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Name		Name	Last commit message	Last commit date
parent directory ..
_static		_static
about		about
dev		dev
getting_started		getting_started
resources		resources
user		user
Makefile		Makefile
conf.py		conf.py
flowcraft.flowcraft.rst		flowcraft.flowcraft.rst
flowcraft.generator.components.annotation.rst		flowcraft.generator.components.annotation.rst
flowcraft.generator.components.assembly.rst		flowcraft.generator.components.assembly.rst
flowcraft.generator.components.assembly_processing.rst		flowcraft.generator.components.assembly_processing.rst
flowcraft.generator.components.distance_estimation.rst		flowcraft.generator.components.distance_estimation.rst
flowcraft.generator.components.downloads.rst		flowcraft.generator.components.downloads.rst
flowcraft.generator.components.metagenomics.rst		flowcraft.generator.components.metagenomics.rst
flowcraft.generator.components.mlst.rst		flowcraft.generator.components.mlst.rst
flowcraft.generator.components.patlas_mapping.rst		flowcraft.generator.components.patlas_mapping.rst
flowcraft.generator.components.reads_quality_control.rst		flowcraft.generator.components.reads_quality_control.rst
flowcraft.generator.components.rst		flowcraft.generator.components.rst
flowcraft.generator.components.typing.rst		flowcraft.generator.components.typing.rst
flowcraft.generator.engine.rst		flowcraft.generator.engine.rst
flowcraft.generator.error_handling.rst		flowcraft.generator.error_handling.rst
flowcraft.generator.footer_skeleton.rst		flowcraft.generator.footer_skeleton.rst
flowcraft.generator.header_skeleton.rst		flowcraft.generator.header_skeleton.rst
flowcraft.generator.inspect.rst		flowcraft.generator.inspect.rst
flowcraft.generator.pipeline_parser.rst		flowcraft.generator.pipeline_parser.rst
flowcraft.generator.process.rst		flowcraft.generator.process.rst
flowcraft.generator.process_details.rst		flowcraft.generator.process_details.rst
flowcraft.generator.recipe.rst		flowcraft.generator.recipe.rst
flowcraft.generator.rst		flowcraft.generator.rst
flowcraft.rst		flowcraft.rst
flowcraft.templates.assembly_report.rst		flowcraft.templates.assembly_report.rst
flowcraft.templates.fastqc.rst		flowcraft.templates.fastqc.rst
flowcraft.templates.fastqc_report.rst		flowcraft.templates.fastqc_report.rst
flowcraft.templates.flowcraft_utils.flowcraft_base.rst		flowcraft.templates.flowcraft_utils.flowcraft_base.rst
flowcraft.templates.flowcraft_utils.rst		flowcraft.templates.flowcraft_utils.rst
flowcraft.templates.integrity_coverage.rst		flowcraft.templates.integrity_coverage.rst
flowcraft.templates.mapping2json.rst		flowcraft.templates.mapping2json.rst
flowcraft.templates.mashdist2json.rst		flowcraft.templates.mashdist2json.rst
flowcraft.templates.mashscreen2json.rst		flowcraft.templates.mashscreen2json.rst
flowcraft.templates.megahit.rst		flowcraft.templates.megahit.rst
flowcraft.templates.metaspades.rst		flowcraft.templates.metaspades.rst
flowcraft.templates.pATLAS_consensus_json.rst		flowcraft.templates.pATLAS_consensus_json.rst
flowcraft.templates.pipeline_status.rst		flowcraft.templates.pipeline_status.rst
flowcraft.templates.process_abricate.rst		flowcraft.templates.process_abricate.rst
flowcraft.templates.process_assembly.rst		flowcraft.templates.process_assembly.rst
flowcraft.templates.process_assembly_mapping.rst		flowcraft.templates.process_assembly_mapping.rst
flowcraft.templates.rst		flowcraft.templates.rst
flowcraft.templates.skesa.rst		flowcraft.templates.skesa.rst
flowcraft.templates.spades.rst		flowcraft.templates.spades.rst
flowcraft.templates.trimmomatic.rst		flowcraft.templates.trimmomatic.rst
flowcraft.templates.trimmomatic_report.rst		flowcraft.templates.trimmomatic_report.rst
flowcraft.tests.data_pipelines.rst		flowcraft.tests.data_pipelines.rst
flowcraft.tests.rst		flowcraft.tests.rst
flowcraft.tests.test_assemblerflow.rst		flowcraft.tests.test_assemblerflow.rst
flowcraft.tests.test_engine.rst		flowcraft.tests.test_engine.rst
flowcraft.tests.test_pipeline_parser.rst		flowcraft.tests.test_pipeline_parser.rst
flowcraft.tests.test_process_details.rst		flowcraft.tests.test_process_details.rst
flowcraft.tests.test_processes.rst		flowcraft.tests.test_processes.rst
flowcraft.tests.test_sanity.rst		flowcraft.tests.test_sanity.rst
index.rst		index.rst
make.bat		make.bat
setup.rst		setup.rst
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