first debug:
DEBUG:docker.auth:Trying paths: ...
DEBUG:docker.auth:No config file found
first warning:
WARNING:toil.batchSystems.singleMachine:Limiting maxCores to CPU count of system (1).
WARNING:toil.batchSystems.singleMachine:Limiting maxMemory to physically available memory (10250276864).
WARNING:toil.batchSystems.singleMachine:Limiting maxDisk to physically available disk (19539320832).
first error:
ERROR:toil.batchSystems.singleMachine:Got exit code 1 (indicating failure) from job _toil_worker EncapsulatedJob file:/home/christina/CNACS/toil_cnacs/ --stats U/y/jobuTa5j4.
I attach the output (error.txt) and the file toil_logs.txt
Do you have any ideas where I have to start to debug?
error.txttoil_logs.txt
Description
My generation of pools failed. This may be because I do not have any experience with docker.
What I Did
The commands I ran:
toil_cnacs generate_pool \ --stats --writeLogs /home/christina/CNACS/Output/toil_logs --logFile /home/christina/CNACS/Output/toil_logs.txt --outdir /home/christina/CNACS/Output --fasta /home/christina/CNACS/CNV/ucsc_hg19.fasta --probe_bed /home/christina/CNACS/CNV/sorted_01.bed --pool_samp /home/christina/CNACS/toil_cnacs/CNV/2128.bam F --pool_samp /home/christina/CNACS/CNV/2127.bam M --docker papaemmelab/docker-cnacs --volumes /home/christina/CNACS /home/christina/CNACS
first debug: DEBUG:docker.auth:Trying paths: ... DEBUG:docker.auth:No config file found
first warning: WARNING:toil.batchSystems.singleMachine:Limiting maxCores to CPU count of system (1). WARNING:toil.batchSystems.singleMachine:Limiting maxMemory to physically available memory (10250276864). WARNING:toil.batchSystems.singleMachine:Limiting maxDisk to physically available disk (19539320832).
first error: ERROR:toil.batchSystems.singleMachine:Got exit code 1 (indicating failure) from job _toil_worker EncapsulatedJob file:/home/christina/CNACS/toil_cnacs/ --stats U/y/jobuTa5j4.
I attach the output (error.txt) and the file toil_logs.txt Do you have any ideas where I have to start to debug? error.txt toil_logs.txt