.gitignore

*.o
*~
sana
sana_dbg
sana.exe

_objs/
matrices/
tmp/
ignore/

autogenerated/*

experiments/*/errs/
experiments/*/scripts/
experiments/*/outs/
experiments/*/results/

.trash.*
*.csv
*.align
*.alig-el
*.phr
*.pin
*.psq
*.aln
*.align

*.bitscores

*.progress
*.stdout

#latex aux files
*.bbl
*.blg
*.aux
*.synctex.gz
*.log
*.out
*.nav
*.snm
*.toc
*.pyc
wrappedAlgorithms/PISWAP/networkx/*.pyc
wrappedAlgorithms/PISWAP/networkx/*/*.pyc
wrappedAlgorithms/PISWAP/networkx/*/*/*.pyc

*.txt
*.localscores
sana.multi
sana.float
sana.weight
parallel
createShadow
regression_test_baseline.txt
/test/googletest/
run_output.txt

wrappedAlgorithms/*/*tmp*
wrappedAlgorithms/*/*.alig*

#debug files
callgrind.out.*
core*
coreFrequencies.txt

#Vi/vim swp files
**.swp
.un~
/cache/
cache-pbad/


.vscode/
sana\.weighted

regression-tests/CompressedFiles/
regression-test.result
regression-out

# Macbook files
*.DS_Store
src/*.DS_Store