SearchToolkit v1.3

Date 📅 2025_01

Changes in detail

• 'mz_extractor': Change ProcessPoolExecutor to ThreadPoolExecutor.

Difference Between ThreadPoolExecutor and ProcessPoolExecutor

The primary difference between ThreadPoolExecutor and ProcessPoolExecutor lies in how they handle parallelism and resource sharing.

Key Differences

Feature	ThreadPoolExecutor	ProcessPoolExecutor
Concurrency Model	Threads (same memory space)	Processes (separate memory spaces)
Best for	I/O-bound tasks (e.g., file I/O, network calls)	CPU-bound tasks (e.g., number crunching, heavy computations)
Memory Sharing	Threads share memory (no need for IPC)	Processes do not share memory (requires IPC)
Overhead	Lower overhead (less memory, faster startup)	Higher overhead (more memory usage, slower startup)
Global Interpreter Lock (GIL)	GIL can be a limiting factor in multi-threading	No GIL restrictions (each process has its own Python interpreter)
Synchronization Issues	Needs careful synchronization to avoid race conditions	No shared memory, so no race conditions (but IPC is needed)

Full Changelog: 1.2...1.3

SearchToolkit v1.2

DATE: 2024_12

Changes in detail

• Update the needed columns for MSFragger detection

Full Changelog: 1.1...1.2

SearchToolkit v1.1

DATE: 2024_11

Highlights

• Search Adaptation: Added a module that inserts the ScanID into search engine results.

Changes

• Created a 'SearchToolkit' repository to house the 'mz_extractor' program and other tools that adapt search engine results.

Full Changelog: v1.0...1.1

mz_extractor v1.0

Add the intensities into identification file from the mzML reporting the ion isotopic distribution.

Fixing a bug in the mz extraction for experiments with high resolution (greater than 30K), in the Quant package.

Full Changelog: https://github.com/CNIC-Proteomics/mz_extractor/commits/v1.0