Merge pull request #51 from SwiftSeal/spawn

force to spawn

Author: SwiftSeal

README.md

@@ -38,7 +38,7 @@ To use these with - for example - `singularity`, simply run:
 If you are having issues with `conda`, you can instead try installing directly from the repository:
 
 ```sh
-pip install https://github.com/SwiftSeal/resistify/archive/refs/tags/v1.1.4.tar.gz
+pip install https://github.com/SwiftSeal/resistify/archive/refs/tags/v1.1.5.tar.gz
 ```
 
 Note that `resistify` requires `hmmer` to be installed and available in your system's PATH, which will not be installed automatically when using `pip`.

pyproject.toml

@@ -4,7 +4,7 @@ build-backend = "hatchling.build"
 
 [project]
 name = "resistify"
-version = "1.1.4"
+version = "1.1.5"
 dependencies = [
   "scikit-learn>=0.24.2",
   "numpy",

resistify/__version__.py

@@ -1 +1 @@
-__version__ = "1.1.4"
+__version__ = "1.1.5"

resistify/nlrexpress.py

@@ -4,7 +4,7 @@
 import pickle
 import os
 import tempfile
-from multiprocessing import cpu_count
+from multiprocessing import cpu_count, get_context
 import concurrent.futures
 from threadpoolctl import threadpool_limits
 import shutil
@@ -152,7 +152,7 @@ def nlrexpress(sequences, search_type, chunk_size, threads):
     progress_logger = ProgressLogger(len(batches))
     results = []
     with concurrent.futures.ProcessPoolExecutor(
-        max_workers=-(-threads // 2)
+        max_workers=-(-threads // 2), mp_context=get_context("spawn")
     ) as executor:
         futures = [
             executor.submit(nlrexpress_subprocess, (batch, jackhmmer_db.name, models))