dotfile.bash

alias list='ls -lhp'
alias vsc='open -a /Applications/Visual\ Studio\ Code.app/'
alias msu='ssh hpcc.msu.edu'
alias cab='ssh cabernet.genomecenter.ucdavis.edu'
alias rum='ssh rum.genomecenter.ucdavis.edu'
alias gremlin='ssh gremlin2.soic.indiana.edu'
export CLICOLOR=1
export HISTSIZE=1000000
export HISTFILESIZE=1000000
export EDITOR=nano

vcf2bed()
{
    local delta=${1:-5}
    awk -v OFS='\t' "{ print \$1, \$2-$delta, \$2+$delta }"
}

function exitstatus {
    # Stolen shamelessly from https://stackoverflow.com/a/3189735/459780

    EXITSTATUS="$?"
    BOLD="\[\033[1m\]"
    RED="\[\033[0;31m\]"
    GREEN="\[\e[0;32m\]"
    BLUE="\[\e[34m\]"
    GREY="\[\e[90m\]"
    LIGHTGREY="\[\e[37m\]"
    PURPLEBACK="\[\e[46m\]"
    OFF="\[\033[m\]"

    PROMPT="\n${GREY}${PURPLEBACK}$(date +%Y-%m-%dT%H:%M:%S%z)${OFF} ${BLUE}[\u@lappy:\w]"

    CONDA=""
    if [[ ! -z "${CONDA_DEFAULT_ENV}" ]]; then
        CONDA="($CONDA_DEFAULT_ENV) "
    fi

    if [ "${EXITSTATUS}" -eq 0 ]; then
        PS1="${PROMPT} ${BOLD}${GREEN}[${EXITSTATUS}]\n${LIGHTGREY}${CONDA}${OFF}[${BLUE}\#${OFF}] $ "
    else
        PS1="${PROMPT} ${BOLD}${RED}[${EXITSTATUS}]\n${LIGHTGREY}${CONDA}${OFF}[${BLUE}\#${OFF}] $ "
    fi

    PS2="${BOLD}>${OFF} "
}

PROMPT_COMMAND=exitstatus

# added by Anaconda3 5.0.1 installer
export PATH="/Users/standage/anaconda3/bin:$PATH"