Haidong Yi

21 papers A* 1Journal 14Unranked 5
YearRankTypeTitle / Venue / Authors
2025 J jnl
BMC Bioinform.
Chi-Jane Chen, Haidong Yi, Natalie Stanley
2024 J jnl
CoRR
Chi-Jane Chen, Haidong Yi, Natalie Stanley
2024
Haidong Yi
2022 conf
BCB
Haidong Yi, Natalie Stanley
2022 J jnl
CoRR
Siyuan Shan, Vishal Baskaran, Haidong Yi, Jolene Ranek, Natalie Stanley, Junier Oliva
2022 conf
BCB
Siyuan Shan, Vishal Athreya Baskaran, Haidong Yi, Jolene Ranek, Natalie Stanley, Junier B. Oliva
2021 J jnl
Nucleic Acids Res.
Le Huang, Bowen Yang, Haidong Yi, Amina Asif, Jiawei Wang, Trevor Lithgow, Han Zhang, Fayyaz ul Amir Afsar Minhas, Yanbin Yin
2021 J jnl
Bioinform.
Haidong Yi, Le Huang, Gal Mishne, Eric C. Chi
2021 conf
BCB
Haidong Yi, Natalie Stanley
2021 J jnl
Nucleic Acids Res.
Catherine Ausland, Jinfang Zheng, Haidong Yi, Bowen Yang, Tang Li, Xuehuan Feng, Bo Zheng, Yanbin Yin
2020 J jnl
Nucleic Acids Res.
Haidong Yi, Le Huang, Bowen Yang, Javi Gomez, Han Zhang, Yanbin Yin
2020 A* conf
NeurIPS
Yang Li, Haidong Yi, Christopher M. Bender, Siyuan Shan, Junier B. Oliva
2020 J jnl
CoRR
Yang Li, Haidong Yi, Christopher M. Bender, Siyuan Shan, Junier B. Oliva
2020 J jnl
Bioinform.
Xiao Wang, Haidong Yi, Jia Wang, Zhandong Liu, Yanbin Yin, Han Zhang
2019 J jnl
IEEE J. Solid State Circuits
Shiheng Yang, Jun Yin, Haidong Yi, Wei-Han Yu, Pui-In Mak, Rui Paulo Martins
2018 J jnl
IEEE Trans. Circuits Syst. II Express Briefs
Haidong Yi, Jun Yin, Pui-In Mak, Rui Paulo Martins
2018 J jnl
IEEE J. Solid State Circuits
Haidong Yi, Wei-Han Yu, Pui-In Mak, Jun Yin, Rui Paulo Martins
2018 conf
ISSCC
Jun Yin, Shiheng Yang, Haidong Yi, Wei-Han Yu, Pui-In Mak, Rui Paulo Martins
2018 J jnl
Bioinform.
Haidong Yi, Ayush T. Raman, Han Zhang, Genevera I. Allen, Zhandong Liu
2018 J jnl
Nucleic Acids Res.
Le Huang, Han Zhang, Peizhi Wu, Sarah Entwistle, Xueqiong Li, Tanner Yohe, Haidong Yi, Zhenglu Yang, Yanbin Yin
2017 conf
ISSCC
Wei-Han Yu, Haidong Yi, Pui-In Mak, Jun Yin, Rui Paulo Martins
redb/extractors/macho_extractors/macho_similarity_hashes.py
← Index redb/extractors/macho_extractors/macho_similarity_hashes.py python
import inspect
from datetime import datetime, timezone
from typing import Any

from redb.extractors.enum import Tag
from redb.extractors.macho_extractor import MachOExtractor


class MachOSimilarityHashExtractor(MachOExtractor):
    """Extract Mach-O similarity hashes using machofile API.

    Similarity hashes are MD5 fingerprints of sorted, deduplicated binary components:
    - dylib_hash: MD5 of dynamic library names
    - import_hash: MD5 of imported function names
    - export_hash: MD5 of exported symbol names
    - entitlement_hash: MD5 of entitlement names and array values
    - symhash: MD5 of external undefined symbols

    For FAT binaries:
    - Inserts one row per architecture slice with per-slice hashes
    - Inserts one row for the FAT container with combined hashes

    For single-arch binaries:
    - Inserts one row with that architecture's hashes

    Note: parent_sha256 and architecture relationships are tracked in redb_basic_properties,
    not duplicated here. Use JOIN with redb_basic_properties when needed.
    """

    def __init__(
        self,
        filepath,
        log,
        exporters=None,
        index_prefix=None,
        elastic_index=None,
        known_benign=False,
        known_malicious=False,
        macho=None,
    ):
        super().__init__(
            filepath,
            log,
            exporters,
            index_prefix,
            elastic_index,
            known_benign,
            known_malicious,
            macho,
        )
        self.elastic_index = self.index_prefix + "-macho_hashes"
        self.log.debug(inspect.currentframe().f_code.co_name)

    def tag(self):
        return Tag.MACHO_HASHES.value

    def _extract_similarity_hashes(self, arch_name=None):
        """Extract similarity hashes for a specific architecture."""
        self.log.debug(inspect.currentframe().f_code.co_name)

        if not self.macho:
            return None

        try:
            similarity_hashes = self.macho.get_similarity_hashes(arch=arch_name)
            return similarity_hashes if similarity_hashes else None
        except Exception as e:
            self.log.error(f"Error extracting similarity hashes for arch {arch_name}: {e}")
            return None

    def extract(self):
        self.log.debug(inspect.currentframe().f_code.co_name)
        try:
            if not self.macho:
                return None

            architectures = self.macho.get_architectures()
            if not architectures:
                return None

            if len(architectures) > 1:
                # FAT binary - return combined hashes + per-arch hashes
                results = []

                # First add combined hashes for the FAT container
                all_hashes = self.macho.get_similarity_hashes()
                combined_hashes = all_hashes.get('combined', {}) if all_hashes else {}
                if combined_hashes:
                    combined_hashes['arch_identifier'] = 'fat'
                    results.append(combined_hashes)

                # Then add per-arch hashes
                for arch_name in architectures:
                    hashes = self._extract_similarity_hashes(arch_name)
                    if hashes:
                        hashes['arch_identifier'] = arch_name
                        results.append(hashes)
                return results
            else:
                # Single architecture - return single result
                return self._extract_similarity_hashes(architectures[0])
        except Exception as e:
            self.log.error(f"Error extracting similarity hashes: {e}")
            return None

    def prepare_export_data(self, exporter_type: str) -> Any:
        if exporter_type == "ElasticsearchExporter":
            return self.extract()
        elif exporter_type == "ClickHouseExporter":
            if not self.macho:
                return None

            try:
                architectures = self.macho.get_architectures()
                is_fat = len(architectures) > 1
            except Exception as e:
                self.log.error(f"Could not get architectures: {e}")
                return None

            data = []
            current_time = datetime.now(timezone.utc)

            # For FAT binaries, first insert a row for the container with combined hashes
            if is_fat:
                all_hashes = self.macho.get_similarity_hashes()  # Without arch returns all including 'combined'
                combined_hashes = all_hashes.get('combined', {}) if all_hashes else {}
                if combined_hashes:
                    data.append([
                        self.sha256,                                    # sha256 (FAT container)
                        combined_hashes.get('dylib_hash'),              # dylib_hash
                        combined_hashes.get('import_hash'),             # import_hash
                        combined_hashes.get('export_hash'),             # export_hash
                        combined_hashes.get('entitlement_hash'),        # entitlement_hash
                        combined_hashes.get('symhash'),                 # symhash
                        current_time,                                   # analysis_date
                    ])

            # Insert rows for each architecture slice
            for arch_name in architectures:
                # Get architecture-specific sha256
                try:
                    arch_general_info = self.macho.get_general_info(arch=arch_name)
                    arch_sha256 = arch_general_info.get('SHA256', self.sha256)
                except Exception as e:
                    self.log.warning(f"Could not get arch-specific sha256 for {arch_name}: {e}")
                    arch_sha256 = self.sha256

                # Get similarity hashes for this architecture
                similarity_hashes = self._extract_similarity_hashes(arch_name)
                if not similarity_hashes:
                    continue

                data.append([
                    arch_sha256,                                    # sha256 (arch-specific)
                    similarity_hashes.get('dylib_hash'),            # dylib_hash
                    similarity_hashes.get('import_hash'),           # import_hash
                    similarity_hashes.get('export_hash'),           # export_hash
                    similarity_hashes.get('entitlement_hash'),      # entitlement_hash
                    similarity_hashes.get('symhash'),               # symhash
                    current_time,                                   # analysis_date
                ])

            if not data:
                return None

            column_names = [
                'sha256',
                'macho_dylib_hash', 'macho_import_hash', 'macho_export_hash',
                'macho_entitlement_hash', 'macho_symhash',
                'analysis_date'
            ]

            column_type_names = [
                'FixedString(64)',
                'Nullable(FixedString(32))', 'Nullable(FixedString(32))', 'Nullable(FixedString(32))',
                'Nullable(FixedString(32))', 'Nullable(FixedString(32))',
                'DateTime64(3, \'UTC\')'
            ]

            return (data, column_names, column_type_names)

        return None

    def get_clickhouse_table(self) -> str:
        return "redb_hashes"