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CHANGELOG

2024-05-18

  • Add script to dump duckdb schema to file.
  • Add python cookiecutter script.
  • Add LLM prompt.
  • Replace exa.
  • Add script to convert poetry project to markdown.
  • Add hammerspoon command to create window setup.
  • Add npm PATH.
  • Add additional bioinformatics scripts.
  • Replace process_today.sh with automated version using launch agents.
  • Remove copilot in vim

2023-04-07

  • Fix path for creating wiki links
  • Use difft for git diffs.
  • Add script to get tax id from NCBI.
  • PR layout in PR creation script.
  • Add git lfs configuration.
  • Add script query grafana.

2023-04-05

  • Add bash script to create PR from CHANGELOG.md

2023-04-04

  • Add fish completions for gh.
  • Remove deprecated convert_daily_log.py.
  • Update dictionary.
  • Add script to remove unused git branches.
  • Add script to bump poetry dependencies.
  • Fix zettel path directory when creating a wiki link

2023-03-30

  • Add nvim function to insert a wiki link found using fzf.
  • Add python script to convert old format wiki entries into the new vimwiki format.
  • The today script tries to insert a quote at the beginning.
  • The today script loads a different template if it is a weekend.

2023-02-10

  • Add zoxide command to fish.
  • Add vim text alignment plugin.
  • Update dictionary.

2023-01-17

  • Added script to create the 'today' wiki file using a jinja template.
  • Add bash shortcut to jump to temporary directory.
  • Removed convert_daily_log.py. Use dedicated python package for this instead.
  • Process today script also deletes the source file afterward.

2023-01-12

  • Add CI workflow for checking files are formatted.
  • Add markdown to pdf conversion script.
  • Remove fish greeting.
  • Add vim command to open current file in sublime.
  • Fix aspell dictionary script.

2022-12-27

  • Added parquet_less.sh script

2022-12-14

  • Alias mosh to ssh.
  • Add nextflow vim syntax highlighting.

2022-12-13

  • Convert today alias to a bash script that copies over the template file.
  • Update dictionary
  • Add gruvbox as a light theme

2022-12-01

  • Add shell script helpers for running common bioinformatics tools.
  • Add python script for converting blast to coverage file.
  • Increase font size

2022-11-01

  • Update wiki scripts

2022-10-31

  • Use Nord colours for iterm and vim

2022-09-30

  • Add vim plugin for moving, deleting, ... files.
  • Additional aliases working files.

2022-08-22

  • Remove vundle submodule.
  • Fix ansible install steps.
  • Fix for fish shell path in tmux.
  • iterm is setup using the iterm profiles instead.

2022-08-22

  • Use vim wiki for personal wiki.
  • Add telescope vim plugin.

2022-07-23

  • Additional commands for searching personal wiki
  • Update dictionary.

2022-02-17

  • Additional scripts for working with yml and parquet.
  • Update dictionary.

2022-01-24

  • Add script preview parchet.
  • Add script to convert md to docx
  • Add script to fetch genome FASTA
  • Add script to preview hocon files.
  • Justfile syntax highlighting
  • git merge no longer tries to sign commit.
  • iterm2 starts in cache directory.

2021-12-03

  • Add scripts to fetch data from NCBI.
  • Run black on python files.
  • Streamline output file from converting daily log

2021-11-17

  • Fix shell path so python venv bin is first.
  • Fix syntax highlighting in less.

2021-11-15

  • Remove unused git submodules
  • Update README
  • Add additional bash and fish shortcuts
  • Remove zshrc

2021-11-10

  • Add HTML syntax support to vim
  • The asdf language manager uses brew ---prefix instead of hard coded path.
  • Remove code completion plugin for the time being.
  • Remove tmux escape-time option that was causing issues with command line edit in fish.

2021-11-09

  • Add support for using fzf in vim

2021-11-08

  • Remove old and out of date files.
  • Additional vim short cuts.
  • Move aspell files to directory.

2021-11-05

  • Fix for parsing pubmed dates when creating markdown page.
  • Move fish config files to top-level directory.
  • Add fish syntax highlighting to vim.
  • Symbolic link for aspell dictionary.
  • Use exa instead of ls

2021-11-04

  • Add rc for nvim at nvim/init.vim
  • Update markdown filetype settings to use the vim-markdown plugin.
  • Remove old shell_settings directory instead use .bashrc for common functions between shells.
  • Use ansible to install all dotfiles
  • Add a script to create markdown pages from pubmed entries.