James C. Hu

12 papers A* 1Journal 10Unranked 1
YearRankTypeTitle / Venue / Authors
2021 J jnl
PLoS Comput. Biol.
Jolene Ramsey, Brenley K. McIntosh, Daniel P. Renfro, Suzanne A. Aleksander, Sandra A. LaBonte, Curtis Ross, Adrienne E. Zweifel, Nathan Liles, Shabnam Farrar, Jason J. Gill, Ivan Erill, Sarah Ades, Tanya Z. Berardini, Jennifer A. Bennett, Siobhan M. Brady, Robert Britton, Seth Carbon, Steven M. Caruso, Dave Clements, Ritu Dalia, Meredith Defelice, Erin L. Doyle, Iddo Friedberg, Susan M. R. Gurney, Lee Hughes, Allison Johnson, Jason M. Kowalski, Donghui Li, Ruth C. Lovering, Tamara L. Mans, Fiona McCarthy, Sean D. Moore, Rebecca Murphy, Timothy D. Paustian, Sarah Perdue, Celeste N. Peterson, Birgit M. Prüß, Margaret S. Saha, Robert R. Sheehy, John T. Tansey, Louise Temple, Alexander William Thorman, Saul Trevino, Amy Cheng Vollmer, Virginia Walbot, Joanne Willey, Deborah A. Siegele, James C. Hu
2020 J jnl
PLoS Comput. Biol.
Jolene Ramsey, Helena Rasche, Cory Maughmer, Anthony Criscione, Eleni Mijalis, Mei Liu, James C. Hu, Ry Young, Jason J. Gill
2019 J jnl
Nucleic Acids Res.
Michelle G. Giglio, Rebecca Tauber, Suvarna Nadendla, James B. Munro, Dustin Olley, Shoshannah Ball, Elvira Mitraka, Lynn M. Schriml, Pascale Gaudet, Elizabeth T. Hobbs, Ivan Erill, Deborah A. Siegele, James C. Hu, Chris Mungall, Marcus C. Chibucos
2019 J jnl
J. Biomed. Semant.
Deborah A. Siegele, Sandra A. LaBonte, Peter I-Fan Wu, Marcus C. Chibucos, Suvarna Nandendla, Michelle G. Giglio, James C. Hu
2014 J jnl
Nucleic Acids Res.
James C. Hu, Gavin Sherlock, Deborah A. Siegele, Suzanne A. Aleksander, Catherine A. Ball, Janos Demeter, Sushanth Gouni, Timothy A. Holland, Peter D. Karp, John E. Lewis, Nathan M. Liles, Brenley K. McIntosh, Huaiyu Mi, Anushya Muruganujan, Farrell Wymore, Paul D. Thomas
2012 J jnl
Nucleic Acids Res.
Brenley K. McIntosh, Daniel P. Renfro, Gwendowlyn S. Knapp, Chanchala R. Lairikyengbam, Nathan M. Liles, Lili Niu, Amanda M. Supak, Anand Venkatraman, Adrienne E. Zweifel, Deborah A. Siegele, James C. Hu
2012 J jnl
Nucleic Acids Res.
Daniel P. Renfro, Brenley K. McIntosh, Anand Venkatraman, Deborah A. Siegele, James C. Hu
2011 conf
ICBO
Marcus C. Chibucos, Adrienne E. Zweifel, Deborah A. Siegele, Peter Uetz, Michelle G. Giglio, James C. Hu
2000 J jnl
ACM Comput. Surv.
Douglas C. Schmidt, James C. Hu
2000 J jnl
Parallel Distributed Comput. Pract.
James C. Hu, Irfan Pyarali, Douglas C. Schmidt
1998 J jnl
IEE Proc. Softw.
Gruia-Catalin Roman, James C. Hu
1998 A* conf
INFOCOM
James C. Hu, Sumedh Mungee, Douglas C. Schmidt
redb/extractors/apk_extractors/apk_features.py
← Index redb/extractors/apk_extractors/apk_features.py python
import inspect
import zipfile
from datetime import datetime, timezone
from typing import Any

from redb.extractors.enum import Tag
from redb.extractors.apk_extractor import APKExtractor
from redb.models.dataclasses import APKFeatures


class APKFeaturesExtractor(APKExtractor):

    def __init__(
        self, filepath, log, exporters=None, index_prefix=None,
        known_benign=False, known_malicious=False,
        apk=None,
    ):
        super().__init__(
            filepath, log, exporters, index_prefix,
            known_benign, known_malicious, apk,
        )
        self.apk_features = None
        self.log.debug(inspect.currentframe().f_code.co_name)

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

    def _extract_zip_timestamps(self):
        """Extract earliest and latest content modification from ZIP entries."""
        earliest = None
        latest = None
        try:
            zf = self._get_zip_file()
            if zf:
                with zf:
                    for info in zf.infolist():
                        try:
                            dt = datetime(*info.date_time)
                            if earliest is None or dt < earliest:
                                earliest = dt
                            if latest is None or dt > latest:
                                latest = dt
                        except (ValueError, TypeError):
                            continue
        except Exception as e:
            self.log.warning(f"Error extracting ZIP timestamps: {e}")
        return (
            earliest.isoformat() if earliest else None,
            latest.isoformat() if latest else None,
        )

    def _extract_supported_abis(self):
        """Determine supported ABIs from lib/ directory."""
        abis = set()
        for f in self._list_files():
            if f.startswith("lib/") and f.endswith(".so"):
                parts = f.split("/")
                if len(parts) >= 3:
                    abis.add(parts[1])
        return sorted(abis)

    def _count_dex_files(self):
        """Count DEX files and compute total size."""
        dex_count = 0
        total_size = 0
        try:
            zf = self._get_zip_file()
            if zf:
                with zf:
                    for info in zf.infolist():
                        if info.filename.endswith(".dex"):
                            dex_count += 1
                            total_size += info.file_size
        except Exception as e:
            self.log.warning(f"Error counting DEX files: {e}")
        return dex_count, total_size

    def _check_embedded_apk(self):
        """Check if the archive contains nested APK files."""
        for f in self._list_files():
            if f.lower().endswith(".apk"):
                return True
        return False

    def _safe_extract(self, field_name, func, default=None):
        """Extract a single field, logging and returning default on failure."""
        try:
            return func()
        except Exception as e:
            self.log.warning(
                f"Error extracting APK field '{field_name}' for "
                f"{self.hash.sha256}: {e}"
            )
            return default

    def extract(self):
        if not self._is_valid_apk():
            self.log.error(f"Invalid APK for {self.hash.sha256}")
            return None

        package_name = self._safe_extract(
            "package_name", lambda: self.apk.get_package()
        )
        app_name = self._safe_extract(
            "app_name", lambda: self.apk.get_app_name()
        )

        def _get_version_code():
            try:
                return int(self.apk.get_androidversion_code() or 0)
            except (ValueError, TypeError):
                return 0

        version_code = self._safe_extract("version_code", _get_version_code)
        version_name = self._safe_extract(
            "version_name", lambda: self.apk.get_androidversion_name()
        )

        def _get_sdk(getter):
            val = getter()
            return int(val) if val else None

        min_sdk = self._safe_extract(
            "min_sdk_version", lambda: _get_sdk(self.apk.get_min_sdk_version)
        )
        target_sdk = self._safe_extract(
            "target_sdk_version", lambda: _get_sdk(self.apk.get_target_sdk_version)
        )
        compile_sdk = self._safe_extract(
            "compile_sdk_version",
            lambda: _get_sdk(self.apk.get_effective_target_sdk_version),
        )

        main_activity = self._safe_extract(
            "main_activity", lambda: self.apk.get_main_activity()
        )

        is_debuggable = self._safe_extract(
            "is_debuggable",
            lambda: self.apk.get_attribute_value(
                "application", "debuggable"
            ) == "true",
            False,
        )
        allow_backup = self._safe_extract(
            "allow_backup",
            lambda: self.apk.get_attribute_value(
                "application", "allowBackup"
            ) != "false",
            True,
        )
        uses_cleartext = self._safe_extract(
            "uses_cleartext_traffic",
            lambda: self.apk.get_attribute_value(
                "application", "usesCleartextTraffic"
            ) == "true",
            False,
        )

        supported_abis = self._safe_extract(
            "supported_abis", self._extract_supported_abis, []
        )
        dex_count, total_dex_size = self._safe_extract(
            "dex_files", self._count_dex_files, (0, 0)
        )
        all_files = self._safe_extract("file_list", self._list_files, [])
        total_file_count = len(all_files)
        has_native_code = any(
            f.startswith("lib/") and f.endswith(".so") for f in all_files
        )
        has_assets = any(f.startswith("assets/") for f in all_files)
        contains_embedded_apk = self._safe_extract(
            "contains_embedded_apk", self._check_embedded_apk, False
        )

        uses_libraries = self._safe_extract(
            "uses_libraries",
            lambda: list(self.apk.get_libraries() or []),
            [],
        )

        earliest_mod, latest_mod = self._safe_extract(
            "zip_timestamps", self._extract_zip_timestamps, (None, None)
        )

        self.apk_features = APKFeatures(
            package_name=package_name,
            app_name=app_name,
            version_code=version_code,
            version_name=version_name,
            min_sdk_version=min_sdk,
            target_sdk_version=target_sdk,
            compile_sdk_version=compile_sdk,
            main_activity=main_activity,
            is_debuggable=is_debuggable,
            allow_backup=allow_backup,
            uses_cleartext_traffic=uses_cleartext,
            supported_abis=supported_abis,
            dex_count=dex_count,
            total_dex_size=total_dex_size,
            total_file_count=total_file_count,
            has_native_code=has_native_code,
            has_assets=has_assets,
            uses_libraries=uses_libraries,
            earliest_content_modification=earliest_mod,
            latest_content_modification=latest_mod,
            contains_embedded_apk=contains_embedded_apk,
        )
        return self.apk_features

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

            f = self.apk_features
            current_time = datetime.now(timezone.utc)
            data = [[
                self.sha256,
                f.package_name,
                f.app_name,
                f.version_code,
                f.version_name,
                f.min_sdk_version,
                f.target_sdk_version,
                f.compile_sdk_version,
                f.main_activity,
                int(f.is_debuggable),
                int(f.allow_backup),
                int(f.uses_cleartext_traffic),
                f.supported_abis,
                f.dex_count,
                f.total_dex_size,
                f.total_file_count,
                int(f.has_native_code),
                int(f.has_assets),
                f.uses_libraries,
                f.earliest_content_modification,
                f.latest_content_modification,
                int(f.contains_embedded_apk),
                current_time,
            ]]

            column_names = [
                "sha256",
                "package_name", "app_name", "version_code", "version_name",
                "min_sdk_version", "target_sdk_version", "compile_sdk_version",
                "main_activity",
                "is_debuggable", "allow_backup", "uses_cleartext_traffic",
                "supported_abis",
                "dex_count", "total_dex_size", "total_file_count",
                "has_native_code", "has_assets",
                "uses_libraries",
                "earliest_content_modification", "latest_content_modification",
                "contains_embedded_apk",
                "analysis_date",
            ]

            column_type_names = [
                "FixedString(64)",
                "Nullable(String)", "Nullable(String)", "Nullable(UInt32)", "Nullable(String)",
                "Nullable(UInt16)", "Nullable(UInt16)", "Nullable(UInt16)",
                "Nullable(String)",
                "UInt8", "UInt8", "UInt8",
                "Array(String)",
                "UInt16", "UInt64", "UInt32",
                "UInt8", "UInt8",
                "Array(String)",
                "Nullable(String)", "Nullable(String)",
                "UInt8",
                "DateTime64(3, 'UTC')",
            ]

            return (data, column_names, column_type_names)

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