TaskError - taskid:user-database:Gadus_morhua.gadMor1.pep.all.fa-shmlast-rename:/home/ubuntu/eelpond/Gadus_morhua.gadMor1.pep.all.fa
user-database:Gadus_morhua.gadMor1.pep.all.fa-shmlast-rename:/home/ubuntu/eelpond/Gadus_morhua.gadMor1.pep.all.fa <stderr>:

user-database:Gadus_morhua.gadMor1.pep.all.fa-shmlast-rename:/home/ubuntu/eelpond/Gadus_morhua.gadMor1.pep.all.fa <stdout>:

Traceback (most recent call last):
  File "/home/ubuntu/eelpond/.snakemake/scripts/tmp9sap9zf3.dammit-wrapper.py", line 47, in <module>
    shell("dammit annotate {snakemake.input} {db_cmd} --n_threads {snakemake.threads} --output-dir {dammit_dir} {annot_extra} {log}")
  File "/home/ubuntu/miniconda3/envs/eelpond/lib/python3.6/site-packages/snakemake/shell.py", line 142, in __new__
    raise sp.CalledProcessError(retcode, cmd)
subprocess.CalledProcessError: Command ' set -euo pipefail;  dammit annotate /home/ubuntu/data/burbot_assemble_out_run2/assembly/burbot_assemble_trinity.fasta  --database-dir /home/ubuntu/data/databases --n_threads 32 --output-dir /home/ubuntu/data/burbot_assemble_out_run2/annotation/burbot_assemble_trinity.fasta.dammit --quick --user-databases Gadus_morhua.gadMor1.pep.all.fa  2> /home/ubuntu/data/burbot_assemble_out_run2/logs/dammit/burbot_assemble_trinity_dammit.log ' returned non-zero exit status 2.
[Wed Mar 20 17:27:00 2019]
Error in rule dammit_annotate:
    jobid: 3
    output: /home/ubuntu/data/burbot_assemble_out_run2/annotation/burbot_assemble_trinity.dammit.gff3, /home/ubuntu/data/burbot_assemble_out_run2/annotation/burbot_assemble_trinity.dammit.fasta
    log: /home/ubuntu/data/burbot_assemble_out_run2/logs/dammit/burbot_assemble_trinity_dammit.log
    conda-env: /home/ubuntu/eelpond/.snakemake/conda/cabef7d6

RuleException:
CalledProcessError in line 26 of /home/ubuntu/eelpond/rules/dammit/dammit.rule:
Command 'source activate /home/ubuntu/eelpond/.snakemake/conda/cabef7d6; set -euo pipefail;  python /home/ubuntu/eelpond/.snakemake/scripts/tmp9sap9zf3.dammit-wrapper.py ' returned non-zero exit status 1.
  File "/home/ubuntu/eelpond/rules/dammit/dammit.rule", line 26, in __rule_dammit_annotate
  File "/home/ubuntu/miniconda3/envs/eelpond/lib/python3.6/concurrent/futures/thread.py", line 56, in run
Shutting down, this might take some time.
Exiting because a job execution failed. Look above for error message
Complete log: /home/ubuntu/eelpond/.snakemake/log/2019-03-20T162353.758523.snakemake.log