.chezmoiexternal.toml

@@ -1,6 +1,7 @@
-["antigen.zsh"]
+[".local/bin/n"]
     type = "file"
-    url = "https://git.io/antigen"
+    url = "https://raw.githubusercontent.com/tj/n/master/bin/n"
+    executable = true
     refreshPeriod = "168h"
 
 [".local/share/fonts/meslolgs-nf-regular.ttf"]

dot_aliases

@@ -1,16 +1,22 @@
+# Only create aliases if the underlying programs are available
+# This allows portability between machines in different states
+alias_if_exists () {
+  ALIAS=${1}
+  COMMAND=${2}
+  ARGS=${3}
+  if [ $(command -v $COMMAND) ]; then
+    if [ -n "$ARGS" ]; then
+      alias $ALIAS="$COMMAND $ARGS"
+    else
+      alias $ALIAS="$COMMAND"
+    fi
+  fi
+}
+
 # Context-sensitive aliases
-{{- if lookPath "batcat" }}
-alias bat=batcat
-{{- end }}
-{{- if or (lookPath "bat") (lookPath "batcat") }}
-alias cat=bat
-{{- end }}
-{{- if lookPath "lsd" }}
-alias ls=lsd
-{{- end }}
-{{- if and (lookPath "codium") (not (lookPath "code")) }}
-alias code=codium
-{{- end }}
+alias_if_exists bat batcat
+alias_if_exists cat bat
+alias_if_exists ls lsd
 
 # Universal aliases
 alias config='git --git-dir=$HOME/.cfg/ --work-tree=$HOME'
@@ -18,7 +24,6 @@ alias please='sudo $(fc -ln -1)'
 alias nrun='__NV_PRIME_RENDER_OFFLOAD=1 __GLX_VENDOR_LIBRARY_NAME=nvidia __VK_LAYER_NV_optimus="NVIDIA_only"'
 alias grim='git rebase -i --autosquash $(git_main_branch)'
 alias grid='git rebase -i --autosquash $(git_develop_branch)'
-alias gpub='git push --set-upstream origin $(git rev-parse --abbrev-ref HEAD)'
 
 # Alias-like functions
 nd () {

dot_condarc

@@ -1,2 +1,2 @@
 auto_activate_base: false
-changeps1: true
+changeps1: false

dot_envvar.tmpl

@@ -1,38 +1,45 @@
-{{- if lookPath "pipx" }}
 # Enable pipx completions
+if [ $(command -v pipx) ]; then
   eval "$(register-python-argcomplete pipx)"
-{{- end }}
+fi
 
-{{- if lookPath "nvim" }}
 # Preferred editor for local and remote sessions
+if [ $(command -v nvim) ]; then
   export EDITOR=nvim
-{{- end }}
+elif [ $(command -v nano) ]; then
+  export EDITOR=nano
+elif [ $(command -v vim) ]; then
+  export EDITOR=vim
+elif [ $(command -v emacs) ]; then
+  export EDITOR='emacs -nw'
+fi
 
-{{- if lookPath "kate" }}
+if [ $(command -v kate) ]; then
   export VISUAL=kate
-{{- else if lookPath "codium" }}
-export VISUAL=codium
-{{- else if lookPath "code" }}
+elif [ $(command -v code) ]; then
   export VISUAL=code
-{{- end }}
+elif [ $(command -v emacs) ]; then
+  export VISUAL=emacs
+fi
 
-{{- if lookPath "most" }}
 # Set a cool new pager with color support
+if [ $(command -v most) ]; then
   export PAGER=most
-{{- end }}
+fi
+
 
-{{- if or (lookPath "bat") (lookPath "catbat") }}
 # Replace cat with bat
+if [ $(command -v bat) ]; then
   export BAT_PAGER="less -SRF"
   export MANPAGER="sh -c 'col -bx | bat -l man -p'"
   export MANROFFOPT="-c"
-{{- end }}
+fi
 
 # Add notification support for long-running processes
-{{- if lookPath "ntfy" }}
+if [ $(command -v ntfy) ]; then
   eval "$(ntfy shell-integration --longer-than 30)"
   export AUTO_NTFY_DONE_IGNORE="vim nano emacs kate zshconfig screen tmux ssh top htop less more most nethogs 'singularity shell' julia man glances"
-{{- end }}
+fi
 
 # Set the Nextflow enviroment caches
 export NXF_HOME="$HOME/.nextflow"

dot_hooks.tmpl

@@ -1,36 +1,19 @@
-# >>> conda initialize >>>
-# !! Contents within this block are managed by 'conda init' !!
-__conda_setup="$($HOME/miniconda3/bin/conda shell.$(basename $0) 'hook' 2> /dev/null)"
-if [ $? -eq 0 ]; then
-    eval "$__conda_setup"
-else
-    if [ -f "$HOME/miniconda3/etc/profile.d/conda.sh" ]; then
-        . "$HOME/miniconda3/etc/profile.d/conda.sh"
-    else
-        export PATH="$HOME/miniconda3/bin:$PATH"
+if [ -f $HOME/.rbenv/bin/rbenv ]; then
+  export PATH="$HOME/.rbenv/bin:$PATH"
+  eval "$(rbenv init -)"
+  export PATH="$HOME/.rbenv/plugins/ruby-build/bin:$PATH"
 fi
-fi
-unset __conda_setup
 
-if [ -f "$HOME/miniconda3/etc/profile.d/mamba.sh" ]; then
-  . "$HOME/miniconda3/etc/profile.d/mamba.sh"
+if [ $(command -v n) ]; then
+  export N_PREFIX=$HOME/.n
+  export PATH="$HOME/.n/bin:$PATH"
 fi
-# <<< conda initialize <<<
-
-{{- if lookPath "direnv" }}
-eval "$(direnv hook $(basename $0))"
-{{- end }}
 
 if [ -f $HOME/.ion/bin/ion ]; then
   export PATH="$HOME/.ion/bin/ion:$PATH"
   export FPATH="$HOME/.ion/completions:$FPATH"
 fi
 
-# Import GNU parallel
-if [ $(command -v env_parallel.$(basename $0)) ]; then
-  source $(which env_parallel.$(basename $0))
-fi
-
 {{- if eq .machinetype "workstation" }}
 export GPG_TTY="$(tty)"
 export SSH_AUTH_SOCK=$(gpgconf --list-dirs agent-ssh-socket)

dot_profile

@@ -3,8 +3,22 @@
 export PATH="$HOME/.local/bin:$HOME/bin:$PATH"
 
 # juliaup setup
+if [ -d $HOME/.julia/juliaup/bin ]; then
   export PATH="$HOME/.julia/juliaup/bin:$PATH"
-export PATH="$HOME/.juliaup/bin:$PATH"
+fi
+
+# >>> juliaup initialize >>>
+
+# !! Contents within this block are managed by juliaup !!
+
+case ":$PATH:" in
+  *:/home/millironx/.juliaup/bin:*)
+    ;;
+  *)
+    export PATH=/home/millironx/.juliaup/bin${PATH:+:${PATH}}
+    ;;
+esac
+# <<< juliaup initialize <<<
 
 # Linuxbrew setup
 if [ -d $HOME/../linuxbrew/.linuxbrew ]; then
@@ -18,7 +32,3 @@ if [ -n "$BREWPATH" ]; then
   export HOMEBREW_MAKE_JOBS=1
   export HOMEBREW_NO_ANALYTICS=1
 fi
-
-if [ -e "$HOME/.nix-profile/etc/profile.d/nix.sh" ]; then
-  . "$HOME/.nix-profile/etc/profile.d/nix.sh"
-fi

dot_tmux.conf.tmpl

@@ -1,6 +1,6 @@
 set -g default-terminal "tmux-256color"
-{{ if (eq .chezmoi.osRelease.id "debian") }}
+{{- if (eq .chezmoi.osRelease.id "debian") }}
 source "/usr/share/powerline/bindings/tmux/powerline.conf"
-{{ else }}
+{{- else -}}
 source "/usr/share/tmux/powerline.conf"
-{{ end }}
+{{- end }}

executable_dot_bashrc.tmpl

@@ -11,7 +11,33 @@ source $HOME/.hooks
 # User specific aliases and functions
 source $HOME/.aliases
 
+# >>> conda initialize >>>
+# !! Contents within this block are managed by 'conda init' !!
+__conda_setup="$('$HOME/miniconda3/bin/conda' 'shell.bash' 'hook' 2> /dev/null)"
+if [ $? -eq 0 ]; then
+    eval "$__conda_setup"
+else
+    if [ -f "$HOME/miniconda3/etc/profile.d/conda.sh" ]; then
+        . "$HOME/miniconda3/etc/profile.d/conda.sh"
+    else
+        export PATH="$HOME/miniconda3/bin:$PATH"
+    fi
+fi
+unset __conda_setup
+conda config --set changeps1 true
+# <<< conda initialize <<<
+
+# >>> direnv initalize >>>
+if [ $(command -v direnv) ]; then
+  eval "$(direnv hook bash)"
+fi
+# <<< direnv initalize <<<
+
 source $HOME/.envvar
 
+if [ $(command -v env_parallel.bash) ]; then
+  source $(which env_parallel.bash)
+fi
+
 # Make the prompt pretty, just in case we're stuck in bash land
 export PS1="[\[\e[32m\]\u\[\e[m\]@\[\e[33m\]\h\[\e[m\] \[\e[34m\]\W\[\e[m\]] \\$ "

executable_dot_zshrc.tmpl

@@ -18,6 +18,9 @@ then
 fi
 
 # Load the antigen library
+if [[ ! -f "$HOME/antigen.zsh" ]]; then
+  curl -L git.io/antigen > $HOME/antigen.zsh
+fi
 source "$HOME/antigen.zsh"
 
 # Load the oh-my-zsh library
@@ -51,6 +54,27 @@ COMPLETION_WAITING_DOTS="true"
 
 source $HOME/.hooks
 
+# >>> conda initialize >>>
+# !! Contents within this block are managed by 'conda init' !!
+__conda_setup="$('$HOME/miniconda3/bin/conda' 'shell.zsh' 'hook' 2> /dev/null)"
+if [ $? -eq 0 ]; then
+    eval "$__conda_setup"
+else
+    if [ -f "$HOME/miniconda3/etc/profile.d/conda.sh" ]; then
+        . "$HOME/miniconda3/etc/profile.d/conda.sh"
+    else
+        export PATH="$HOME/miniconda3/bin:$PATH"
+    fi
+fi
+unset __conda_setup
+# <<< conda initialize <<<
+
+# >>> direnv initalize >>>
+if [ $(command -v direnv) ]; then
+  eval "$(direnv hook zsh)"
+fi
+# <<< direnv initalize <<<
+
 # Tell Antigen that you're done
 antigen apply
 
@@ -65,6 +89,11 @@ source $HOME/.envvar
 alias zshconfig="$EDITOR ~/.zshrc"
 source $HOME/.aliases
 
+# Import GNU parallel
+if [ $(command -v env_parallel.zsh) ]; then
+  source $(which env_parallel.zsh)
+fi
+
 {{ if or
   (eq .machinetype "workstation")
   (eq .chezmoi.osRelease.id "fedora")

private_dot_gnupg/private_gpg-agent.conf

@@ -1,4 +1,2 @@
-enable-ssh-support
-ttyname $GPG_TTY
-default-cache-ttl 60
-max-cache-ttl 120
+default-cache-ttl 10000
+max-cache-ttl 86400

private_dot_ssh/config.tmpl

@@ -1,6 +1,6 @@
 Host *
 	IdentitiesOnly yes
-	IdentityFile {{ if and (eq .machinetype "workstation") (ne .chezmoi.os "windows") }}~/.ssh/id_rsa_yubikey.pub{{ else }}~/.ssh/id_ed25519{{ end }}
+	IdentityFile {{ if and (eq .machinetype "workstation") (ne .chezmoi.os "windows") }}~/.ssh/id_rsa_yubikey.pub{{ else }}~/.ssh/id_ed25519.pub{{ end }}
 
 Host aahz
 	HostName 129.130.108.37

run_once_install_mamba.sh.tmpl

@@ -1,12 +0,0 @@
-#!/bin/bash
-{{ if eq .chezmoi.os "linux" }}
-{{ $mambaURL := print "https://github.com/conda-forge/miniforge/releases/latest/download/Mambaforge-pypy3-Linux-x86_64.sh" }}
-{{ if lookPath "wget" }}
-wget -qO- "{{ $mambaURL }}" > mamba.sh
-{{ else }}
-curl -L "{{ $mambaURL }}" > mamba.sh
-{{ end }}
-chmod +x mamba.sh
-./mamba.sh -b -u -p $HOME/miniconda3
-rm mamba.sh
-{{ end }}