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'.
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!