.coveragerc
.gitignore
.isort.cfg
.pre-commit-config.yaml
.readthedocs.yml
AUTHORS.rst
CHANGELOG.rst
CONTRIBUTING.rst
LICENSE.txt
README.rst
pyproject.toml
setup.cfg
setup.py
tox.ini
.github/workflows/ci.yml
data/example/Sample1_S1_L001_R1_001.fastq.gz
data/example/SampleSheet.csv
data/example/flowcell/flowcell_samplesheet.csv
data/example/flowcell/220422_M11111_0222_000000000-K9H97/RunInfo.xml
data/example/flowcell/220422_M11111_0222_000000000-K9H97/Data/Intensities/RTAConfiguration.xml
data/example/flowcell/220422_M11111_0222_000000000-K9H97/Data/Intensities/config.xml
data/example/flowcell/220422_M11111_0222_000000000-K9H97/Data/Intensities/BaseCalls/L001/s_1_1101.control
data/example/flowcell/220422_M11111_0222_000000000-K9H97/Data/Intensities/BaseCalls/L001/s_1_1101.filter
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docs/Makefile
docs/authors.rst
docs/changelog.rst
docs/conf.py
docs/contributing.rst
docs/flow.drawio
docs/flow.drawio.png
docs/index.rst
docs/license.rst
docs/readme.rst
docs/requirements.txt
docs/_static/.gitignore
scripts/bcl2fastq_docker.sh
scripts/build_flowcells.sh
src/fastq2bcl/__init__.py
src/fastq2bcl/cli.py
src/fastq2bcl/parser.py
src/fastq2bcl/reader.py
src/fastq2bcl/writer.py
src/fastq2bcl.egg-info/PKG-INFO
src/fastq2bcl.egg-info/SOURCES.txt
src/fastq2bcl.egg-info/dependency_links.txt
src/fastq2bcl.egg-info/entry_points.txt
src/fastq2bcl.egg-info/not-zip-safe
src/fastq2bcl.egg-info/requires.txt
src/fastq2bcl.egg-info/top_level.txt
tests/conftest.py
tests/test_cli.py
tests/test_parser.py
tests/test_reader.py
tests/test_writer.py