LICENSE.txt
MANIFEST.in
setup.py
sofia/__init__.py
sofia/__main__.py
sofia/attribute_map_factory.py
sofia/entity_type.py
sofia/error_manager.py
sofia.egg-info/PKG-INFO
sofia.egg-info/SOURCES.txt
sofia.egg-info/dependency_links.txt
sofia.egg-info/entry_points.txt
sofia.egg-info/requires.txt
sofia.egg-info/top_level.txt
sofia/execution_engines/__init__.py
sofia/execution_engines/buffer.py
sofia/execution_engines/low_memory_engine.py
sofia/execution_engines/parallel_engine.py
sofia/execution_engines/simple_engine.py
sofia/execution_engines/workers/__init__.py
sofia/execution_engines/workers/parallel_worker.py
sofia/execution_engines/workers/step_worker.py
sofia/resolvers/__init__.py
sofia/resolvers/attribute_resolver.py
sofia/resolvers/entity_resolver.py
sofia/resolvers/step_resolver.py
sofia/step/__init__.py
sofia/step/concrete_step.py
sofia/step/converter.py
sofia/step/extractor.py
sofia/step/step.py
sofia/step/writer.py
sofia/tools/__init__.py
sofia/tools/build.py
sofia/tools/execute.py
sofia/tools/filter.py
sofia/tools/get.py
sofia/tools/info.py
sofia/tools/resolve.py
sofia/workflow/__init__.py
sofia/workflow/entity_node.py
sofia/workflow/resolved_workflow.py
sofia/workflow/step_node.py
sofia/workflow/step_node_factory.py
sofia/workflow/step_wrapper.py
sofia/workflow_template/__init__.py
sofia/workflow_template/entity_definition_parser.py
sofia/workflow_template/entity_set.py
sofia/workflow_template/load_entity_set.py
sofia/workflow_template/load_template.py
sofia/workflow_template/template.py
templates/__init__.py
templates/genomics/__init__.py
templates/genomics/entities.json
templates/genomics/attributes/__init__.py
templates/genomics/attributes/chromosome_id.py
templates/genomics/attributes/sync.py
templates/genomics/data/Emolwt.dat
templates/genomics/data/gc.prt
templates/genomics/steps/__init__.py
templates/genomics/steps/bed.py
templates/genomics/steps/chromosome_sequence.py
templates/genomics/steps/coding_sequence.py
templates/genomics/steps/cut.py
templates/genomics/steps/drug_id.py
templates/genomics/steps/fasta.py
templates/genomics/steps/gbk.py
templates/genomics/steps/gene_goterm_map.py
templates/genomics/steps/gene_pathway_map.py
templates/genomics/steps/genetic_code.py
templates/genomics/steps/genomic_feature.py
templates/genomics/steps/genomic_feature_set.py
templates/genomics/steps/genomic_interval_set.py
templates/genomics/steps/genomic_position.py
templates/genomics/steps/gff.py
templates/genomics/steps/gtf.py
templates/genomics/steps/maf.py
templates/genomics/steps/major_transcript.py
templates/genomics/steps/molecular_weights.py
templates/genomics/steps/nucleotide_skew.py
templates/genomics/steps/protein_sequence.py
templates/genomics/steps/rna.py
templates/genomics/steps/rna_structure.py
templates/genomics/steps/sequence.py
templates/genomics/steps/sequence_set.py
templates/genomics/steps/txt.py
templates/genomics/steps/upstream_region.py
templates/genomics/steps/variant.py
templates/genomics/steps/variant_impact.py
templates/genomics/steps/variant_set.py
templates/genomics/steps/vcf.py
templates/genomics/test/__init__.py
templates/genomics/test/test_chromosome_sequence.py
tests/test_graph/__init__.py
tests/test_step/__init__.py
tests/test_wrappers/__init__.py