.bash_profile

# If not running interactively, don't do anything
[ -z "$PS1" ] && return

# don't put duplicate lines in the history. See bash(1) for more options
# ... or force ignoredups and ignorespace
HISTCONTROL=ignoredups:ignorespace

# append to the history file, don't overwrite it
shopt -s histappend

# for setting history length see HISTSIZE and HISTFILESIZE in bash(1)
HISTSIZE=1000
HISTFILESIZE=2000

# check the window size after each command and, if necessary,
# update the values of LINES and COLUMNS.
shopt -s checkwinsize

# make less more friendly for non-text input files, see lesspipe(1)
[ -x /usr/bin/lesspipe ] && eval "$(SHELL=/bin/sh lesspipe)"

# set variable identifying the chroot you work in (used in the prompt below)
if [ -z "$debian_chroot" ] && [ -r /etc/debian_chroot ]; then
    debian_chroot=$(cat /etc/debian_chroot)
fi

# set a fancy prompt (non-color, unless we know we "want" color)
case "$TERM" in
    xterm-color) color_prompt=yes;;
esac

# uncomment for a colored prompt, if the terminal has the capability; turned
# off by default to not distract the user: the focus in a terminal window
# should be on the output of commands, not on the prompt
force_color_prompt=yes

if [ -n "$force_color_prompt" ]; then
    if [ -x /usr/bin/tput ] && tput setaf 1 >&/dev/null; then
        # We have color support; assume it's compliant with Ecma-48
        # (ISO/IEC-6429). (Lack of such support is extremely rare, and such
        # a case would tend to support setf rather than setaf.)
        color_prompt=yes
    else
        color_prompt=
    fi
fi

if [ "$color_prompt" = yes ]; then
    PS1='${debian_chroot:+($debian_chroot)}\[\033[01;32m\]\u@\h\[\033[00m\]:\[\033[01;34m\]\w\[\033[00m\]\$ '
else
    PS1='${debian_chroot:+($debian_chroot)}\u@\h:\w\$ '
fi
unset color_prompt force_color_prompt

# If this is an xterm set the title to user@host:dir
case "$TERM" in
    xterm*|rxvt*)
        PS1="\[\e]0;${debian_chroot:+($debian_chroot)}\u@\h: \w\a\]$PS1"
        ;;
    *)
        ;;
esac

# enable color support of ls and also add handy aliases
if [ -x /usr/bin/dircolors ]; then
    test -r ~/.dircolors && eval "$(dircolors -b ~/.dircolors)" || eval "$(dircolors -b)"
    alias ls='ls --color=auto'
    alias dir='dir --color=auto'
    alias vdir='vdir --color=auto'
    alias grep='grep --color=auto'
    alias fgrep='fgrep --color=auto'
    alias egrep='egrep --color=auto'
fi

# some more ls aliases
alias ll='ls -lh'
alias la='ls -A'

# Add an "alert" alias for long running commands.  Use like so:
#   sleep 10; alert
alias alert='notify-send --urgency=low -i "$([ $? = 0 ] && echo terminal || echo error)" "$(history|tail -n1|sed -e '\''s/^\s*[0-9]\+\s*//;s/[;&|]\s*alert$//'\'')"'

# Alias definitions.
# You may want to put all your additions into a separate file like
# ~/.bash_aliases, instead of adding them here directly.
# See /usr/share/doc/bash-doc/examples in the bash-doc package.

if [ -f ~/.bash_aliases ]; then
    . ~/.bash_aliases
fi

# enable programmable completion features (you don't need to enable
# this, if it's already enabled in /etc/bash.bashrc and /etc/profile
# sources /etc/bash.bashrc).
if [ -f /etc/bash_completion ] && ! shopt -oq posix; then
    . /etc/bash_completion
fi


# These are my personal changes
##############################################################################

# Make the prompt pretty and show git branch information
source ~/.bash/prompt_config.sh

# Set PATH variables
export PATH=$HOME/src/tesseroids/bin:$PATH
export PATH=$HOME/pkg/bin:$PATH
export LD_LIBRARY_PATH=$HOME/pkg/lib:$LD_LIBRARY_PATH

# Anaconda configuration
export CONDA_PREFIX=$HOME/miniconda3
export LD_LIBRARY_PATH=$HOME/miniconda3/lib:$LD_LIBRARY_PATH
alias condaon='export PATH=$CONDA_PREFIX/bin:$PATH'
condaoff() {
    export PATH=`echo $PATH | sed -n -e 's@'"$CONDA_PREFIX"'/bin:@@p'`
}
condaon
# Aliases for working with conda
get_env_name() {
    # Get the environment name from a conda yml file
    grep "name: *" $1 | sed -n -e 's/name: //p'
}
activate_conda_env() {
    # Activate the env from an environment.yml file if no argument is provided
    if [[ $# == 0 ]]; then
        if [[ -e "environment.yml" ]]; then
            source activate `get_env_name environment.yml`;
        else
            echo "No environment.yml found";
        fi
    elif [[ $# == 1 ]]; then
        source activate "$@";
    elif [[ $# == 2 ]] && [[ "$1" == "rm" ]]; then
        echo "Removing environment '$2'"
        conda env remove --name "$2";
    else
        echo "Invalid argument(s): $@"
    fi
}
alias cenv='activate_conda_env'
alias off='source deactivate'
off 2> /dev/null
# Clean conda packages and cache
alias conda-clean='conda update --all && conda clean -pity'


# GMT configuration and building
export GMT_INSTALL_PREFIX=$HOME/pkg
export GMT_INSTALL_MANIFEST=$GMT_INSTALL_PREFIX/gmt_install_manifest.txt
export GMT_DATA_PREFIX=$HOME/data/coastlines
alias gmttest='make -C build check; alert'
gmtclean() {
    for f in $(cat $GMT_INSTALL_MANIFEST); do
        rm -rf "$f"
    done
    rm $GMT_INSTALL_MANIFEST
}
gmtbuild() {
    # Builds GMT and install to the prefix.
    # Needs to be run from the SVN repository.
    if [[ -e "$GMT_INSTALL_MANIFEST" ]]; then
        echo "Cleaning previous install"
        echo "----------------------------------------------------"
        gmtclean
        echo ""
    fi
    echo "Installing GMT from source to $GMT_INSTALL_PREFIX"
    echo "----------------------------------------------------"
    # Download coastline data if it's not yet present
    if [[ ! -d "$GMT_DATA_PREFIX" ]]; then
        echo "Downloading coastline data to $GMT_DATA_PREFIX"
        echo "----------------------------------------------------"
        mkdir $GMT_DATA_PREFIX
        # GSHHG (coastlines, rivers, and political boundaries):
        EXT="tar.gz"
        GSHHG="gshhg-gmt-2.3.6"
        URL="ftp://ftp.soest.hawaii.edu/gmt/$GSHHG.$EXT"
        curl $URL > $GSHHG.$EXT
        tar xzf $GSHHG.$EXT
        cp $GSHHG/* $GMT_DATA_PREFIX/
        rm -r $GSHHG $GSHHG.$EXT
        # DCW (country polygons):
        DCW="dcw-gmt-1.1.2"
        URL="ftp://ftp.soest.hawaii.edu/gmt/$DCW.$EXT"
        curl $URL > $DCW.$EXT
        tar xzf $DCW.$EXT
        cp $DCW/* $GMT_DATA_PREFIX
        rm -r $DCW $DCW.$EXT
    fi
    cp cmake/ConfigUserTemplate.cmake cmake/ConfigUser.cmake
    # Enable testing
    echo "enable_testing()" >> cmake/ConfigUser.cmake
    echo "set (DO_EXAMPLES TRUE)" >> cmake/ConfigUser.cmake
    echo "set (DO_TESTS TRUE)" >> cmake/ConfigUser.cmake
    echo "set (N_TEST_JOBS `nproc`)" >> cmake/ConfigUser.cmake
    # Clean the build dir
    if [[ -d build ]]; then
        rm -r build
    fi
    mkdir -p build && cd build
    echo ""
    echo "Running cmake"
    echo "----------------------------------------------------"
    cmake -D CMAKE_INSTALL_PREFIX=$GMT_INSTALL_PREFIX \
          -D GDAL_ROOT=$CONDA_PREFIX \
          -D NETCDF_ROOT=$CONDA_PREFIX \
          -D PCRE_ROOT=$CONDA_PREFIX \
          -D FFTW3_ROOT=$CONDA_PREFIX \
          -D ZLIB_ROOT=$CONDA_PREFIX \
          -D DCW_ROOT=$GMT_DATA_PREFIX \
          -D GSHHG_ROOT=$GMT_DATA_PREFIX \
          ..
    echo ""
    echo "Build and install"
    echo "----------------------------------------------------"
    make -j`nproc` && make install
    cp install_manifest.txt $GMT_INSTALL_MANIFEST
    cd ..
    echo "Done"
    alert
}

# Useful aliases
alias nb='jupyter notebook'
alias v='vim'
alias copy='xclip -sel clip'
alias cal='cal -3'
alias du='du -sh'
alias up='sudo apt-get update && sudo apt-get upgrade -y; alert'
alias untar='tar -xvf'
alias untargz='tar -xzvf'
alias untarbz='tar -xjvf'

# The Fuck (https://github.com/nvbn/thefuck)
alias fuck='eval $(thefuck $(fc -ln -1))'
alias fk='fuck'
alias FUCK='fuck'

# CUDA
export PATH=${PATH}:/usr/local/cuda-5.5/bin
export LD_LIBRARY_PATH=/usr/local/cuda-5.5/lib64:/lib:$LD_LIBRARY_PATH

# To avoid the QString error with Mayavi
export QT_API=pyqt

# To make JabRef fonts not horrible
# http://crunchbang.org/forums/viewtopic.php?pid=248580#p248580
export _JAVA_OPTIONS="-Dawt.useSystemAAFontSettings=on"
alias jabref='nohup jabref > /dev/null 2>&1 &'

# Open the IRPF 2017 app
alias irpf2017='sudo _JAVA_OPTIONS="-Dawt.useSystemAAFontSettings=on" java -jar /home/leo/bin/IRPF2017/irpf.jar'

# added by travis gem
[ -f /home/leo/.travis/travis.sh ] && source /home/leo/.travis/travis.sh

# FUNCTIONS TO EDIT PDFS
# Convert pdfs to ps with fonts converted to paths for editing in Inkscape
# Call it as: pdf2ps-nofonts INPUT.pdf OUTPUT.ps
# Based on the answer to this StackOverlow question:
# http://stackoverflow.com/questions/7131670/make-bash-alias-that-takes-parameter
# and this Ubuntu Forums question:
# http://ubuntuforums.org/showthread.php?t=1781049
pdf2ps-nofonts() {
    gs -sDEVICE=ps2write -dNOCACHE -sOutputFile=$2 -q -dbatch -dNOPAUSE $1 -c quit
}
# Convert a PDF from RGB to CMYK
# Call it as: pdfcmyk INPUT.pdf OUTPUT.pdf
# Based on http://zeroset.mnim.org/2014/07/14/save-a-pdf-to-cmyk-with-inkscape/
pdfcmyk() {
    gs -dSAFER -dBATCH -dNOPAUSE -dNOCACHE -sDEVICE=pdfwrite \
        -sColorConversionStrategy=CMYK -dProcessColorModel=/DeviceCMYK \
        -sOutputFile=$2 $1
}

# Enable git bash completions on OSX
#if [ -f $(brew --prefix)/etc/bash_completion ]; then
#. $(brew --prefix)/etc/bash_completion
#fi