Errors for Merging splits and profiling genes

[473021677]

Hi, I am trying to run inStrain profile, and the resulting files have been generated. However, some errors have occurred. It shows " Merging splits and profiling genes: 0%| | 0/7 [00:00<?, ?it/s] Merging splits and profiling genes: 14%|█▍ | 1/7 [04:11<25:08, 251.35s/it] Merging splits and profiling genes: 29%|██▊ | 2/7 [04:31<09:37, 115.45s/it] Merging splits and profiling genes: 43%|████▎ | 3/7 [05:05<05:12, 78.25s/it] Merging splits and profiling genes: 57%|█████▋ | 4/7 [05:13<02:30, 50.27s/it] Merging splits and profiling genes: 71%|███████▏ | 5/7 [07:53<02:59, 89.87s/it] Merging splits and profiling genes: 86%|████████▌ | 6/7 [08:03<01:02, 62.77s/it] Merging splits and profiling genes: 100%|██████████| 7/7 [10:44<00:00, 94.95s/it] Merging splits and profiling genes: 100%|██████████| 7/7 [10:44<00:00, 92.07s/it]Traceback (most recent call last): File "/share/home/linanh2/miniconda3/envs/instrain/lib/python3.8/multiprocessing/process.py", line 315, in _bootstrap self.run() File "/share/home/linanh2/miniconda3/envs/instrain/lib/python3.8/multiprocessing/process.py", line 108, in run self._target(*self._args, **self._kwargs) File "/share/home/linanh2/miniconda3/envs/instrain/lib/python3.8/multiprocessing/managers.py", line 616, in _run_server server.serve_forever() File "/share/home/linanh2/miniconda3/envs/instrain/lib/python3.8/multiprocessing/managers.py", line 182, in serve_forever sys.exit(0) SystemExit: 0

During handling of the above exception, another exception occurred:

Traceback (most recent call last): File "/share/home/linanh2/miniconda3/envs/instrain/lib/python3.8/multiprocessing/util.py", line 300, in _run_finalizers finalizer() File "/share/home/linanh2/miniconda3/envs/instrain/lib/python3.8/multiprocessing/util.py", line 224, in call res = self._callback(*self._args, **self._kwargs) File "/share/home/linanh2/miniconda3/envs/instrain/lib/python3.8/multiprocessing/util.py", line 133, in _remove_temp_dir rmtree(tempdir) File "/share/home/linanh2/miniconda3/envs/instrain/lib/python3.8/shutil.py", line 718, in rmtree _rmtree_safe_fd(fd, path, onerror) File "/share/home/linanh2/miniconda3/envs/instrain/lib/python3.8/shutil.py", line 675, in _rmtree_safe_fd onerror(os.unlink, fullname, sys.exc_info()) File "/share/home/linanh2/miniconda3/envs/instrain/lib/python3.8/shutil.py", line 673, in _rmtree_safe_fd os.unlink(entry.name, dir_fd=topfd) OSError: [Errno 16] Device or resource busy: '.nfs0000002c008adb7900000f24' " in the nohup.out.txt file. I do not know what is wrong and am not sure if these errors influence the results. I need your help. I have appended the nohup.out.txt file, the log file and the resulting files. Thanks.

Best regards log.log nohup.out.txt j9_fl_Sixteen_guangdong_coastal_planktonic_micro_reps.IS_gene_info.txt j9_fl_Sixteen_guangdong_coastal_planktonic_micro_reps.IS_genome_info.txt j9_fl_Sixteen_guangdong_coastal_planktonic_micro_reps.IS_mapping_info.txt j9_fl_Sixteen_guangdong_coastal_planktonic_micro_reps.IS_scaffold_info.txt

[MrOlm]

Hi @473021677 -

Weird. This error seems to be caused by some sort of multiprocessing problem with your filesystem.

The problem seems to be just related to shutting down the multiprocessing after all the real work was finished. Thus, the run seems to have completed successfully with valid results.

Best, Matt

[473021677]

Thanks for your help.