Lcornet
commented
5 years ago I also tried to install a more recent version of Falcon with :
install
conda create -n denovo_asm source activate denovo_asm conda install -c bioconda pb-assembly
and run with this config file https://github.com/PacificBiosciences/pb-assembly/blob/master/cfgs/fc_run_200kb.cfg : (changing smp to snode and JOB_QUEUE=smallnodes.q). I have the following error in the first submitted job : (/media/vol2/scratch/lcornet/cassava/tmp/0-rawreads/build/run-P6b3880528970c2.bash.stde) /bin/bash task.sh
- /bin/bash task.sh pyenv: python2.7: command not found
The `python2.7' command exists in these Python versions: 2.7.6 2.7.9
+++ pwd ++ echo 'FAILURE. Running top in /media/vol2/scratch/lcornet/cassava/tmp/0-rawreads/build (If you see -terminal database is inaccessible- you are using the python bin-wrapper, so you will not get diagnostic info. No big deal. This process is crashing anyway.)' ++ rm -f top.txt ++ which python ++ which top ++ env -u LD_LIBRARY_PATH top -b -n 1 ++ env -u LD_LIBRARY_PATH top -b -n 1 ++ pstree -apl
real 0m1.053s user 0m0.054s sys 0m0.077s
- finish
- echo 'finish code: 127'
Can you help me to solve that ?
I have a problem running Falcon. When i launch a job or pass by screen, my sub jobs has the status Eqw. And there never start.
So currently i must run Falcon from terminal, is there anyway to solve that ?
Thanks, Luc