.gitignore

# Prerequisites
*.d

# Compiled Object files
*.slo
*.lo
*.o
*.obj

# Precompiled Headers
*.gch
*.pch

# Compiled Dynamic libraries
*.so
*.dylib
*.dll

# Fortran module files
*.mod
*.smod

# Compiled Static libraries
*.lai
*.la
*.a
*.lib

# Executables
*.exe
*.app

example_data*
src/snakemake/
!src/snakemake/Snakefile
!src/snakemake/data/README
!src/snakemake/output/README
!src/snakemake/results/README
!src/snakemake/genmap/count/Snakefile
!src/snakemake/genmap/count/plot_count_genomes.py
!src/snakemake/genmap/Snakefile
!src/snakemake/genmap/genmap_uniqueness.py

!src/snakemake/accuracy/add_errors.py
!src/snakemake/accuracy/README
!src/snakemake/accuracy/Snakefile
!src/snakemake/accuracy/plot_match.py
!src/snakemake/accuracy/plot_match_representative.py
!src/snakemake/accuracy/create_res.py
!src/snakemake/count/Snakefile
!src/snakemake/count/plot_counts.py
!src/snakemake/count/plot_counts_representative.py
!src/snakemake/count/plot_counts_representative2.py

!src/snakemake/distance/Snakefile

!src/snakemake/speed/README
!src/snakemake/speed/Snakefile
!src/snakemake/speed/plot_speed.py
!src/snakemake/speed/plot_speed_representative.py