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Hi, I have setup the profile following the instructions in Readme file. I submit jobs on our internal cluster where each user has his own accounts. I am trying to submit a snakemake workflow via pbs-torque. We get certain account# to bill our runs hence, passed an argument A.
snakemake --profile pbs-torque \
walltime=15:00:00 \
nodes=1:ppn=6 \
mem=30gb \
A=A1234
However, I get the following error. Also, walltime or mem are not accepted in hours and gb ? appreciate your help on this.
Building DAG of jobs...
Full Traceback (most recent call last):
File "/users/P1234/User3/envs/snakemake/lib/python3.6/site-packages/snakemake/__init__.py", line 518, in snakemake
cluster_status=cluster_status)
File "/users/P1234/User3/envs/snakemake/lib/python3.6/site-packages/snakemake/workflow.py", line 387, in execute
dag.init()
File "/users/P1234/User3/envs/snakemake/lib/python3.6/site-packages/snakemake/dag.py", line 124, in init
job = self.update(self.file2jobs(file), file=file, progress=progress)
File "/users/P1234/User3/envs/snakemake/lib/python3.6/site-packages/snakemake/dag.py", line 1061, in file2jobs
raise MissingRuleException(targetfile)
snakemake.exceptions.MissingRuleException: No rule to produce A=A1234(if you use input functions make sure that they don't raise unexpected exceptions).
MissingRuleException:
No rule to produce A=A1234(if you use input functions make sure that they don't raise unexpected exceptions).
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