Cannot download lineage datasets
Hello, I'm having trouble downloading the lineage datasets manually from the BUSCO homepage (https://busco.ezlab.org/busco_v4_data.html) When I try to download a particular lineage data (e.g., metazoa_odb10), this is the error I get from the page:
This page isn’t workingbusco-data.ezlab.org didn’t send any data.
ERR_EMPTY_RESPONSE
For some reason, running busco at the command line does not result in automatic download of the desired datasets - see below:
INFO: ***** Start a BUSCO v4.0.5 analysis, current time: 07/15/2020 16:19:10 *****
INFO: Configuring BUSCO with /gne/data/dnaseq/analysis/suryamok/GenomeAssemblyResults/Python_dataForReAnnotation/myconfig.ini
INFO: Mode is proteins
INFO: 'Force' option selected; overwriting previous results directory
INFO: Input file is annotation_check/genes_by_aed/snap1.proteins.aed.0.6.fasta
INFO: Downloading information on latest versions of BUSCO data...
CRITICAL: Unhandled exception occurred:
Traceback (most recent call last):
File "/gstore/home/suryamok/.local/lib/python3.6/site-packages/busco/run_BUSCO.py", line 171, in run_BUSCO
config_manager.load_busco_config(sys.argv)
File "/gstore/home/suryamok/.local/lib/python3.6/site-packages/busco/BuscoLogger.py", line 55, in wrapped_func
self.retval = func(*args, **kwargs)
File "/gstore/home/suryamok/.local/lib/python3.6/site-packages/busco/ConfigManager.py", line 46, in load_busco_config
self.config.validate()
File "/gstore/home/suryamok/.local/lib/python3.6/site-packages/busco/BuscoConfig.py", line 243, in validate
self._init_downloader()
File "/gstore/home/suryamok/.local/lib/python3.6/site-packages/busco/BuscoConfig.py", line 49, in _init_downloader
self.downloader = BuscoDownloadManager(self)
File "/gstore/home/suryamok/.local/lib/python3.6/site-packages/busco/BuscoDownloadManager.py", line 49, in __init__
self._load_versions()
File "/gstore/home/suryamok/.local/lib/python3.6/site-packages/busco/BuscoDownloadManager.py", line 58, in _load_versions
with open(versions_file, "r") as v_file:
FileNotFoundError: [Errno 2] No such file or directory: '/gnet/is3/p04/data/dnaseq/analysis/suryamok/GenomeAssemblyResults/Python_dataForReAnnotation/busco_downloads/file_versions.tsv'
I installed busco using conda
conda create -n busco4 -c bioconda -c conda-forge busco=4.0.6 python=3.6
After this, I created and exported the path to myconfig.ini
busco_configurator.py /gstore/home/suryamok/.conda/envs/busco4/config/config.ini myconfig.ini
export BUSCO_CONFIG_FILE=/gne/data/dnaseq/analysis/suryamok/GenomeAssemblyResults/myconfig.ini
I would appreciate your help in troubleshooting the BUSCO lineage download issue. If I could even download using wget, that would be fine. However, even this doesn't seem to be working:
--2020-07-15 16:19:58-- https://busco-data.ezlab.org/v4/data/lineages/tetrapoda_odb10.2019-11-20.tar.gz
Resolving busco-data.ezlab.org (busco-data.ezlab.org)... 129.194.190.21
Connecting to busco-data.ezlab.org (busco-data.ezlab.org)|129.194.190.21|:443... connected.
HTTP request sent, awaiting response... No data received.
Retrying.
--2020-07-15 16:19:59-- (try: 2) https://busco-data.ezlab.org/v4/data/lineages/tetrapoda_odb10.2019-11-20.tar.gz
Connecting to busco-data.ezlab.org (busco-data.ezlab.org)|129.194.190.21|:443... connected.
HTTP request sent, awaiting response... No data received.
Retrying.
Thanks for your help.