SPAdes 3.15.5 ERROR in MacOS Monterey: == Error == exception caught: <class 'FileNotFoundError'>

[YuLanSky]

Description of bug

This is an issue that only occurs in SPAdes 3.15.5, if I use SPAdes 3.15.4, this problem goes away. It is just a very common assembly work of Enterobacteriaceae bacterial WNGS data. The command line reads something like:

spades.py -1 file_1.fq -2 file_2.fq --isolate -o merge 

I seem to be able to get the contig.fasta file I want, but the program ends up reporting the following bug:

[Errno 2] No such file or directory: '._config.info'
Traceback (most recent call last):
  File "/Users/chuchuli/opt/SPAdes-3.15.5-Darwin/bin/spades.py", line 634, in main
    executor.execute(commands)
  File "/Users/chuchuli/opt/SPAdes-3.15.5-Darwin/share/spades/spades_pipeline/executors/executor_local.py", line 39, in execute
    self.rm_files(command)
  File "/Users/chuchuli/opt/SPAdes-3.15.5-Darwin/share/spades/spades_pipeline/executors/executor_local.py", line 62, in rm_files
    shutil.rmtree(fpath_abs)
  File "/Users/chuchuli/miniconda3/lib/python3.10/shutil.py", line 724, in rmtree
    _rmtree_safe_fd(fd, path, onerror)
  File "/Users/chuchuli/miniconda3/lib/python3.10/shutil.py", line 657, in _rmtree_safe_fd
    _rmtree_safe_fd(dirfd, fullname, onerror)
  File "/Users/chuchuli/miniconda3/lib/python3.10/shutil.py", line 680, in _rmtree_safe_fd
    onerror(os.unlink, fullname, sys.exc_info())
  File "/Users/chuchuli/miniconda3/lib/python3.10/shutil.py", line 678, in _rmtree_safe_fd
    os.unlink(entry.name, dir_fd=topfd)
FileNotFoundError: [Errno 2] No such file or directory: '._config.info'

This bug only caused my ‘xargs’ function not run properly to the next one, no other effects have been found yet. Finally, I have to say that the software you guys made is really awesome!

spades.log

spades.log

params.txt

params.txt

SPAdes version

SPAdes 3.15.5

Operating System

macOS Monterey 12.6.6

Python Version

Python 3.11.0

Method of SPAdes installation

manual

No errors reported in spades.log

• [X] Yes