BUSCO5.3.2 conda error running
2022-04-12 17:18:37 DEBUG:busco.run_BUSCO Command line: /home/.conda/envs/BUSCO/bin/busco -m geno -i /home/busco/TM_hap1F.fasta -l eudicots_odb10 -o TM_hap1F_eudi
2022-04-12 17:18:37 INFO:busco.run_BUSCO ***** Start a BUSCO v5.3.2 analysis, current time: 04/12/2022 17:18:37 ****
2022-04-12 17:18:37 DEBUG:busco.ConfigManager Getting config file
2022-04-12 17:18:37 INFO:busco.ConfigManager Configuring BUSCO with local environment
2022-04-12 17:18:37 INFO:busco.BuscoConfig Mode is genome
2022-04-12 17:18:37 INFO:busco.BuscoDownloadManager Downloading information on latest versions of BUSCO data...
2022-04-12 17:18:38 DEBUG:busco.BuscoConfig State of BUSCO config before run:
2022-04-12 17:18:38 DEBUG:busco.BuscoConfig {'_allow_no_value': False,
'_comment_prefixes': ('#', ';'),
'_converters': <configparser.ConverterMapping object at 0x14ef7e709e80>,
'_defaults': {},
'_delimiters': ('=', ':'),
'_dict': <class 'dict'>,
'_empty_lines_in_values': True,
'_inline_comment_prefixes': (),
'_input_filepath': '/home/busco/TM_hap1F.fasta',
'_interpolation': <configparser.BasicInterpolation object at 0x14efbd514670>,
'_mode': 'genome',
'_optcre': re.compile('\n (?P.?) # very permissive!\n \s(?P=|:)\s # any number of space/tab,\n \ # followed by any of t, re.VERBOSE),
'_proxies': {'DEFAULT': <Section: DEFAULT>,
'augustus': <Section: augustus>,
'busco_run': <Section: busco_run>,
'etraining': <Section: etraining>,
'gff2gbSmallDNA.pl': <Section: gff2gbSmallDNA.pl>,
'hmmsearch': <Section: hmmsearch>,
'makeblastdb': <Section: makeblastdb>,
'metaeuk': <Section: metaeuk>,
'new_species.pl': <Section: new_species.pl>,
'optimize_augustus.pl': <Section: optimize_augustus.pl>,
'prodigal': <Section: prodigal>,
'sepp': <Section: sepp>,
'tblastn': <Section: tblastn>},
'_sections': {'augustus': {'command': '', 'path': ''},
'busco_run': {'auto-lineage': 'False',
'auto-lineage-euk': 'False',
'auto-lineage-prok': 'False',
'batch_mode': 'False',
'cpu': '1',
'datasets_version': 'odb10',
'download_base_url': 'https://busco-data.ezlab.org/v5/data/',
'download_path': '/home/busco/busco_downloads',
'evalue': '0.001',
'force': 'False',
'in': '/home/busco/TM_hap1F.fasta',
'limit': '3',
'lineage_dataset': 'eudicots_odb10',
'long': 'False',
'main_out': '/home/busco/TM_hap1F_eudi',
'mode': 'genome',
'offline': 'False',
'out': 'TM_hap1F_eudi',
'out_path': '/home/busco',
'quiet': 'False',
'restart': 'False',
'tar': 'False',
'update-data': 'False',
'use_augustus': 'False'},
'etraining': {'command': '', 'path': ''},
'gff2gbSmallDNA.pl': {'command': '', 'path': ''},
'hmmsearch': {'command': '', 'path': ''},
'makeblastdb': {'command': '', 'path': ''},
'metaeuk': {'command': '', 'path': ''},
'new_species.pl': {'command': '', 'path': ''},
'optimize_augustus.pl': {'command': '', 'path': ''},
'prodigal': {'command': '', 'path': ''},
'sepp': {'command': '', 'path': ''},
'tblastn': {'command': '', 'path': ''}},
'_strict': True,
'conf_file': 'local environment',
'default_section': 'DEFAULT',
'downloader': <busco.BuscoDownloadManager.BuscoDownloadManager object at 0x14efbe68df10>,
'main_out': '/home/busco/TM_hap1F_eudi',
'params': {'augustus_parameters': None,
'augustus_species': None,
'auto-lineage': False,
'auto-lineage-euk': False,
'auto-lineage-prok': False,
'config_file': None,
'cpu': None,
'datasets_version': None,
'download': '==SUPPRESS==',
'download_base_url': None,
'download_path': None,
'evalue': None,
'force': False,
'help': '==SUPPRESS==',
'in': '/home/busco/TM_hap1F.fasta',
'limit': None,
'lineage_dataset': 'eudicots_odb10',
'list_datasets': '==SUPPRESS==',
'long': False,
'metaeuk_parameters': None,
'metaeuk_rerun_parameters': None,
'mode': 'geno',
'offline': False,
'out': 'TM_hap1F_eudi',
'out_path': None,
'quiet': False,
'restart': False,
'tar': False,
'update-data': False,
'use_augustus': False,
'version': '==SUPPRESS=='}}
2022-04-12 17:18:38 INFO:busco.BuscoRunner Input file is /home/busco/TM_hap1F.fasta
2022-04-12 17:18:38 INFO:busco.BuscoDownloadManager Downloading file 'https://busco-data.ezlab.org/v5/data/lineages/eudicots_odb10.2020-09-10.tar.gz'
2022-04-12 17:18:53 DEBUG:busco.BuscoDownloadManager md5 hash is 08752dd1cbed6ae1dbcde78b49c8ea2f
2022-04-12 17:18:53 INFO:busco.BuscoDownloadManager Decompressing file '/home/busco/busco_downloads/lineages/eudicots_odb10.tar.gz'
2022-04-12 17:19:26 DEBUG:busco.analysis.BuscoAnalysis Check all required tools are accessible...
2022-04-12 17:19:26 CRITICAL:busco.BuscoRunner Unhandled exception occurred:
Traceback (most recent call last):
File "/home/.conda/envs/BUSCO/lib/python3.9/site-packages/busco/BuscoRunner.py", line 420, in run_analysis
self.analysis.run_analysis()
File "/home/.conda/envs/BUSCO/lib/python3.9/site-packages/busco/analysis/GenomeAnalysis.py", line 364, in run_analysis
super().run_analysis()
File "/home/.conda/envs/BUSCO/lib/python3.9/site-packages/busco/analysis/GenomeAnalysis.py", line 152, in run_analysis
super().run_analysis()
File "/home/.conda/envs/BUSCO/lib/python3.9/site-packages/busco/analysis/GenomeAnalysis.py", line 48, in run_analysis
super().run_analysis()
File "/home/.conda/envs/BUSCO/lib/python3.9/site-packages/busco/BuscoLogger.py", line 58, in wrapped_func
self.retval = func(*args, **kwargs)
File "/home/.conda/envs/BUSCO/lib/python3.9/site-packages/busco/analysis/BuscoAnalysis.py", line 99, in run_analysis
self.init_tools()
File "/home/.conda/envs/BUSCO/lib/python3.9/site-packages/busco/analysis/GenomeAnalysis.py", line 354, in init_tools
super().init_tools()
File "/home/.conda/envs/BUSCO/lib/python3.9/site-packages/busco/analysis/GenomeAnalysis.py", line 143, in init_tools
super().init_tools()
File "/home/.conda/envs/BUSCO/lib/python3.9/site-packages/busco/analysis/GenomeAnalysis.py", line 55, in init_tools
super().init_tools()
File "/home/.conda/envs/BUSCO/lib/python3.9/site-packages/busco/analysis/Analysis.py", line 48, in init_tools
super().init_tools()
File "/home/.conda/envs/BUSCO/lib/python3.9/site-packages/busco/BuscoLogger.py", line 62, in wrapped_func
self.retval = func(*args, **kwargs)
File "/home/.conda/envs/BUSCO/lib/python3.9/site-packages/busco/analysis/BuscoAnalysis.py", line 286, in init_tools
self.hmmer_runner = HMMERRunner()
File "/home/.conda/envs/BUSCO/lib/python3.9/site-packages/busco/busco_tools/hmmer.py", line 25, in init
super().init()
File "/home/.conda/envs/BUSCO/lib/python3.9/site-packages/busco/busco_tools/base.py", line 55, in init
self.check_tool_dependencies()
File "/home/.conda/envs/BUSCO/lib/python3.9/site-packages/busco/busco_tools/hmmer.py", line 233, in check_tool_dependencies
if not self.version >= BuscoConfig.HMMER_VERSION:
TypeError: '>=' not supported between instances of 'str' and 'float'\
During handling of the above exception, another exception occurred:\
Traceback (most recent call last):
File "/home/.conda/envs/BUSCO/lib/python3.9/site-packages/busco/BuscoRunner.py", line 138, in run
self.runner.run_analysis()
File "/home/.conda/envs/BUSCO/lib/python3.9/site-packages/busco/BuscoRunner.py", line 462, in run_analysis
self.save_results()
File "/home/.conda/envs/BUSCO/lib/python3.9/site-packages/busco/BuscoRunner.py", line 360, in save_results
] = self.analysis.hmmer_runner.hmmer_results_lines
AttributeError: 'NoneType' object has no attribute 'hmmer_results_lines'\
2022-04-12 17:19:26 ERROR:busco.BuscoRunner BUSCO analysis failed !
2022-04-12 17:19:26 ERROR:busco.BuscoRunner Check the logs, read the user guide (https://busco.ezlab.org/busco_userguide.html), and check the BUSCO issue board on https://gitlab.com/ezlab/busco/issues