## Core latex/pdflatex auxiliary files:
*.aux
*.lof
*.log
*.lot
*.fls
*.out
*.toc
*.bin
## Intermediate documents:
*.dvi
*-converted-to.*
# these rules might exclude image files for figures etc.
# *.ps
# *.eps
# *.pdf

## Bibliography auxiliary files (bibtex/biblatex/biber):
*.bbl
*.bcf
*.blg
*-blx.aux
*-blx.bib
*.brf
*.run.xml

## Build tool auxiliary files:
*.fdb_latexmk
*.synctex.gz
*.synctex.gz(busy)
*.pdfsync

## Auxiliary and intermediate files from other packages:

# algorithms
*.alg
*.loa

# amsthm
*.thm

# beamer
*.nav
*.snm
*.vrb

#(e)ledmac/(e)ledpar
*.end
*.[1-9]
*.[1-9][0-9]
*.[1-9][0-9][0-9]
*.[1-9]R
*.[1-9][0-9]R
*.[1-9][0-9][0-9]R
*.eledsec[1-9]
*.eledsec[1-9]R
*.eledsec[1-9][0-9]
*.eledsec[1-9][0-9]R
*.eledsec[1-9][0-9][0-9]
*.eledsec[1-9][0-9][0-9]R

# glossaries
*.acn
*.acr
*.glg
*.glo
*.gls

# hyperref
*.brf

# listings
*.lol

# makeidx
*.idx
*.ilg
*.ind
*.ist

# minitoc
*.maf
*.mtc
*.mtc0

# minted
*.pyg

# morewrites
*.mw

# nomencl
*.nlo

# sagetex
*.sagetex.sage
*.sagetex.py
*.sagetex.scmd

# sympy
*.sout
*.sympy
sympy-plots-for-*.tex/

# todonotes
*.tdo

# xindy
*.xdy
#ignore thumbnails created by windows
Thumbs.db
#Ignore files build by Visual Studio
*.obj
*.exe
*.pdb
*.user
*.aps
*.pch
*.vspscc
*_i.c
*_p.c
*.ncb
*.suo
*.tlb
*.tlh
*.bak
*.cache
*.ilk
*.log
[Bb]in
[Dd]ebug*/
*.lib
*.sbr
obj/
[Rr]elease*/
_ReSharper*/
[Tt]est[Rr]esult*

## Ignore Visual Studio temporary files, build results, and
## files generated by popular Visual Studio add-ons.

# User-specific files
*.suo
*.user
*.userosscache
*.sln.docstates

# Build results
[Dd]ebug/
[Dd]ebugPublic/
[Rr]elease/
[Rr]eleases/
x64/
x86/
build/
bld/
[Bb]in/
[Oo]bj/

# Roslyn cache directories
*.ide/

# MSTest test Results
[Tt]est[Rr]esult*/
[Bb]uild[Ll]og.*

#NUNIT
*.VisualState.xml
TestResult.xml

# Build Results of an ATL Project
[Dd]ebugPS/
[Rr]eleasePS/
dlldata.c

*_i.c
*_p.c
*_i.h
*.ilk
*.meta
*.obj
*.pch
*.pdb
*.pgc
*.pgd
*.rsp
*.sbr
*.tlb
*.tli
*.tlh
*.tmp
*.tmp_proj
*.log
*.vspscc
*.vssscc
.builds
*.pidb
*.svclog
*.scc

# Chutzpah Test files
_Chutzpah*

# Visual C++ cache files
ipch/
*.aps
*.ncb
*.opensdf
*.sdf
*.cachefile

# Visual Studio profiler
*.psess
*.vsp
*.vspx

# TFS 2012 Local Workspace
$tf/

# Guidance Automation Toolkit
*.gpState

# ReSharper is a .NET coding add-in
_ReSharper*/
*.[Rr]e[Ss]harper
*.DotSettings.user

# JustCode is a .NET coding addin-in
.JustCode

# TeamCity is a build add-in
_TeamCity*

# DotCover is a Code Coverage Tool
*.dotCover

# NCrunch
_NCrunch_*
.*crunch*.local.xml

# MightyMoose
*.mm.*
AutoTest.Net/

# Web workbench (sass)
.sass-cache/

# Installshield output folder
[Ee]xpress/

# DocProject is a documentation generator add-in
DocProject/buildhelp/
DocProject/Help/*.HxT
DocProject/Help/*.HxC
DocProject/Help/*.hhc
DocProject/Help/*.hhk
DocProject/Help/*.hhp
DocProject/Help/Html2
DocProject/Help/html

# Click-Once directory
publish/

# Publish Web Output
*.[Pp]ublish.xml
*.azurePubxml
# TODO: Comment the next line if you want to checkin your web deploy settings 
# but database connection strings (with potential passwords) will be unencrypted
*.pubxml
*.publishproj

# NuGet Packages
*.nupkg
# The packages folder can be ignored because of Package Restore
**/packages/*
# except build/, which is used as an MSBuild target.
!**/packages/build/
# If using the old MSBuild-Integrated Package Restore, uncomment this:
#!**/packages/repositories.config

# Windows Azure Build Output
csx/
*.build.csdef

# Windows Store app package directory
AppPackages/

# Others
*.Cache
ClientBin/
[Ss]tyle[Cc]op.*
~$*
*~
*.dbmdl
*.dbproj.schemaview
*.pfx
*.publishsettings
node_modules/
bower_components/

# RIA/Silverlight projects
Generated_Code/

# Backup & report files from converting an old project file
# to a newer Visual Studio version. Backup files are not needed,
# because we have git ;-)
_UpgradeReport_Files/
Backup*/
UpgradeLog*.XML
UpgradeLog*.htm

# SQL Server files
*.mdf
*.ldf

# Business Intelligence projects
*.rdl.data
*.bim.layout
*.bim_*.settings

# Microsoft Fakes
FakesAssemblies/
graphconstructor/constructormsvs/ecoli10.fasta
graphconstructor/constructormsvs/cand.bin
graphconstructor/constructormsvs/ecoli60nobs.fasta
graphconstructor/constructormsvs/ecoli10nobs.fasta
graphconstructor/constructormsvs/chr1.fa
graphconstructor/constructormsvs/xtmp
graphconstructor/constructormsvs/tbb.dll
graphconstructor/constructormsvs/tbb_debug.dll
graphconstructor/constructormsvs/stxxl.errlog
graphconstructor/constructormsvs/log.txt
naiveconstructor/naivemsvs/dump.txt
naiveconstructor/naivemsvs/dump.txt
msvs/graphconstructor/graphconstructor/log.txt
msvs/graphconstructor/graphconstructor/tbb_debug.dll
msvs/graphconstructor/graphconstructor/test.fasta
msvs/graphconstructor/graphconstructor/ntest.fasta
msvs/graphconstructor/graphconstructor/chr1.fa
msvs/graphconstructor/graphconstructor/tbb.dll
msvs
