I’m using a 64- cores node in a cluster in order to run a progressive cactus job.
Unfortunately I have an one day time limit, so I want to resubmit the same job after it reaches the time limit.
I red at the “resuming existing jobs” that if a job crashes, if you will submit it again it can continue from that point.
I tried it but it gives the following error:
Error: Existing project ./work_28-small-new2/progressiveAlignment not compatible with current input. Please erase the working directory or rerun with the --overwrite option to start from scratch.
It seems that starts again but it crashes.
No branch length for Mallard: setting to 1
No branch length for Turkey: setting to 1
No branch length for Chicken: setting to 1
No branch length for : setting to 1
Error: Existing project ./work_28-small-new2/progressiveAlignment not compatible with current input. Please erase the working directory or rerun with the --overwrite option to start from scratch.
Hello,
I’m using a 64- cores node in a cluster in order to run a progressive cactus job. Unfortunately I have an one day time limit, so I want to resubmit the same job after it reaches the time limit. I red at the “resuming existing jobs” that if a job crashes, if you will submit it again it can continue from that point. I tried it but it gives the following error:
Error: Existing project ./work_28-small-new2/progressiveAlignment not compatible with current input. Please erase the working directory or rerun with the --overwrite option to start from scratch.
It seems that starts again but it crashes.
No branch length for Mallard: setting to 1 No branch length for Turkey: setting to 1 No branch length for Chicken: setting to 1 No branch length for : setting to 1 Error: Existing project ./work_28-small-new2/progressiveAlignment not compatible with current input. Please erase the working directory or rerun with the --overwrite option to start from scratch.
The seqFile that I’m giving is this:
(Mallard,(Turkey,Chicken));
Mallard /home/vasilis.lenis/Multiple_alignments/chicken_Mallard/duck_gen.fa Turkey /home/vasilis.lenis/Multiple_alignments/chicken_Turkey/melGal1.fa_gen.fa Chicken /home/vasilis.lenis/Multiple_alignments/chicken/chr28.fa
The script that I’m giving to run the job is:
!/bin/bash --login
BSUB -q q_cf_htc_vlarge
BSUB -o Cactus28-small-new.%J # Job output file
BSUB -e Cactus28-small-new.%J #Job error output
BSUB -J Cactus28-small-new # Job name
BSUB -n 64 # Total number of cores
BSUB -R "span[ptile=64]" # Number of cores per node
./bin/runProgressiveCactus.sh ~/MULTIPLE-CACTUS/seqFile-chr28-small ./work_28-small-new2 ./work_28-small-new2/testing_chr28-small-new2.hal
Is there anything wrong with my files?
Thank you very much in advance, Vasilis.