from nexus_rag.domain.entities.molecule import Molecule
from nexus_rag.domain.entities.atom import Atom
from nexus_rag.domain.entities.bond import Bond

from nexus_rag.ingestion.parsers.pdf_parser import DoclingParser
from nexus_rag.ingestion.chunkers.markdown_chunker import ConfigurableMarkdownChunker
from nexus_rag.ingestion.extractors.bond_extractor import StructuredBondExtractor
from nexus_rag.ingestion.pipeline import NexusPipelineRunner

__all__ = [
    "Molecule",
    "Atom",
    "Bond",
    "DoclingParser",
    "ConfigurableMarkdownChunker",
    "StructuredBondExtractor",
    "NexusPipelineRunner"
]
