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And run it like this: mess run -f subj001_V1.yml -c 10
Not sure where the problem is, but is giving me an error:
``
Error in rule get_assembly_tables:
jobid: 6
output: tables/287-all.tsv, tables/287-filtered.tsv
log: logs/find-assemblies/287.log (check log file(s) for error message)
conda-env: pathto/miniconda3/envs/mess/0196f5cd3651220e69f7e76b842252bd
RuleException:
CalledProcessError in line 46 of pathto/miniconda3/envs/mess/lib/python3.8/site-packages/mess/assembly_finder/rules/find_assemblies.rules:
Command 'source pathto/miniconda3/bin/activate 'pathto/miniconda3/envs/mess/0196f5cd3651220e69f7e76b842252bd'; set -euo pipefail; python pathto/test2/.snakemake/scripts/tmpe02brmhj.assembly_table.py' returned non-zero exit status 1.
File "pathto/miniconda3/envs/mess/lib/python3.8/site-packages/snakemake/executors/init.py", line 2274, in run_wrapper
File "pathto/miniconda3/envs/mess/lib/python3.8/site-packages/mess/assembly_finder/rules/find_assemblies.rules", line 46, in __rule_get_assembly_tables
File "pathto/miniconda3/envs/mess/lib/python3.8/site-packages/snakemake/executors/init.py", line 569, in _callback
File "pathto/miniconda3/envs/mess/lib/python3.8/concurrent/futures/thread.py", line 57, in run
File "pathto/miniconda3/envs/mess/lib/python3.8/site-packages/snakemake/executors/init.py", line 555, in cached_or_run
File "pathto/miniconda3/envs/mess/lib/python3.8/site-packages/snakemake/executors/init.py", line 2362, in run_wrapper
``
I would appreciate any help with this!
Thanks
The text was updated successfully, but these errors were encountered:
Hi,
I am new to this kind of simulations and find your tool at the first place very intuitive, but in the end I just get several times blocked.
I am trying to generate fastq files using the following inputs:
tsv
I had to change the headers since the tool was giving me errors and this allowed me to keep going.
The yaml
And run it like this:
mess run -f subj001_V1.yml -c 10
Not sure where the problem is, but is giving me an error:
``
Error in rule get_assembly_tables:
jobid: 6
output: tables/287-all.tsv, tables/287-filtered.tsv
log: logs/find-assemblies/287.log (check log file(s) for error message)
conda-env: pathto/miniconda3/envs/mess/0196f5cd3651220e69f7e76b842252bd
RuleException:
CalledProcessError in line 46 of pathto/miniconda3/envs/mess/lib/python3.8/site-packages/mess/assembly_finder/rules/find_assemblies.rules:
Command 'source pathto/miniconda3/bin/activate 'pathto/miniconda3/envs/mess/0196f5cd3651220e69f7e76b842252bd'; set -euo pipefail; python pathto/test2/.snakemake/scripts/tmpe02brmhj.assembly_table.py' returned non-zero exit status 1.
File "pathto/miniconda3/envs/mess/lib/python3.8/site-packages/snakemake/executors/init.py", line 2274, in run_wrapper
File "pathto/miniconda3/envs/mess/lib/python3.8/site-packages/mess/assembly_finder/rules/find_assemblies.rules", line 46, in __rule_get_assembly_tables
File "pathto/miniconda3/envs/mess/lib/python3.8/site-packages/snakemake/executors/init.py", line 569, in _callback
File "pathto/miniconda3/envs/mess/lib/python3.8/concurrent/futures/thread.py", line 57, in run
File "pathto/miniconda3/envs/mess/lib/python3.8/site-packages/snakemake/executors/init.py", line 555, in cached_or_run
File "pathto/miniconda3/envs/mess/lib/python3.8/site-packages/snakemake/executors/init.py", line 2362, in run_wrapper
``
I would appreciate any help with this!
Thanks
The text was updated successfully, but these errors were encountered: