MANIFEST.in

graft src
graft tests

include *.md
include setup.py
include pyproject.toml
include LICENSE

global-exclude *.py[cod] __pycache__/* *.so *.dylib



# include README.md
# include LICENSE
# include MANIFEST.in
# include requirements.txt
# include setup.py
# include LRphase/__init__.py
# include LRphase/__main__.py
# include LRphase/*.py
# include tests/*
# include tests/fastq/*.fastq
# include tests/fastq/*
# include tests/alignment_files/*.sam
# include tests/alignment_files/*.bam
# include tests/alignment_files/*.bam.bai
# include tests/alignment_files/*.paf
# include tests/alignment_files/*.maf
# include tests/alignment_files/*
# include tests/haplotype_info_vcf/*.vcf
# include tests/haplotype_info_vcf/*.vcf.gz
# include tests/haplotype_info_vcf/*
# include tests/reference_sequence_fa/*
# include HaplotagLR/*
# include HaplotagLR/cli.py
# include HaplotagLR/__version__.py
# data/urls.py
# data/__init__.py
# data/*


# include pat1 pat2 ...

# include all files matching any of the listed patterns

# exclude pat1 pat2 ...

# exclude all files matching any of the listed patterns

# recursive-include dir pat1 pat2 ...

# include all files under dir matching any of the listed patterns

# recursive-exclude dir pat1 pat2 ...

# exclude all files under dir matching any of the listed patterns

# global-include pat1 pat2 ...

# include all files anywhere in the source tree matching — & any of the listed patterns

# global-exclude pat1 pat2 ...

# exclude all files anywhere in the source tree matching — & any of the listed patterns

# prune dir

# exclude all files under dir

# graft dir

# include all files under dir

# The patterns here are Unix-style “glob” patterns: * matches any sequence of regular filename characters, ? matches any single regular filename character, and [range] matches any of the characters in range (e.g., a-z, a-zA-Z, a-f0-9_.). The definition of “regular filename character” is platform-specific: on Unix it is anything except slash; on Windows anything except backslash or colon.