Jack Breen

13 papers Journal 9Unranked 4
YearRankTypeTitle / Venue / Authors
2024 J jnl
CoRR
Jack Breen, Katie Allen, Kieran Zucker, Lucy Godson, Nicolas M. Orsi, Nishant Ravikumar
2024 J jnl
CoRR
Jack Breen, Katie Allen, Kieran Zucker, Nicolas M. Orsi, Nishant Ravikumar
2024 conf
GRAIL@MICCAI
Jack Breen, Katie Allen, Kieran Zucker, Nicolas M. Orsi, Nishant Ravikumar
2024 conf
ISBI
Jack Breen, Nishant Ravikumar, Katie Allen, Kieran Zucker, Nicolas M. Orsi
2023 J jnl
CoRR
Jack Breen, Katie S. Allen, Kieran Zucker, Pratik Adusumilli, Andy Scarsbrook, Geoff Hall, Nicolas M. Orsi, Nishant Ravikumar
2023 conf
Digital and Computational Pathology
Jack Breen, Katie Allen, Kieran Zucker, Geoff Hall, Nicolas M. Orsi, Nishant Ravikumar
2023 J jnl
CoRR
Jack Breen, Katie S. Allen, Kieran Zucker, Geoff Hall, Nicolas M. Orsi, Nishant Ravikumar
2023 J jnl
CoRR
Jack Breen, Kieran Zucker, Katie Allen, Nishant Ravikumar, Nicolas M. Orsi
2023 J jnl
Medical Image Anal.
Marc Aubreville, Nikolas Stathonikos, Christof A. Bertram, Robert Klopfleisch, Natalie D. ter Hoeve, Francesco Ciompi, Frauke Wilm, Christian Marzahl, Taryn A. Donovan, Andreas K. Maier, Jack Breen, Nishant Ravikumar, Youjin Chung, Jinah Park, Ramin Nateghi, Fattaneh Pourakpour, Rutger H. J. Fick, Saima Ben Hadj, Mostafa Jahanifar, Adam Shephard, Jakob Dexl, Thomas Wittenberg, Satoshi Kondo, Maxime W. Lafarge, Viktor H. Koelzer, Jingtang Liang, Yubo Wang, Xi Long, Jingxin Liu, Salar Razavi, April Khademi, Sen Yang, Xiyue Wang, Ramona Erber, Andrea Klang, Karoline Lipnik, Pompei Bolfa, Michael J. Dark, Gabriel Wasinger, Mitko Veta, Katharina Breininger
2023 J jnl
CoRR
Jack Breen, Katie Allen, Kieran Zucker, Geoff Hall, Nishant Ravikumar, Nicolas M. Orsi
2022 J jnl
CoRR
Marc Aubreville, Nikolas Stathonikos, Christof A. Bertram, Robert Klopfleisch, Natalie D. ter Hoeve, Francesco Ciompi, Frauke Wilm, Christian Marzahl, Taryn A. Donovan, Andreas K. Maier, Jack Breen, Nishant Ravikumar, Youjin Chung, Jinah Park, Ramin Nateghi, Fattaneh Pourakpour, Rutger H. J. Fick, Saima Ben Hadj, Mostafa Jahanifar, Nasir M. Rajpoot, Jakob Dexl, Thomas Wittenberg, Satoshi Kondo, Maxime W. Lafarge, Viktor H. Koelzer, Jingtang Liang, Yubo Wang, Xi Long, Jingxin Liu, Salar Razavi, April Khademi, Sen Yang, Xiyue Wang, Mitko Veta, Katharina Breininger
2021 conf
MIDOG/MOOD/Learn2Reg@MICCAI
Jack Breen, Kieran Zucker, Nicolas M. Orsi, Nishant Ravikumar
2021 J jnl
CoRR
Jack Breen, Kieran Zucker, Nicolas M. Orsi, Geoff Hall, Nishant Ravikumar
redb/extractors/pe_extractors/pe_inconsistency_tests.py
← Index redb/extractors/pe_extractors/pe_inconsistency_tests.py python
import inspect
from redb.ext.spoof_check import (
    Result,
    checksum_test,
    duplicate_test,
    import_count_test,
    linker_test,
)
from redb.extractors.enum import Tag
from redb.extractors.pe_extractor import PEExtractor
from redb.models.dataclasses import (
    DotNetInconsistencyTests,
    PEInconsistencyTests,
)
from datetime import datetime, timezone
from typing import Any


class PEInconstistencyTestsExtractor(PEExtractor):
    """Collection of functions to perform features inconsistency tests

    A Test where the result is True means that there is an inconsistency.
    At the moments it runs a series of inconsistency tests on PE metadata from
    - spoof_check
    - pescanner
    - dotnetfile
    """

    def __init__(
        self,
        filepath,
        log,
        exporters=None,
        index_prefix=None,
        elastic_index=None,
        known_benign=False,
        known_malicious=False,
        pe=None,
        dotnet=None,
    ):
        super().__init__(
            filepath,
            log,
            exporters,
            index_prefix,
            elastic_index,
            known_benign,
            known_malicious,
            pe,
        )
        self.dotnet = dotnet if dotnet else None
        self.pe_inconsistency_tests = None
        self.dotnet_inconsistency_tests = None
        self.elastic_index = self.index_prefix + "-pe_inconsistency_tests"

    def tag(self):
        return [Tag.PE_INCONSISTENCY_TESTS.value, Tag.DOTNET_INCONSISTENCY_TESTS.value]

    def extract(self):
        self.log.debug(inspect.currentframe().f_code.co_name)
        tests_performed = False

        # Handle PE rich header tests
        try:
            rich_header = self.pe.parse_rich_header()
            if rich_header:
                self.pe_inconsistency_tests = PEInconsistencyTests(
                    test_rich_header_checksum=checksum_test(self.pe, rich_header) == Result.INVALID,
                    test_rich_header_duplicate=duplicate_test(self.pe, rich_header) == Result.INVALID,
                    test_rich_header_linker=linker_test(self.pe, rich_header) == Result.INVALID,
                    test_rich_header_import_count=import_count_test(self.pe, rich_header) == Result.INVALID,
                )
                tests_performed = True
            else:
                self.pe_inconsistency_tests = PEInconsistencyTests(
                    test_rich_header_checksum=None,
                    test_rich_header_duplicate=None,
                    test_rich_header_linker=None,
                    test_rich_header_import_count=None,
                )
        except Exception as e:
            self.log.error(f"Error processing rich header tests for {self.hash.sha256}: {e}")
            self.pe_inconsistency_tests = None

            # self.export_to_elastic([self.pe_inconsistency_tests])

        # Handle .NET tests
        try:
            if self._check_dotnet():
                if not self.dotnet:
                    self.dotnet, self.error = self._generate_dotnetfile_object()
                if self.error:
                    self.log.error(f"Error generating .NET object {self.hash.sha256}: {self.error}")
                self.dotnet_inconsistency_tests = DotNetInconsistencyTests(
                    test_dotnet_data_dir_hidden=self.dotnet.AntiMetadataAnalysis.is_dotnet_data_directory_hidden,
                    test_dotnet_extra_data=self.dotnet.AntiMetadataAnalysis.has_metadata_table_extra_data,
                    test_dotnet_fake_types=self.dotnet.AntiMetadataAnalysis.has_self_referenced_typeref_entries,
                    test_dotnet_invalid_type_ref=self.dotnet.AntiMetadataAnalysis.has_invalid_typeref_entries,
                    test_dotnet_fake_datastreams=self.dotnet.AntiMetadataAnalysis.has_fake_data_streams,
                    test_dotnet_extra_module_table=self.dotnet.AntiMetadataAnalysis.module_table_has_multiple_rows,
                    test_dotnet_extra_assembly_table=self.dotnet.AntiMetadataAnalysis.assembly_table_has_multiple_rows,
                    test_dotnet_invalid_strings_stream=self.dotnet.AntiMetadataAnalysis.has_invalid_strings_stream_entries,
                    test_dotnet_streams_mixed_case=self.dotnet.AntiMetadataAnalysis.has_mixed_case_stream_names,
                    test_dotnet_method_def_invalid_table=self.dotnet.AntiMetadataAnalysis.has_invalid_methoddef_entries,
                    test_dotnet_max_len_exceeding_strings=self.dotnet.AntiMetadataAnalysis.has_max_len_exceeding_strings,
                )
                tests_performed = True
        except Exception as e:
            self.log.error(f"Error processing .NET tests for {self.hash.sha256}: {e}")
            self.dotnet_inconsistency_tests = None

        # self.export_to_elastic([self.dotnet_inconsistency_tests])

        # If no tests were performed, return False to skip database insertion
        if not tests_performed:
            self.log.info("No inconsistency tests were performed.")
            return False

        return True

    def prepare_export_data(self, exporter_type: str) -> Any:
        if exporter_type == "ElasticsearchExporter":
            return [self.pe_inconsistency_tests, self.dotnet_inconsistency_tests]
        elif exporter_type == "ClickHouseExporter":
            current_time = datetime.now(timezone.utc)

            # For PE tests: if no rich header (all True), store NULL instead
            has_rich_header = any([
                hasattr(self.pe_inconsistency_tests, 'test_rich_header_checksum'),
                hasattr(self.pe_inconsistency_tests, 'test_rich_header_duplicate'),
                hasattr(self.pe_inconsistency_tests, 'test_rich_header_linker'),
                hasattr(self.pe_inconsistency_tests, 'test_rich_header_import_count')
            ])
            
            pe_tests = [
                None if not has_rich_header else self.pe_inconsistency_tests.test_rich_header_checksum,
                None if not has_rich_header else self.pe_inconsistency_tests.test_rich_header_duplicate,
                None if not has_rich_header else self.pe_inconsistency_tests.test_rich_header_linker,
                None if not has_rich_header else self.pe_inconsistency_tests.test_rich_header_import_count,
            ]
            
            # For .NET tests: if not a .NET file, store NULL instead of False
            dotnet_tests = [
                self.dotnet_inconsistency_tests.test_dotnet_data_dir_hidden if self.dotnet_inconsistency_tests else None,
                self.dotnet_inconsistency_tests.test_dotnet_extra_data if self.dotnet_inconsistency_tests else None,
                self.dotnet_inconsistency_tests.test_dotnet_fake_types if self.dotnet_inconsistency_tests else None,
                self.dotnet_inconsistency_tests.test_dotnet_invalid_type_ref if self.dotnet_inconsistency_tests else None,
                self.dotnet_inconsistency_tests.test_dotnet_fake_datastreams if self.dotnet_inconsistency_tests else None,
                self.dotnet_inconsistency_tests.test_dotnet_extra_module_table if self.dotnet_inconsistency_tests else None,
                self.dotnet_inconsistency_tests.test_dotnet_extra_assembly_table if self.dotnet_inconsistency_tests else None,
                self.dotnet_inconsistency_tests.test_dotnet_invalid_strings_stream if self.dotnet_inconsistency_tests else None,
                self.dotnet_inconsistency_tests.test_dotnet_streams_mixed_case if self.dotnet_inconsistency_tests else None,
                self.dotnet_inconsistency_tests.test_dotnet_method_def_invalid_table if self.dotnet_inconsistency_tests else None,
                self.dotnet_inconsistency_tests.test_dotnet_max_len_exceeding_strings if self.dotnet_inconsistency_tests else None,
            ]
            
            data = [[
                self.sha256,
                self.md5,
                self.sha1,
                *pe_tests,
                *dotnet_tests,
                current_time
            ]]

            column_names = [
                'sha256', 'md5', 'sha1',
                'test_rich_header_checksum', 'test_rich_header_duplicate', 'test_rich_header_linker', 'test_rich_header_import_count',
                'test_dotnet_data_dir_hidden', 'test_dotnet_extra_data',
                'test_dotnet_fake_types', 'test_dotnet_invalid_type_ref',
                'test_dotnet_fake_datastreams', 'test_dotnet_extra_module_table',
                'test_dotnet_extra_assembly_table', 'test_dotnet_invalid_strings_stream',
                'test_dotnet_streams_mixed_case', 'test_dotnet_method_def_invalid_table',
                'test_dotnet_max_len_exceeding_strings', 'analysis_date'
            ]
            
            column_type_names = [
                'FixedString(64)', 'FixedString(32)', 'FixedString(40)',
                'Nullable(Boolean)', 'Nullable(Boolean)', 'Nullable(Boolean)', 'Nullable(Boolean)',
                'Nullable(Boolean)', 'Nullable(Boolean)', 'Nullable(Boolean)', 'Nullable(Boolean)',
                'Nullable(Boolean)', 'Nullable(Boolean)', 'Nullable(Boolean)', 'Nullable(Boolean)',
                'Nullable(Boolean)', 'Nullable(Boolean)', 'Nullable(Boolean)',
                'DateTime64(3, \'UTC\')'
            ]

            if not data:
                return None

            return (data, column_names, column_type_names)

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