execution étape rewrite-taxonomy.snakefile
extended-microorganisms-taxonomy installé et toutes les étapes passent sauf la dernière concernant rewrite-taxonomy.snakefile. est-ce qu'il aurait des choses spécifiques à faire absentes du README ?
l'erreur est au niveau de la rule all qui ne retrouve pas ces inputs : repro
ssh front.migale.inrae.fr
/work_projet/omnicrobe_data/tm_workflow/extended-microorganisms-taxonomy
conda activate snakemake-6.9.1
snakemake --nolock --verbose --printshellcmds --use-singularity --use-conda --reason --latency-wait 60 --jobs 5 --snakefile rewrite-taxonomy.snakefile --cluster "qsub -v PYTHONPATH='' -l mem_free=24G -V -cwd -e log/ -o log/ -q short.q,long.q" --dryrun
Building DAG of jobs...
Full Traceback (most recent call last):
File "/usr/local/genome/Anaconda3/envs/snakemake-6.9.1/lib/python3.9/site-packages/snakemake/__init__.py", line 699, in snakemake
success = workflow.execute(
File "/usr/local/genome/Anaconda3/envs/snakemake-6.9.1/lib/python3.9/site-packages/snakemake/workflow.py", line 763, in execute
dag.init()
File "/usr/local/genome/Anaconda3/envs/snakemake-6.9.1/lib/python3.9/site-packages/snakemake/dag.py", line 179, in init
job = self.update([job], progress=progress, create_inventory=True)
File "/usr/local/genome/Anaconda3/envs/snakemake-6.9.1/lib/python3.9/site-packages/snakemake/dag.py", line 801, in update
raise exceptions[0]
File "/usr/local/genome/Anaconda3/envs/snakemake-6.9.1/lib/python3.9/site-packages/snakemake/dag.py", line 759, in update
self.update_(
File "/usr/local/genome/Anaconda3/envs/snakemake-6.9.1/lib/python3.9/site-packages/snakemake/dag.py", line 920, in update_
raise MissingInputException(job.rule, missing_input)
snakemake.exceptions.MissingInputException: Missing input files for rule all:
output/finish.txt
MissingInputException in line 5 of /work_projet/omnicrobe_data/tm_workflow/extended-microorganisms-taxonomy/rewrite-taxonomy.snakefile:
Missing input files for rule all:
output/finish.txt
Edited by Mouhamadou Ba