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Structured data loader CLI
This commit is contained in:
Cyber MacGeddon
parent
c6cc8328db
commit
dc5b1002b4
1 changed files with 331 additions and 5 deletions
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@ -501,14 +501,340 @@ def load_structured_data(
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if not descriptor_file:
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# Auto-generate descriptor if not provided
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logger.info("No descriptor provided, auto-generating...")
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# TODO: Generate descriptor
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print(f"Would auto-generate descriptor from {input_file}")
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logger.info(f"Schema name: {schema_name}")
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# Read sample data for descriptor generation
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try:
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with open(input_file, 'r', encoding='utf-8') as f:
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sample_data = f.read(sample_chars)
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logger.info(f"Read {len(sample_data)} characters for descriptor generation")
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except Exception as e:
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logger.error(f"Failed to read input file for descriptor generation: {e}")
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raise
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# Generate descriptor using TrustGraph prompt service
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try:
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from trustgraph.api import Api
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from trustgraph.api.types import ConfigKey
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api = Api(api_url)
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config_api = api.config()
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# Get available schemas
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logger.info("Fetching available schemas for descriptor generation...")
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schema_keys = config_api.list("schema")
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logger.info(f"Found {len(schema_keys)} schemas: {schema_keys}")
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if not schema_keys:
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logger.warning("No schemas found in configuration")
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print("No schemas available in TrustGraph configuration")
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return
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# Fetch each schema definition
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schemas = []
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config_keys = [ConfigKey(type="schema", key=key) for key in schema_keys]
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schema_values = config_api.get(config_keys)
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for value in schema_values:
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try:
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schema_def = json.loads(value.value) if isinstance(value.value, str) else value.value
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schemas.append(schema_def)
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logger.debug(f"Loaded schema: {value.key}")
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except json.JSONDecodeError as e:
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logger.warning(f"Failed to parse schema {value.key}: {e}")
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continue
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logger.info(f"Successfully loaded {len(schemas)} schema definitions")
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# Generate descriptor using diagnose-structured-data prompt
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flow_api = api.flow().id("default")
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logger.info("Calling TrustGraph diagnose-structured-data prompt for descriptor generation...")
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response = flow_api.prompt(
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id="diagnose-structured-data",
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variables={
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"schemas": schemas,
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"sample": sample_data
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}
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)
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# Parse the generated descriptor
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if isinstance(response, str):
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try:
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descriptor = json.loads(response)
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except json.JSONDecodeError:
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logger.error("Generated descriptor is not valid JSON")
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raise ValueError("Failed to generate valid descriptor")
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else:
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descriptor = response
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# Override schema_name if provided
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if schema_name:
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descriptor.setdefault('output', {})['schema_name'] = schema_name
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logger.info("Successfully generated descriptor from data sample")
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except ImportError as e:
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logger.error(f"Failed to import TrustGraph API: {e}")
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raise
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except Exception as e:
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logger.error(f"Failed to generate descriptor: {e}")
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raise
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else:
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# Load existing descriptor
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try:
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with open(descriptor_file, 'r', encoding='utf-8') as f:
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descriptor = json.load(f)
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logger.info(f"Loaded descriptor configuration from {descriptor_file}")
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except Exception as e:
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logger.error(f"Failed to load descriptor file: {e}")
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raise
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logger.info(f"Processing {input_file} for import...")
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# TODO: Implement full pipeline
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print(f"Would process and import data from {input_file}")
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# Parse data using the same logic as parse-only mode, but with full dataset
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try:
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format_info = descriptor.get('format', {})
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format_type = format_info.get('type', 'csv').lower()
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encoding = format_info.get('encoding', 'utf-8')
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logger.info(f"Input format: {format_type}, encoding: {encoding}")
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with open(input_file, 'r', encoding=encoding) as f:
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raw_data = f.read()
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logger.info(f"Read {len(raw_data)} characters from input file")
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except Exception as e:
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logger.error(f"Failed to read input file: {e}")
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raise
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# Parse data (reuse parse-only logic but process all records)
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parsed_records = []
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batch_size = descriptor.get('output', {}).get('options', {}).get('batch_size', 1000)
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if format_type == 'csv':
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import csv
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from io import StringIO
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options = format_info.get('options', {})
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delimiter = options.get('delimiter', ',')
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has_header = options.get('has_header', True) or options.get('header', True)
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logger.info(f"CSV options - delimiter: '{delimiter}', has_header: {has_header}")
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try:
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reader = csv.DictReader(StringIO(raw_data), delimiter=delimiter)
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if not has_header:
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first_row = next(reader)
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fieldnames = [f"field_{i+1}" for i in range(len(first_row))]
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reader = csv.DictReader(StringIO(raw_data), fieldnames=fieldnames, delimiter=delimiter)
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record_count = 0
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for row in reader:
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parsed_records.append(row)
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record_count += 1
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# Process in batches to avoid memory issues
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if record_count % batch_size == 0:
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logger.info(f"Parsed {record_count} records...")
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except Exception as e:
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logger.error(f"Failed to parse CSV data: {e}")
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raise
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elif format_type == 'json':
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try:
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data = json.loads(raw_data)
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if isinstance(data, list):
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parsed_records = data
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elif isinstance(data, dict):
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root_path = format_info.get('options', {}).get('root_path')
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if root_path:
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if root_path.startswith('$.'):
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key = root_path[2:]
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data = data.get(key, data)
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if isinstance(data, list):
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parsed_records = data
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else:
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parsed_records = [data]
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except Exception as e:
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logger.error(f"Failed to parse JSON data: {e}")
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raise
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elif format_type == 'xml':
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import xml.etree.ElementTree as ET
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options = format_info.get('options', {})
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record_path = options.get('record_path', '//record')
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field_attribute = options.get('field_attribute')
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# Legacy support for old options format
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if 'root_element' in options or 'record_element' in options:
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root_element = options.get('root_element')
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record_element = options.get('record_element', 'record')
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if root_element:
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record_path = f"//{root_element}/{record_element}"
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else:
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record_path = f"//{record_element}"
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logger.info(f"XML options - record_path: '{record_path}', field_attribute: '{field_attribute}'")
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try:
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root = ET.fromstring(raw_data)
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# Find record elements using XPath
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xpath_expr = record_path
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if xpath_expr.startswith('/ROOT/'):
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xpath_expr = xpath_expr[6:]
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elif xpath_expr.startswith('/'):
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xpath_expr = '.' + xpath_expr
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records = root.findall(xpath_expr)
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logger.info(f"Found {len(records)} records using XPath: {record_path} (converted to: {xpath_expr})")
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# Convert XML elements to dictionaries
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for element in records:
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record = {}
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if field_attribute:
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# Handle field elements with name attributes (UN data format)
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for child in element:
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if child.tag == 'field' and field_attribute in child.attrib:
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field_name = child.attrib[field_attribute]
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field_value = child.text.strip() if child.text else ""
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record[field_name] = field_value
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else:
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# Handle standard XML structure
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record.update(element.attrib)
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for child in element:
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if child.text:
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record[child.tag] = child.text.strip()
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else:
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record[child.tag] = ""
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if not record and element.text:
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record['value'] = element.text.strip()
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parsed_records.append(record)
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except ET.ParseError as e:
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logger.error(f"Failed to parse XML data: {e}")
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raise
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except Exception as e:
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logger.error(f"Failed to process XML data: {e}")
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raise
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else:
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raise ValueError(f"Unsupported format type: {format_type}")
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logger.info(f"Successfully parsed {len(parsed_records)} records")
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# Apply transformations and create TrustGraph objects
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mappings = descriptor.get('mappings', [])
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processed_records = []
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schema_name = descriptor.get('output', {}).get('schema_name', 'default')
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confidence = descriptor.get('output', {}).get('options', {}).get('confidence', 0.9)
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logger.info(f"Applying {len(mappings)} field mappings...")
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for record_num, record in enumerate(parsed_records, start=1):
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processed_record = {}
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for mapping in mappings:
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source_field = mapping.get('source_field') or mapping.get('source')
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target_field = mapping.get('target_field') or mapping.get('target')
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if source_field in record:
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value = record[source_field]
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# Apply transforms
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transforms = mapping.get('transforms', [])
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for transform in transforms:
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transform_type = transform.get('type')
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if transform_type == 'trim' and isinstance(value, str):
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value = value.strip()
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elif transform_type == 'upper' and isinstance(value, str):
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value = value.upper()
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elif transform_type == 'lower' and isinstance(value, str):
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value = value.lower()
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elif transform_type == 'title_case' and isinstance(value, str):
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value = value.title()
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elif transform_type == 'to_int':
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try:
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value = int(value) if value != '' else None
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except (ValueError, TypeError):
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logger.warning(f"Failed to convert '{value}' to int in record {record_num}")
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elif transform_type == 'to_float':
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try:
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value = float(value) if value != '' else None
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except (ValueError, TypeError):
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logger.warning(f"Failed to convert '{value}' to float in record {record_num}")
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processed_record[target_field] = value
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else:
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logger.warning(f"Source field '{source_field}' not found in record {record_num}")
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# Create TrustGraph ExtractedObject
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output_record = {
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"metadata": {
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"id": f"import-{record_num}",
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"metadata": [],
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"user": "trustgraph",
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"collection": "default"
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},
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"schema_name": schema_name,
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"values": processed_record,
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"confidence": confidence,
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"source_span": ""
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}
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processed_records.append(output_record)
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logger.info(f"Processed {len(processed_records)} records with transformations")
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if dry_run:
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print("Dry run mode - no data will be imported")
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print(f"Dry run mode - would import {len(processed_records)} records to TrustGraph")
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print(f"Target schema: {schema_name}")
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print(f"Sample record:")
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if processed_records:
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print(json.dumps(processed_records[0], indent=2))
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return
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# Import to TrustGraph using objects dispatcher
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logger.info(f"Importing {len(processed_records)} records to TrustGraph...")
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try:
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import trustgraph.publish.writer as writer
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# Initialize the objects writer
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objects_writer = writer.Writer(api_url, "objects")
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# Send records in batches
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imported_count = 0
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for i in range(0, len(processed_records), batch_size):
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batch = processed_records[i:i + batch_size]
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for record in batch:
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objects_writer.write(record)
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imported_count += 1
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logger.info(f"Imported {imported_count}/{len(processed_records)} records...")
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logger.info(f"Successfully imported {imported_count} records to TrustGraph")
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print(f"Import completed: {imported_count} records imported to schema '{schema_name}'")
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except ImportError as e:
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logger.error(f"Failed to import TrustGraph writer: {e}")
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print(f"Error: TrustGraph writer not available - {e}")
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raise
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except Exception as e:
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logger.error(f"Failed to import data to TrustGraph: {e}")
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print(f"Import failed: {e}")
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raise
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def main():
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