python error during augustus phase
I am having difficulty completing the Augustus phase of a genome run. After a certain point the run crashes. I think it has something to do with the amount of resources available on my work station. The error message is posted below. Any suggestions about how to possibly overcome this issue would be appreciated.
Thanks,
John Martinson
DEBUG augustus thread nb 667 has started DEBUG ['/data/progs/augustus-3.2.2/bin/augustus', '--codingseq=1', '--proteinprofile=/data/progs/busco/references/actinopterygii_odb9/prfl/EOG090C01B9.prfl', '--predictionStart=23667 ', '--predictionEnd=74893 ', '--species=fathead2_2', './busco_tmp/scaffold3072busco_canu15_defMod_genome_722467835_.temp'] DEBUG ['/data/progs/augustus-3.2.2/bin/augustus', '--codingseq=1', '--proteinprofile=/data/progs/busco/references/actinopterygii_odb9/prfl/EOG090C01BA.prfl', '--predictionStart=939794 ', '--predictionEnd=1068711 ', '--species=fathead2_2', './busco_tmp/scaffold21busco_canu15_defMod_genome_722467835_.temp'] CRITICAL Unhandled exception occurred: ['Traceback (most recent call last):\n', ' File "/data/progs/busco/scripts/run_BUSCO.py", line 169, in main\n analysis.run_analysis()\n', ' File "/data/progs/Python361/lib/python3.6/site-packages/busco/GenomeAnalysis.py", line 93, in run_analysis\n self._run_augustus()\n', ' File "/data/progs/Python361/lib/python3.6/site-packages/busco/GenomeAnalysis.py", line 600, in _run_augustus\n self._augustus.run_jobs(self._cpus)\n', ' File "/data/progs/Python361/lib/python3.6/site-packages/pipebricks/Toolset.py", line 201, in run_jobs\n j.start()\n', ' File "/data/progs/Python361/Lib/threading.py", line 846, in start\n _start_new_thread(self._bootstrap, ())\n', "RuntimeError: can't start new thread\n"]
ERROR BUSCO analysis failed ! ERROR Check the logs, read the user guide, if you still need technical support, then please contact mailto:support@orthodb.org
Exception in thread Thread-671: Traceback (most recent call last): File "/data/progs/Python361/Lib/threading.py", line 916, in _bootstrap_inner self.run() File "/data/progs/Python361/lib/python3.6/site-packages/pipebricks/Toolset.py", line 64, in run process = subprocess.Popen(self.cmd_line, shell=False, stderr=self.stderr, stdout=self.stdout) File "/data/progs/Python361/Lib/subprocess.py", line 709, in init restore_signals, start_new_session) File "/data/progs/Python361/Lib/subprocess.py", line 1262, in _execute_child restore_signals, start_new_session, preexec_fn) BlockingIOError: [Errno 11] Resource temporarily unavailable