.gitignore

#This file exists to stop the addition of forbidden files into the github
#respository #Such forbidden files are images, movies, and various dotfiles
#(such as .DS_store on mac). This .gitignore file will be common to all
#repositories and should be the first file that is committed.

#Everyone makes their own graphics path based on the location of Dropbox on their computer
graphicspath.tex

#Ignore trash dotfiles.
*.DS_store

#Ignore shortcuts (on Windows)
*.lnk

#Ignore latex garbage.
*.swp
*.log
*.aux
*.bbl
*.fls
*.fdb_latexmk
*.dvi
*.bcf
*.run.xml
*.toc
*blx.bib

#Ignore images
*.jpg
*.tif*
*.eps
*.ai
*.svg
*.bmp
*.hdr

#Ignore movies and audio
*.mp4
*.mov
*.avi
*.wav
*.mp3

#Ignore Microsoft, Apple, and PDF documents.
*.ppt*
*.doc*
*.xsl*
*.numbers
*.pages
*.key
*.pdf

#Ignore LaTeX helper files
*.blg
*.out
*.synctex.gz

#Ignore various code garbage.
*.pyc
*.ipynb_checkpoints*
**/.ipynb_checkpoints/
*pycache*

# Ignore pickle files
*.pkl
*.dill

# Local directories to ignore
*egg-info/
data/energy_matrix
data/mi_freq_counts
data/raw_sequencing
data/microscopy
exploratory
_site/
*/stan_code/*
library.bib
**/stan/

**/.DS_Store
*/.DS_Store