deepbiop-v0.1.15

Added

• Add support for parsing FASTA files and functions

Other

• Update pre-commit hooks to use pre-commit stage

deepbiop-utils-v0.1.15

Added

• Enhance compression handling with new functions and improved documentation for file type detection

Other

• Update function names and improve compression handling in BAM to FASTQ conversion
• add docs

deepbiop-fq-v0.1.15

Added

• Add random selection functionality for FASTQ records and expose it to Python
• Enhance ExtractFq command to support random selection of reads and update Cargo.toml dependencies
• Add functions to combine multiple FASTA and FASTQ files into bgzip-compressed formats
• Add fas2one and fqs2one commands for batch file conversion

Other

• ♻️ Optimize record selection in select_record_from_fq_by_random function using for loop
• ♻️ Refactor select_record_from_fq_by_random function to use reservoir sampling algorithm
• Update fetch_records method to use fastq reader and improve record handling

deepbiop-fa-v0.1.15

Added

• Add random selection functionality for FASTQ records and expose it to Python
• Add functions to combine multiple FASTA and FASTQ files into bgzip-compressed formats
• Add fas2one and fqs2one commands for batch file conversion

Other

• ♻️ Optimize record selection in select_record_from_fq_by_random function using for loop
• ♻️ Refactor select_record_from_fq_by_random function to use reservoir sampling algorithm
• Update fetch_records method to use fastq reader and improve record handling

deepbiop-core-v0.1.15

Added

• Add k-mer generation functions and related utilities with comprehensive documentation
• Integrate deepbiop-core library and refactor module imports across crates
• Introduce deepbiop-core library and refactor encoder options across modules
• Add diagram image and SVG file
• Add CLI installation guide
• Update MSRV to 1.75.0
• Add support for processing BAM format in DeepBiop
• Add initial project files and configurations

Fixed

• Update Minimum Supported Rust Version to 1.83.0
• Update Minimum Supported Rust Version to 1.82.0
• Update badge URL for deepbiop crate

Other

• Remove redundant keyword from Cargo.toml
• Update function names and improve compression handling in BAM to FASTQ conversion
• add docs
• Update comment to reflect correct sub-module registration in Python integration
• Add documentation for default values
• Update MSRV version in README and improve formatting
• Remove outdated documentation badge
• Add documentation badge to README.md
• Update badges in README.md to use consistent format
• Update README.md setup instructions
• Update README.md formatting
• Add tests for bam and fq modules
• Initial commit

deepbiop-cli-v0.1.15

Added

• Add markdown help option and documentation for deepbiop-cli
• Update output file extensions for FasToOne and FqsToOne commands to .fa.gz and .fq.gz respectively
• Add output option for specifying file paths in ExtractFa and ExtractFq commands
• Update ExtractFa to support optional read selection by path or random count
• Enhance ExtractFq command to support random selection of reads and update Cargo.toml dependencies
• Add fas2one and fqs2one commands for batch file conversion

deepbiop-bam-v0.1.15

Added

• Update keywords in Cargo.toml files
• (io) Refactor bam2fq function to handle equal seq and qual lengths
• Add BAM to fastq conversion functionality
• Add CLI installation guide

Other

• Remove unnecessary empty line
• Improve function and field comments
• Improve code readability and performance
• Merge branch 'dev'

deepbiop-v0.1.14

Added

• Add support for parsing FASTA files and functions

Other

• Update pre-commit hooks to use pre-commit stage

deepbiop-utils-v0.1.14

Added

• Enhance compression handling with new functions and improved documentation for file type detection

Other

• Update function names and improve compression handling in BAM to FASTQ conversion
• add docs

deepbiop-fq-v0.1.14

Added

• Integrate deepbiop-core library and refactor module imports across crates
• Introduce deepbiop-core library and refactor encoder options across modules
• Add Fastq to Parquet conversion functionality
• Add stream-based record selection for FASTA and FASTQ
• Add extractfq and extractfa commands, and related functionality

Other

• Update function names and improve compression handling in BAM to FASTQ conversion
• Update function calls for selecting records by stream
• Update file extensions and logging messages