.gitattributes

# References:
#  - http://timclem.wordpress.com/2012/03/01/mind-the-end-of-your-line/
#  - https://help.github.com/articles/dealing-with-line-endings
#  - http://davidlaing.com/2012/09/19/customise-your-gitattributes-to-become-a-git-ninja/

#
# Set default behaviour, in case users don't have core.autocrlf set
#
*                text=auto

#
# These files are text and should be normalized (convert crlf => lf)
#
.editorconfig    text
.gitignore       text
.gitattributes   text
gradlew          text eol=lf
*.bat            text eol=crlf
*.crt            text
*.css            text
*.csv            text
*.ddl            text
*.dtd            text
*.gpml           text
*.hbs            text
*.htm            text diff=html
*.html           text diff=html
*.iml            text
*.ini            text
*.j2             text
*.java           text diff=java
*.js             text diff=javascript
*.jsf            text
*.json           text
*.jsp            text
*.jspf           text
*.less           text
*.log            text
*.md             text
*.markdown       text
*.obo            text
*.owl            text
*.pl             text diff=perl
*.pem            text
*.pm             text diff=perl
*.properties     text
*.py             text eol=lf diff=python
*.rb             text diff=ruby
*.scss           text
*.sh             text eol=lf
*.sql            text
*.tag            text
*.tsv            text
*.txt            text
*.vcf            text
*.vm             text
*.xml            text
*.xsd            text
*.xsl            text
*.yml            text

#
# PharmCAT specific
#
bin/pharmcat            text eol=lf
bin/preprocessor        text eol=lf
preprocessor/pharmcat_pipeline  text eol=lf diff=python
src/main/config/bashrc  text eol=lf
docs/.bashrc             text eol=lf

#
# Binary files should be left alone (binary is a macro for -text -diff)
#
*.ai      binary
*.bmp     binary
*.bgz     binary
*.class   binary
*.csi     binary
*.dll     binary
*.doc     binary
*.docx    binary
*.exe     binary
*.eot     binary
*.gif     binary
*.gz      binary
*.ico     binary
*.icns    binary
*.jar     binary
*.jnilib  binary
*.jpeg    binary
*.jpg     binary
*.pdf     binary
*.png     binary
*.ppt     binary
*.pptx    binary
*.psd     binary
*.so      binary
*.svg     binary
*.swf     binary
*.tar     binary
*.tbi     binary
*.tgz     binary
*.ttf     binary
*.woff    binary
*.xls     binary
*.xlsx    binary
*.zip     binary