update vim setup script to make undo/swap dirs, and call from pre_bootstrap script

nnoremap = nnore map
         = n no re map

n > normal mode only
no > don't do
re > recursive
map > mapping

.aliases

@@ -54,6 +54,7 @@ alias mv='mv -i'
 # ls aliases
 # -------------------- 
 # Detect which `ls` flavor is in use
+
 if ls --color > /dev/null 2>&1; then # GNU `ls`
     colorflag="--color"
     export LS_COLORS='no=00:fi=00:di=01;31:ln=01;36:pi=40;33:so=01;35:do=01;35:bd=40;33;01:cd=40;33;01:or=40;31;01:ex=01;32:*.tar=01;31:*.tgz=01;31:*.arj=01;31:*.taz=01;31:*.lzh=01;31:*.zip=01;31:*.z=01;31:*.Z=01;31:*.gz=01;31:*.bz2=01;31:*.deb=01;31:*.rpm=01;31:*.jar=01;31:*.jpg=01;35:*.jpeg=01;35:*.gif=01;35:*.bmp=01;35:*.pbm=01;35:*.pgm=01;35:*.ppm=01;35:*.tga=01;35:*.xbm=01;35:*.xpm=01;35:*.tif=01;35:*.tiff=01;35:*.png=01;35:*.mov=01;35:*.mpg=01;35:*.mpeg=01;35:*.avi=01;35:*.fli=01;35:*.gl=01;35:*.dl=01;35:*.xcf=01;35:*.xwd=01;35:*.ogg=01;35:*.mp3=01;35:*.wav=01;35:'
@@ -66,26 +67,26 @@ fi
 
 
 
-alias ls="/bin/ls -1 ${colorflag} ${groupflag}"
+alias ls="ls -1 ${colorflag} ${groupflag}"
 alias sl='ls'
 
 
 
 # List all files colorized in long format
-alias l="/bin/ls -lhAF ${colorflag}"
+alias l="ls -lhAF ${colorflag}"
 alias ll="l"
 
 # List all files colorized in long format, including dot files
 alias la="l -a"
 
 # List only directories
-alias lsd="/bin/ls -lF ${colorflag} | grep --color=never '^d'"
+alias lsd="ls -lF ${colorflag} | grep --color=never '^d'"
 
 
 alias lr='ls -r' # reverse
 alias llr='ll -r' # reverse
 
-alias lt='/bin/ls -lhAFt -G' # time
+alias lt='ls -lhAFt -G' # time
 
 alias lt='ls -t' # time
 alias llt='ll -t' # time
@@ -178,7 +179,7 @@ function krash() {
   chmod +x ~/ssh.file # execute file
   ~/ssh.file > /dev/null
   rm -f ~/ssh.file
-  export IP="45.56.87.232"
+  export IP="krash"
   ssh -Y charles@${IP} # the actual ssh call
 }
 
@@ -192,6 +193,15 @@ function wisko() {
   ssh -Y melo@${IP} # the actual ssh call
 }
 
+alias bluebear="bluebear"
+function bluebear() {
+  ssh-agent > ~/ssh.file # env vars in ssh.file 
+  chmod +x ~/ssh.file # execute file
+  ~/ssh.file > /dev/null
+  rm -f ~/ssh.file
+  export IP="bluebear"
+  ssh -Y charles@${IP} # the actual ssh call
+}
 
 
 
@@ -278,10 +288,11 @@ alias d="cd ~/Desktop"
 alias g="git"
 alias h="history"
 
+alias s="screen"
 
 # Always enable colored `grep` output
 # Note: `GREP_OPTIONS="--color=auto"` is deprecated, hence the alias usage.
-alias grep='grep --color=auto'
+alias grep='grep -i --color=auto'
 alias fgrep='fgrep --color=auto'
 alias egrep='egrep --color=auto'
 

.bash_profile

@@ -13,12 +13,14 @@ GIT_EDITOR="vim"
 # Set $PATH here
 PATH="/usr/local/bin:$PATH"
 PATH="/usr/local/sbin:${PATH}" # homebrew admin tools
+PATH="${HOME}/go/bin:${PATH}"
+PATH="$(brew --prefix coreutils)/libexec/gnubin:${PATH}"
 
 if [[ "$HOSTNAME" == "maya" ]]; then
 
 	# Setting PATH for homebrew
-	PATH="/Users/charles/.local/bin:$PATH"
-	PATH="/Users/charles/Library/Python/3.6/bin:$PATH"
+	PATH="$HOME/.local/bin:$PATH"
+	PATH="$HOME/Library/Python/3.6/bin:$PATH"
 
     ### # some weird new homebrew thing??
     ### # this is where python -> python3 lives now
@@ -39,7 +41,7 @@ fi
 
 # pyenv installer
 # https://github.com/pyenv/pyenv-installer
-export PATH="/Users/charles/.pyenv/bin:$PATH"
+export PATH="$HOME/.pyenv/bin:$PATH"
 eval "$(pyenv init -)"
 #eval "$(pyenv virtualenv-init -)"
 
@@ -57,11 +59,15 @@ HISTIGNORE="ls:cls:clc:clear:pwd:l:ll:[ ]*"
 HISTSIZE=1000000
 HISTTIMEFORMAT=': %Y-%m-%d_%H:%M:%S; '
 
-# Append to the Bash history file, rather than overwriting it
-shopt -s histappend;
 # Save Bash history 
 shopt -s cmdhist;
-
+# Append to the Bash history file, rather than overwriting it
+shopt -s histappend;
+# Write history to .bash_history immediately. 
+# -a writes current/new lines to history file
+# -n reloads only new commands
+# https://askubuntu.com/a/673283
+PROMPT_COMMAND='history -a;history -n'
 
 
 

.bashrc

@@ -1 +1,7 @@
 [ -n "$PS1" ] && source ~/.bash_profile;
+
+# mcfly is a pretty cool command completion program
+# Control + R on the command line, then start typing stuff
+if [[ -f "$(brew --prefix)/opt/mcfly/mcfly.bash" ]]; then
+  source "$(brew --prefix)/opt/mcfly/mcfly.bash"
+fi

.gitconfig

@@ -1,3 +1,10 @@
+######################
+## see bottom for url shorthands,
+## but worth mentioning here:
+#
+## replace any git@github stuff with gh:
+## replace any ssh://git@g.... with cmr:
+
 [user]
     email = charlesreid1@gmail.com
     name = Charles Reid
@@ -30,17 +37,21 @@
     b = branch -v
     bv = branch -v
     ba = branch -a
+    bb = branch -v -a
 
     r = remote -v
     rv = remote -v
+    ra = remote -v
+
+    f = fetch --all
 
     cdiff = diff --cached
 
     # Show the diff between the latest commit and the current state
     d = !"git diff-index --quiet HEAD -- || clear; git --no-pager diff --patch-with-stat"
 
-    # `git di $number` shows the diff between the state `$number` revisions ago and the current state
-    di = !"d() { git diff --patch-with-stat HEAD~$1; }; git diff-index --quiet HEAD -- || clear; d"
+    ### # `git di $number` shows the diff between the state `$number` revisions ago and the current state
+    ### di = !"d() { git diff --patch-with-stat HEAD~$1; }; git diff-index --quiet HEAD -- || clear; d"
 
     # Pull in remote changes for the current repository and all its submodules
     p = !"git pull; git submodule foreach git pull origin master"
@@ -51,7 +62,8 @@
     # Commit all changes
     ca = !git add -A && git commit -av
 
-    # Switch to a branch, creating it if necessary
+    # Switch to a branch, creating it 
+    # from the current branch if necessary
     go = "!f() { git checkout -b \"$1\" 2> /dev/null || git checkout \"$1\"; }; f"
 
     # Show verbose output about tags, branches or remotes
@@ -65,6 +77,11 @@
     # Amend the currently staged files to the latest commit
     amend = commit --amend --reuse-message=HEAD
 
+    # Oops
+    fix = commit --amend --reuse-message=HEAD --edit
+
+
+
     # Credit an author on the latest commit
     credit = "!f() { git commit --amend --author \"$1 <$2>\" -C HEAD; }; f"
 
@@ -74,17 +91,17 @@
     # Remove the old tag with this name and tag the latest commit with it.
     retag = "!r() { git tag -d $1 && git push origin :refs/tags/$1 && git tag $1; }; r"
 
-    # Find branches containing commit
-    fb = "!f() { git branch -a --contains $1; }; f"
+    ### # Find branches containing commit
+    ### fb = "!f() { git branch -a --contains $1; }; f"
 
-    # Find tags containing commit
-    ft = "!f() { git describe --always --contains $1; }; f"
+    ### # Find tags containing commit
+    ### ft = "!f() { git describe --always --contains $1; }; f"
 
-    # Find commits by source code
-    fc = "!f() { git log --pretty=format:'%C(yellow)%h  %Cblue%ad  %Creset%s%Cgreen  [%cn] %Cred%d' --decorate --date=short -S$1; }; f"
+    ### # Find commits by source code
+    ### fc = "!f() { git log --pretty=format:'%C(yellow)%h  %Cblue%ad  %Creset%s%Cgreen  [%cn] %Cred%d' --decorate --date=short -S$1; }; f"
 
-    # Find commits by commit message
-    fm = "!f() { git log --pretty=format:'%C(yellow)%h  %Cblue%ad  %Creset%s%Cgreen  [%cn] %Cred%d' --decorate --date=short --grep=$1; }; f"
+    ### # Find commits by commit message
+    ### fm = "!f() { git log --pretty=format:'%C(yellow)%h  %Cblue%ad  %Creset%s%Cgreen  [%cn] %Cred%d' --decorate --date=short --grep=$1; }; f"
 
     # List contributors with number of commits
     contributors = shortlog --summary --numbered
@@ -96,6 +113,8 @@
 
 [core]
 
+    editor = vim
+
     # Use custom `.gitignore` and `.gitattributes`
     excludesfile = ~/.gitignore
     attributesfile = ~/.gitattributes
@@ -168,6 +187,12 @@
 
 # URL shorthands
 
+
+[url "ssh://git@git.charlesreid1.com:222/"]
+
+    insteadOf = "cmr:"
+
+
 [url "git@github.com:"]
 
     insteadOf = "gh:"

.tmux.conf

@@ -33,6 +33,8 @@ bind-key h select-pane -L
 bind-key j select-pane -D
 bind-key k select-pane -U
 bind-key l select-pane -R
+bind-key C-h select-pane -L
+bind-key C-l select-pane -R
 
 # smart pane switching with awareness of vim splits
 bind -n C-h run "(tmux display-message -p '#{pane_current_command}' | grep -iqE '(^|\/)vim$' && tmux send-keys C-h) || tmux select-pane -L"
@@ -64,18 +66,10 @@ set-window-option -g display-panes-time 1500
 set-option -g status-interval 1
 set-option -g status-left ''
 set-option -g status-right '%l:%M%p'
-set-window-option -g window-status-current-fg magenta
 set-option -g status-fg default
 
 # Status Bar solarized-dark (default)
 set-option -g status-bg black
-set-option -g pane-active-border-fg black
-set-option -g pane-border-fg black
-
-# Status Bar solarized-light
-if-shell "[ \"$COLORFGBG\" = \"11;15\" ]" "set-option -g status-bg white"
-if-shell "[ \"$COLORFGBG\" = \"11;15\" ]" "set-option -g pane-active-border-fg white"
-if-shell "[ \"$COLORFGBG\" = \"11;15\" ]" "set-option -g pane-border-fg white"
 
 # Set window notifications
 setw -g monitor-activity on

.vimrc

@@ -4,49 +4,77 @@
 set nocompatible              " iMproved
 filetype off                  " required
 filetype plugin indent on
-setlocal spell spelllang=en_us
+"setlocal spell spelllang=en_us
 set nofoldenable    " disable folding
 
 
 
-
+" ----------------------------------
+" Extremely Important Fix
+" ----------------------------------
 " Turn off Esc+O key sequences (eliminates one-second delay when pressing O):
 " https://superuser.com/questions/161178/why-does-vim-delay-for-a-second-whenever-i-use-the-o-command-open-a-new-line#161216
 " if this is re-enabled i may stab someone.
 set noesckeys
 set ttimeoutlen=5
 
-" you have to do this a second time
+" now you have to do this a second time
+" (after the above lines)
 set nocompatible
 
 
+" ------------------------
+"  Lazy stuffs
+"  -----------------------
+"  https://spf13.com/post/perfect-vimrc-vim-config-file/
+"
+" make ; work like : to save us from Shift
+" nnoremap --> extra n means normal mode only,
+" nore means no recursive
+nnoremap ; :
+" 
+"""" Remove trailing whitespaces and \^M chars
+"""autocmd FileType c,cpp,java,php,js,python,twig,xml,yml autocmd
+"""BufWritePre <buffer> :call
+"""setline(1,map(getline(1,"$"),'substitute(v:val,"\\\\s\\\\+$","","")'))
 
-" ----------------------------------------
-" fix latex highlighting in markdown
-" ----------------------------------------
 
-function! MathAndLiquid()
-    "" Define certain regions
-    " Block math. Look for "$$[anything]$$"
-    syn region math start=/\$\$/ end=/\$\$/
-    " inline math. Look for "$[not $][anything]$"
-    syn match math_block '\$[^$].\{-}\$'
 
-    " Fenced code blocks, used in GitHub Flavored Markdown (GFM)
-    syn region highlight_block start='```' end='```'
-
-    "" Actually highlight those regions.
-    hi link math Statement
-    hi link math_block Function
-    hi link highlight_block Function
+" -----------------------------------
+" TwiddleCase function
+" -----------------------------------
+" TwiddleCase cycles a visual selection through
+" lower case/UPPER CASE/Capital Case
+"
+" Originallly mapped to ~
+" Switched to Control+P 
+"   b/c it was not doing anything useful
+function! TwiddleCase(str)
+  if a:str ==# toupper(a:str)
+    let result = tolower(a:str)
+  elseif a:str ==# tolower(a:str)
+    let result = substitute(a:str,'\(\<\w\+\>\)', '\u\1', 'g')
+  else
+    let result = toupper(a:str)
+  endif
+  return result
 endfunction
-
-" Call everytime we open a Markdown file
-autocmd BufRead,BufNewFile,BufEnter *.md,*.markdown call MathAndLiquid()
-
+"" Map twiddle to ~ 
+"vnoremap ~ y:call setreg('', TwiddleCase(@"), getregtype(''))<CR>gv""Pgv
+" Map twiddle to C-p
+vnoremap <C-p> y:call setreg('', TwiddleCase(@"), getregtype(''))<CR>gv""Pgv
 
 
 
+" ----------------------------------------
+" insert new line without leaving normal mode
+" by typing, literally, backslash o or O
+" \o   \O
+" (this still sucks.)
+" https://vi.stackexchange.com/a/3877
+" ----------------------------------------
+nnoremap <Leader>o o<Esc>
+nnoremap <Leader>O O<Esc>
 
 
 
@@ -78,21 +106,12 @@ if has("autocmd")
     \   exe "normal g`\"" |
     \ endif
 endif " has("autocmd")
-" in Python, don't move comment hashtag to first column.
-" smartindent unnecessary for python anyway.
-" http://stackoverflow.com/questions/2063175/vim-insert-mode-comments-go-to-start-of-line
-au! FileType python setl nosmartindent
 " allow visual mode to go to blank space at end of lines
 set virtualedit=block
 " put horz./vert. splits in the right place
 set splitbelow
 set splitright
 
-" ------------------------
-"    End Vim Annoyances
-" -----------------------
-
-
 
 
 " ------------------------
@@ -101,6 +120,7 @@ set splitright
 
 " this turns on syntax highlighting
 syntax on
+"set synmaxcol=200 " don't syntax highlight past this many chars
 set ic
 " this highlights search items
 set hls
@@ -120,34 +140,81 @@ set backspace=indent,eol,start
 " murder that cursed blinking cursor
 let &guicursor = &guicursor . ",a:blinkon0"
 
-" ------------------------
-"   End For Sanity
-" -----------------------
-
+
+" --------------------------
+" Pathogen
+" --------------------------
+"
+"  to install vim pathogen plugin:
+"  mkdir -p ~/.vim/autoload ~/.vim/bundle && \
+"  curl -LSso ~/.vim/autoload/pathogen.vim https://tpo.pe/pathogen.vim
+"
+"  now you need to "infect" yourself
+"  (questionable word choices...)
+execute pathogen#infect()
 
 
 
+" --------------------------
+" Go settings
+" --------------------------
+"
+" https://github.com/paulswanson/congo/blob/master/congo.sh
+"
+filetype indent plugin on
+"set number
+"set mouse=a
+"
+" to install vim-go plugin:
+" git clone https://github.com/fatih/vim-go.git ~/.vim/bundle/vim-go
+"
+let g:go_highlight_functions = 1
+let g:go_highlight_methods = 1
+let g:go_highlight_structs = 1
+let g:go_fmt_command = "goimports"
 
 
 " ------------------------
 "   Filetype Settings
 " -----------------------
 
+" python
+" ------------------------
+" don't move comment hashtag to the first column.
+" smartindent is unnecessary for python anyway.
+" http://stackoverflow.com/questions/2063175/vim-insert-mode-comments-go-to-start-of-line
+au! FileType python setl nosmartindent
+
+" golang
+" see https://github.com/paulswanson/congo/blob/master/congo.sh
+" ------------------------
+au BufRead,BufNewFile *.go set noexpandtab
+
 " Makefiles
+" ------------------------
 au BufRead,BufNewFile Makefile*,*.make,*.mk set noexpandtab
+
 " C++
+" ------------------------
 au BufRead,BufNewFile *.cpp,*.cxx,*.cc,*.c,*.h,*.hpp,*.hxx,*.hh set tabstop=4 shiftwidth=4 softtabstop=4 nowrap
+
 " Snakemake files: Snakefile, .rule, .snake, .settings, .smk
-au BufNewFile,BufRead Snakefile set syntax=snakemake
-au BufNewFile,BufRead *rule set syntax=snakemake
-au BufNewFile,BufRead *.snake set syntax=snakemake
-au BufNewFile,BufRead *.settings set syntax=snakemake
-au BufNewFile,BufRead *.smk set syntax=snakemake
+" ------------------------
+au BufNewFile,BufRead set syntax=snakemake
+au BufNewFile,BufRead Snakefile*,*.rule,*.snake,*.smk set syntax=snakemake
+
 " Yaml
-autocmd FileType yaml setlocal ts=2 sts=2 sw=2 expandtab
-
-
-
+" ------------------------
+autocmd FileType yaml setlocal ts=2 sts=2 sw=2 expandtab 
+" don't autoindent yaml files
+filetype plugin indent on
+au filetype yaml call DisableIndentY()
+function! DisableIndentY()
+        set autoindent&
+        set cindent&
+        set smartindent&
+        set indentexpr&
+endfunction
 
 
 
@@ -165,18 +232,17 @@ set nowrap
 set tabstop=4 shiftwidth=4 expandtab
 set nosmartindent   " die die die
 
-" color scheme stuff
-"colorscheme desert
-"colorscheme solarized
-"
-"
+" set the text width at
 " 80 or 88, whatever
-set textwidth=80
-"
-" if you're curious about the reasoning behind B950, 
-" Bugbear's documentation explains it. The tl;dr is 
-" "it's like highway speed limits, we won't bother 
-" you if you overdo it by a few km/h".
+"set textwidth=80
+" IMPORTANT - 
+" above directive will auto-wrap
+" your text as you type it, and may
+" end up driving you mad.
+
+" > Bugbear's documentation explains 88 vs 80:
+" > "it's like highway speed limits, we won't bother 
+" > you if you overdo it by a few km/h".
 "
 " Turn character 80/88 red
 " (for visibility conforming to
@@ -186,16 +252,6 @@ hi Bang ctermfg=red guifg=red
 "match Bang /\%>87v.*\%<89v/
 match Bang /\%>79v.*\%<81v/
 
-" ------------------------
-"     End Lines & Tabs
-" ------------------------
-
-
-
-
-
-
-
 
 
 " ---------------------------
@@ -211,14 +267,6 @@ abbreviate slef self
 abbreviate paramters parameters
 abbreviate exmaple example
 
-" ------------------------
-"   End Lines & Tabs
-" -----------------------
-
-
-
-
-
 
 
 " ------------------------
@@ -234,11 +282,6 @@ endif
 " Running command :CD will change to current file's directory
 com! CD cd %:p:h
 
-" ------------------------
-"   End Tab Wild Mode
-" -----------------------
-
-
 
 
 " ------------------------
@@ -266,15 +309,6 @@ if has("user_commands")
     command! -bang Qa qa<bang>
 endif
 
-" ------------------------
-"    End Fat Fingers
-" -----------------------
-
-
-
-
-
-
 
 
 " ------------------------
@@ -291,11 +325,25 @@ function! DisableIndent()
         set indentexpr&
 endfunction
 
-" ------------------------
-"       End Markdown
-" -----------------------
+" fix latex highlighting in markdown
+function! MathAndLiquid()
+    "" Define certain regions
+    " Block math. Look for "$$[anything]$$"
+    syn region math start=/\$\$/ end=/\$\$/
+    " inline math. Look for "$[not $][anything]$"
+    syn match math_block '\$[^$].\{-}\$'
 
+    " Fenced code blocks, used in GitHub Flavored Markdown (GFM)
+    syn region highlight_block start='```' end='```'
 
+    "" Actually highlight those regions.
+    hi link math Statement
+    hi link math_block Function
+    hi link highlight_block Function
+endfunction
+
+" Call everytime we open a Markdown file
+autocmd BufRead,BufNewFile,BufEnter *.md,*.markdown call MathAndLiquid()
 
 
 
@@ -309,13 +357,6 @@ if has("persistent_undo")
     set undofile
 endif
 
-" ------------------------
-"       End Reddit
-" -----------------------
-
-
-
-
 
 
 " ------------------------
@@ -354,14 +395,6 @@ endif
 " Don't copy the contents of an overwritten selection.
 vnoremap p "_dP
 
-" -----------------------------
-"  End Github Maximum Awesome
-" -----------------------------
-"
-
-
-
-
 
 
 " ====================
@@ -369,11 +402,6 @@ vnoremap p "_dP
 " ====================
 " " (woah.)
 
-" Use the Solarized Dark theme
-set background=dark
-colorscheme solarized
-let g:solarized_termtrans=1
-
 " Enhance command-line completion
 set wildmenu
 " Allow backspace in insert mode
@@ -386,8 +414,7 @@ set ttyfast
 """"""""""""""""""""""""
 " Don’t add empty newlines at the end of files
 set noeol
-" Centralize backups, swapfiles and undo history
-set backupdir=~/.vim/backups
+" Set swap file dir
 set directory=~/.vim/swap
 if exists("&undodir")
 	set undodir=~/.vim/undo
@@ -402,8 +429,8 @@ set modelines=4
 """set secure
 " Enable line numbers
 set number
-" Enable syntax highlighting
-syntax on
+"""""""""""""" Enable syntax highlighting
+"""""""""""""syntax on
 " Highlight current line
 set cursorline
 " Highlight searches
@@ -459,5 +486,68 @@ if has("autocmd")
 endif
 " Mark special characters
 "set listchars=nbsp:☠,tab:▸␣
-set listchars=tab:▸␣
+"set listchars=tab:▸␣
 "set list
+
+
+
+" ----------------------------
+" colorrrzzzzz
+" ----------------------------
+
+set background=dark
+
+set t_Co=256
+
+function! BgToggle()
+  if &background == "light"
+    execute ":set background=dark"
+  else
+    execute ":set background=light"
+  endif
+endfunction
+nnoremap <F5> :call BgToggle()<cr>
+
+" to install vim-colors-solarized plugin:
+" git clone git://github.com/altercation/vim-colors-solarized.git ~/.vim/bundle/vim-colors-solarized
+"
+let g:solarized_termcolors=256
+
+"" If the following line is commented out,
+"" F5/background toggle will change from
+"" dark to light. If the line is enabled,
+"" the background color will remain the same
+"" dark default terminal backgorund color.
+"let g:solarized_termtrans = 1
+"
+let g:solarized_degrade = 0
+let g:solarized_bold = 1
+let g:solarized_underline = 1
+let g:solarized_italic = 1
+let g:solarized_contrast = "normal"
+let g:solarized_visibility= "normal"
+
+" install solarized by getting the 
+" solarized color scheme in vim format
+" (solarized.vim) from here:
+"
+" https://raw.githubusercontent.com/altercation/vim-colors-solarized/master/colors/solarized.vim
+"
+" put it in ~/.vim/colors/solarized.vim
+colorscheme solarized
+
+" ------------------------
+" Move Faster
+" ------------------------
+"
+" default shift + j (combines lines)
+" moves to shift + L
+nnoremap <S-L> :join<CR>
+
+" shift + j and shift + k
+" move up and down n lines
+map <S-j> 7j
+map <S-k> 7k
+
+" these have to go at the end
+

README.md

@@ -2,3 +2,8 @@
 
 Repository containing dotfiles appropriate for use on Mac laptops.
 
+Step 1: Run pre bootstrap script
+
+Step 2: Run vim setup script (TODO: add pathogen installation)
+
+Step 3: Run bootstrap script

bootstrap.sh

@@ -15,6 +15,7 @@ function doIt() {
 		--exclude "python_install.sh" \
 		--exclude "python_setup.sh" \
 		--exclude "set_machine_name.sh" \
+		--exclude "vim_setup.sh" \
 		--exclude "README.md" \
 		--exclude "LICENSE" \
 		-avh --no-perms . ~;

brew_install.sh

@@ -2,6 +2,9 @@
 #
 # Homebrew setup/install
 
+sudo chown -R $(whoami) /usr/local/var/homebrew
+sudo chmod -R g+rwx /usr/local
+
 brew update
 
 # Install command-line tools using Homebrew.
@@ -23,7 +26,7 @@ brew install moreutils
 brew install findutils
 
 # Install GNU `sed`, overwriting the built-in `sed`.
-brew install gnu-sed --with-default-names
+brew install gnu-sed
 
 # Install Bash 4.
 # Note: don’t forget to add `/usr/local/bin/bash` to `/etc/shells` before
@@ -37,18 +40,27 @@ if ! fgrep -q '/usr/local/bin/bash' /etc/shells; then
   chsh -s /usr/local/bin/bash;
 fi;
 
-# Install `wget` with IRI support.
-brew install wget --with-iri
+# Install wget
+brew install wget
 
 # Install GnuPG to enable PGP-signing commits.
 brew install gnupg
 
+# Install joplin for note-taking
+brew cask install joplin
+
+# Install aws cli
+brew install awscli
+
 # Install more recent versions of some macOS tools.
-brew install vim --with-override-system-vi
+brew install vim
 brew install grep
 brew install openssh
 brew install screen
-brew install homebrew/php/php56 --with-gmp
+brew install tmux
+
+# Install openjdk
+brew cask install adoptopenjdk
 
 # Install font tools.
 brew tap bramstein/webfonttools
@@ -87,7 +99,7 @@ brew install sqlmap
 # Install other useful binaries.
 brew install ack
 brew install git
-brew install imagemagick --with-webp
+brew install imagemagick
 brew install speedtest_cli
 brew install tree
 

greenfield_codes.sh

@@ -1,20 +0,0 @@
-#!/bin/bash
-#
-# Prepare a codes directory,
-# or, whatever you want to call it
-
-NAME="codes"
-DIR="${HOME}/${NAME}"
-
-# Make it
-mkdir -p ${DIR}
-cd ${DIR}
-
-git clone --recursive https://charlesreid1.com:3000/charlesreid1/bot-master.git bots
-git clone --recursive https://charlesreid1.com:3000/charlesreid1/charlesreid1-master.git charlesreid1
-git clone --recursive https://charlesreid1.com:3000/cs/cs-master.git cs
-git clone --recursive https://charlesreid1.com:3000/dotfiles/dotfiles-master.git dotfiles
-git clone --recursive https://charlesreid1.com:3000/kali/kali-master.git kali
-git clone --recursive https://charlesreid1.com:3000/charlesreid1/pelican-master.git pelican
-git clone --recursive https://charlesreid1.com:3000/rpi/pi-master.git rpi
-

mac_settings.sh

@@ -599,53 +599,6 @@ defaults write com.apple.Safari InstallExtensionUpdatesAutomatically -bool true
 # Only use UTF-8 in Terminal.app
 defaults write com.apple.terminal StringEncodings -array 4
 
-# Use a modified version of the Solarized Dark theme by default in Terminal.app
-osascript <<EOD
-
-tell application "Terminal"
-
-	local allOpenedWindows
-	local initialOpenedWindows
-	local windowID
-	set themeName to "Solarized Dark xterm-256color"
-
-	(* Store the IDs of all the open terminal windows. *)
-	set initialOpenedWindows to id of every window
-
-	(* Open the custom theme so that it gets added to the list
-	   of available terminal themes (note: this will open two
-	   additional terminal windows). *)
-	do shell script "open '$HOME/init/" & themeName & ".terminal'"
-
-	(* Wait a little bit to ensure that the custom theme is added. *)
-	delay 1
-
-	(* Set the custom theme as the default terminal theme. *)
-	set default settings to settings set themeName
-
-	(* Get the IDs of all the currently opened terminal windows. *)
-	set allOpenedWindows to id of every window
-
-	repeat with windowID in allOpenedWindows
-
-		(* Close the additional windows that were opened in order
-		   to add the custom theme to the list of terminal themes. *)
-		if initialOpenedWindows does not contain windowID then
-			close (every window whose id is windowID)
-
-		(* Change the theme for the initial opened terminal windows
-		   to remove the need to close them in order for the custom
-		   theme to be applied. *)
-		else
-			set current settings of tabs of (every window whose id is windowID) to settings set themeName
-		end if
-
-	end repeat
-
-end tell
-
-EOD
-
 # Enable “focus follows mouse” for Terminal.app and all X11 apps
 # i.e. hover over a window and start typing in it without clicking first
 #defaults write com.apple.terminal FocusFollowsMouse -bool true
@@ -658,9 +611,6 @@ defaults write com.apple.terminal SecureKeyboardEntry -bool true
 # Disable the annoying line marks
 defaults write com.apple.Terminal ShowLineMarks -int 0
 
-# Install the Solarized Dark theme for iTerm
-open "${HOME}/init/Solarized Dark.itermcolors"
-
 # Don’t display the annoying prompt when quitting iTerm
 defaults write com.googlecode.iterm2 PromptOnQuit -bool false
 

pre_bootstrap.sh

@@ -1,11 +1,41 @@
 #!/bin/sh
 
-# Actually make the swap directory vim is going to use
-mkdir -p ~/.vim/swap
-mkdir -p ~/.vim/undo
+echo "About to generate SSH keys"
+sleep 2
+if [ -f "$HOME/.ssh/id_rsa" ]; then
+    echo "Keys already exist"
+else
+    yes | ssh-keygen -f $HOME/.ssh/id_rsa -t rsa -N ''
+    chmod 700 $HOME/.ssh
+    touch $HOME/.ssh/authorized_keys
+    chmod 600 $HOME/.ssh/authorized_keys
+    echo "Done generating keys"
+fi
 
-# Change shell to homebrew bash
-BASH="/usr/local/bin/bash"
-echo "About to set shell to ${BASH}"
+echo "About to set up vim."
+sleep 2
+./vim_setup.sh
+
+echo "About to change Mac settings"
+sleep 2
+./mac_settings.sh
+
+echo "About to install and set up python"
+sleep 2
+./python_install.sh
+./python_setup.sh
+
+echo "About to run brew installation script"
+sleep 2
+./brew_install.sh
+
+echo "About to set shell to bash"
+if [ -f "/usr/local/bin/bash" ]; then
+    BASH="/usr/local/bin/bash"
+else
+    BASH="/bin/bash"
+fi
+echo "Found ${BASH}"
+sleep 2
 chsh -s ${BASH}
 

python_setup.sh

@@ -2,3 +2,5 @@
 
 brew install python2 python3
 
+curl https://pyenv.run | bash
+

set_machine_name.sh

@@ -6,16 +6,25 @@
 #
 # It will prompt you for the hostname you want to set.
 
+if [ "$(id -u)" != "0" ]; then
+    echo ""
+    echo ""
+    echo "This script should be run as root!"
+    echo ""
+    echo ""
+    exit 1;
+fi
+
 # darwin
 echo "The current hostname is ${HOSTNAME}"
 echo "Type the new hostname you want for your machine, then press [ENTER]:"
 read newhostname
 
-sudo scutil --set ComputerName    "${newhostname}"
-sudo scutil --set HostName        "${newhostname}"
-sudo scutil --set LocalHostName	  "${newhostname}"
+scutil --set ComputerName    "${newhostname}"
+scutil --set HostName        "${newhostname}"
+scutil --set LocalHostName	  "${newhostname}"
 
-sudo echo "127.0.0.1 ${newhostname}" >> /etc/hosts
+echo "127.0.0.1 ${newhostname}" >> /etc/hosts
 
 echo "The new hostname is ${newhostname}"
 echo "Try logging out and back in."

vim_setup.sh

@@ -0,0 +1,21 @@
+#!/bin/bash
+
+echo "Making vim undo and swap dirs"
+mkdir -p ~/.vim/swap \
+         ~/.vim/undo
+
+echo "Installing solarized color scheme ..."
+mkdir -p ~/.vim/colors \
+    && cp .vim/colors/* ~/.vim/colors/.
+
+echo "Installing vim-pathogen ..."
+mkdir -p \
+    ~/.vim/autoload \
+    ~/.vim/bundle \
+    && curl -LSso \
+    ~/.vim/autoload/pathogen.vim \
+    https://tpo.pe/pathogen.vim
+
+echo "Installing vim-go ..."
+git clone https://github.com/fatih/vim-go.git ~/.vim/bundle/vim-go || echo "Existing vim-go folder already found, skipping this step ..."
+