matsen

#!/bin/sh

set -e
set -o

sudo apt-get update
sudo apt-get upgrade -y

sudo apt-get install -y \
    autojump \

matsen

For sane jupyter notebook diffs

• Install the nbconvert package, though you probably already have it if you are using jupyter.
• Put the nb2md script below in your path and make executable
• Add the following to your .gitattributes file, which can be in your home directory (use nb2md for all projects) or in the root of your project:

*.ipynb diff=nb2md

• Run

matsen

r () {
        if [[ -n $TMUX ]]
        then
                NEW_SSH_AUTH_SOCK=`tmux showenv|grep "^SSH_AUTH_SOCK"|cut -d = -f 2` 
                if [[ -n $NEW_SSH_AUTH_SOCK ]] && [[ -S $NEW_SSH_AUTH_SOCK ]]
                then
                        echo "New auth sock: $NEW_SSH_AUTH_SOCK"
                        SSH_AUTH_SOCK=$NEW_SSH_AUTH_SOCK 
                fi
                NEW_DISPLAY=`tmux showenv|grep "^DISPLAY"|cut -d = -f 2` 

matsen

#!/bin/sh

# Convert all arguments (assumed SVG) to a TIFF acceptable to PLOS
# Requires Inkscape and ImageMagick 6.8 (doesn't work with 6.6.9)

for i in $@; do
  BN=$(basename $i .svg)
  inkscape --without-gui --export-png="$BN.png" --export-dpi 300 $i
  convert -compress LZW -alpha remove $BN.png $BN.tiff
  mogrify -alpha off $BN.tiff