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file_re

file_re is a Python library written in Rust aimed at providing robust and efficient regular expression operations on large files, including compressed files such as .gz and .xz. The goal of this library is to handle huge files in the order of gigabytes (GB) seamlessly.

Features

  • Fast and efficient: Utilizes Rust for performance improvements.
  • Supports Large Files: Capable of parsing files in gigabytes.
  • Compressed Files: Supports reading and searching within .gz and .xz compressed files.
  • Flexible: Similar interface to Python's built-in re module.
  • Memory Efficient: Multiple modes for handling multi-line patterns without excessive memory usage.

Usage

Basic Usage

from file_re import file_re
from pathlib import Path

# Define the path to the file
file_path = Path('path/to/your/big_file.txt')

# Search for a specific pattern
match = file_re.search(r"(\d{3})-(\d{3})-(\d{4})", file_path)

# Mimic the behavior of Python's re.search
print("Full match:", match.group(0))
print("Group 1:", match.group(1))
print("Group 2:", match.group(2))
print("Group 3:", match.group(3))

match = file_re.search(r"(?P<username>[\w\.-]+)@(?P<domain>[\w]+)\.\w+", file_path)

# Mimic the behavior of Python's re.search with named groups
print("Full match:", match.group(0))
print("Username:", match.group("username"))
print("Domain:", match.group("domain"))

# Find all matches
matches = file_re.findall(r"(\d{3})-(\d{3})-(\d{4})", file_path)
print(matches)

Compressed Files

# You can read directly from compressed files
file_path = Path('path/to/your/big_file.txt.gz')
matches = file_re.findall(r"(\d{3})-(\d{3})-(\d{4})", file_path)

Multi-line Patterns

Using multiline=True (loads entire file into memory)

# For regex that requires multiple lines - loads entire file
matches = file_re.search(r"<body>[\s\S]+</body>", file_path, multiline=True)
print(matches.group(0))

Using num_lines (memory-efficient sliding window)

# Memory-efficient multi-line matching using sliding window
match = file_re.search(r"hi\nword", file_path, num_lines=2)
print(match.group(0))

# For patterns that can span multiple lines with longest match
# This will find the longest sequence of repeated "hi\n" patterns
match = file_re.search(r"(hi\n)+", file_path, num_lines=3)
print(match.group(0))

# Works with capturing groups and named groups
match = file_re.search(r"(?P<greeting>hi)\n(?P<noun>word)", file_path, num_lines=2)
print("Greeting:", match.group("greeting"))
print("Noun:", match.group("noun"))

# Also works with findall
matches = file_re.findall(r"hi\nworld", file_path, num_lines=2)
print(matches)

Modes of Operation

1. Single Line Mode (Default)

  • Memory Usage: Very low - processes one line at a time
  • Use Case: Patterns that don't span multiple lines
  • Performance: Fastest for single-line patterns
match = file_re.search(r"\d+", file_path)  # Default mode

2. Multi-line Mode (multiline=True)

  • Memory Usage: High - loads entire file into RAM
  • Use Case: Complex patterns that need the entire file context
  • Performance: Fast regex operations, but high memory cost
match = file_re.search(r"pattern.*\n.*pattern", file_path, multiline=True)

3. Sliding Window Mode (num_lines=N)

  • Memory Usage: Low - maintains only N lines in memory
  • Use Case: Multi-line patterns with limited line span
  • Performance: Memory efficient with good performance
  • Behavior: Uses a FIFO buffer of N lines, finds longest possible matches
match = file_re.search(r"pattern\npattern", file_path, num_lines=2)

Algorithm Details for num_lines

The num_lines feature implements a sliding window algorithm:

  1. Buffer Management: Maintains a FIFO buffer of exactly num_lines lines
  2. Pattern Matching: Applies regex to the current buffer content on each line read
  3. Longest Match: When a match is found, continues reading num_lines additional lines to find the longest possible match
  4. Memory Efficiency: Never loads more than num_lines into memory at once

Example Behavior

Given a file:

word
word  
word
hi
hi
hi
hi

And regex r"(hi\n?)+" with num_lines=3:

  1. When first "hi" is encountered, a match is found
  2. Algorithm continues for 2 more lines (num_lines)
  3. Returns the longest match: "hi\nhi\nhi"

Limitations

  1. Default Line-by-Line Processing:

    • Memory Efficiency: By default, file_re reads files line by line and applies the regular expression to each line individually. This approach is memory efficient as it avoids loading the entire file into RAM.
    • Pattern Constraints: This mode may not work effectively for regex patterns that span across multiple lines.

  2. Multiline Mode:

    • Full File Loading: When the multiline mode is enabled, the entire file is loaded into RAM to perform the regex operation. This is necessary for regex patterns that require matching across multiple lines.
    • Increased RAM Usage: Loading large files (in gigabytes) into RAM can lead to significant memory consumption. This may not be suitable for systems with limited memory.
    • Performance Trade-offs: While enabling multiline mode can result in faster findall operations for certain patterns, it comes at the cost of higher memory usage.

  3. Sliding Window Mode (num_lines):

    • Pattern Span Limit: Patterns cannot span more than num_lines lines
    • Match Context: Only finds matches within the sliding window context
    • Overlapping Patterns: May find overlapping matches due to the sliding nature

  4. Limited Flag Support:

    • Flag Limitations: Currently, flags such as re.IGNORECASE or re.MULTILINE are not supported as function parameters (though inline flags like (?i) work)
    • Future Enhancements: Support for these flags is planned for future releases, which will enhance the flexibility and usability of the library.

  5. Parameter Conflicts:

    • Exclusive Options: Cannot use multiline=True and num_lines together
    • Validation: num_lines must be greater than 0

Performance Recommendations

  • Small patterns within single lines: Use default mode
  • Large files with multi-line patterns (≤ N lines): Use num_lines=N
  • Complex patterns requiring full file context: Use multiline=True (if you have sufficient RAM)
  • Compressed files: All modes support .gz and .xz files transparently

Users are encouraged to assess their specific needs and system capabilities when using file_re, especially when working with extremely large files or complex multiline regex patterns.

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2.0.1

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