Considerable optimizations
  • Attempt to set $ORIGIN through linker flags failed for ncbi-toolkit
  • Tweaking windows build system for r-cran winbuilder
  • Removing ‘-fdiagnostics-color=always’
  • Clear verbosity
  • shared lib trimming failed but stripping works

Added:

  • Using boost headers for quick vector access in RecordBatch to R List conversion
  • auto-joining safe_jthread implementation wherever necessary
  • Support for genomes through sequence chunking
  • Seperate stuct to simplify arrow container storage

Version 1.3.2 - 2026-03-08

Bug

  • There is a known bug with RStudio due to libc++ library collisions between QuickBLAST and RStudio