Error in rule download_gtdb

[claireewilliams]

Hi there, I encountered an error with the gtdb download. Looks like the certificate has expired. I can change the option in the script if that would work... where would I find this snakemake script stored in the conda installation?

Error in rule download_gtdb: jobid: 3716 output: /data/gpfs/assoc/lizard_project/rna_seq_amell/databases/GTDB_V07/gtdb_data.tar.gz log: logs/download/gtdbtk.log (check log file(s) for error details) conda-env: /data/gpfs/assoc/lizard_project/rna_seq_amell/databases/condaenvs/960ade29b8174c1e01c901159b2f5a2b shell: wget https://data.gtdb.ecogenomic.org/releases/release207/207.0/auxillary_files/gtdbtk_r207_v2_data.tar.gz -O /data/gpfs/assoc/lizard_project/rna_seq_amell/databases/GTDB_V07/gtdb_data.tar.gz &> logs/download/gtdbtk.log (one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!)

--2023-04-12 11:41:18-- https://data.gtdb.ecogenomic.org/releases/release207/207.0/auxillary_files/gtdbtk_r207_v2_data.tar.gz Resolving data.gtdb.ecogenomic.org (data.gtdb.ecogenomic.org)... 203.101.230.53 Connecting to data.gtdb.ecogenomic.org (data.gtdb.ecogenomic.org)|203.101.230.53|:443... connected. ERROR: cannot verify data.gtdb.ecogenomic.org's certificate, issued by ‘/C=US/O=Let's Encrypt/CN=R3’: Issued certificate has expired. To connect to data.gtdb.ecogenomic.org insecurely, use `--no-check-certificate'.

atlas version 2.15.0

Thanks so much!

[claireewilliams]

Actually, I think I can circumvent this by just downloading gtdb database myself and just trick snakemake. Nevermind