biosyntax-v1.0.0

Release Notes

🐣 bioSyntax v1.0.0b 🐣

• Syntax highlighting for FASTA, FASTQ, CWL, BED, GTF, PDB, PML, SAM, VCF file formats
• Available for: less, vim, gedit, sublime and VScode
• Updated installer script + packaged documentation

Thanks To

• @daissi for packaging for Debian / Ubuntu releases.
• @liyao001 for the port to VScode

Hotfix

• Included sublime and vim folder in release zip.

biosyntax-v0.1-beta4

Release Notes

• New Syntax vim-nexus
• New Syntax vim-pml & sublime-pml(Pymol Script Language)
• New Syntax cwl-sublime and cwl-vim (Common Workflow Language)
• Add bam-less alias for sam-less by default
• Removed sudo requirements for linux-gedit & linux-less installations

New Alternative Syntaxes

• vim_fasta-ORF: Syntax for finding and highlighting Open Reading Frames

Thanks to

• Luis Carvalho for vim-nexus
• @manabuishii for cwl-sublime and cwl-vim
• @speleo3 for vim-pml & @bbarad for sublime-pml

biosyntax-v0.1-beta3

Release Notes

• Updated installer script with prompts
• Sublime bioSyntax file formats will not automatically use the bioMonokai theme; users can set the theme for all other files to whichever they like.
• Re-organized repo to have vim/ and sublime/ as submodules for installation via Pathogen and PackageControl respectively
• Few minor bug fixes across syntaxes.
• Sublime/vim/gedit gtf and bed files are piloting 2-shade chromosome coordinates

biosyntax-v0.1-beta2

Release Notes

• Added .flagstat support (from: samtools flagstat) for all ports
• Fixed a bug with sam-less, sam-vim, sam-gedit syntax files not working with some sam files.
• Fixed a few minor bugs in the installer and added less install prompts
• Fixed a few minor bugs in CLUSTAL format and added .aln extension recognition.

Thanks to:

• @GuangchuangYu for installer bugfix.
• @xis19 for gaussian-vim syntax file (quantam chemistry).
• @vievieyu for bug-fix in CLUSTAL and adding .aln support

biosyntax-v0.1-beta1

Release Notes

• Pre-print manuscript version
• Updated installer (v0.1) script to be more descriptive, require less sudo commands

biosyntax-v0.1-beta

Release Notes

🐣 Initial bioSyntax release 🐣

• Syntax highlighting for FASTA (nt + aa), FASTQ, BED, GTF, PDB, SAM, and VCF file formats
• Ported for gedit, sublime-text-3, vim, and less
• Previous development was done on www.github.com/ababaian/bioSyntax
• Installer updated