These are chat archives for nextflow-io/nextflow

4th
May 2016
Paolo Di Tommaso
@pditommaso
May 04 2016 08:07
Go man!
:)
Jose Espinosa-Carrasco
@JoseEspinosa
May 04 2016 22:43
When running a nextflow process using docker I get the following error:
Status: Image is up to date for ipython/scipyserver:latest
  Input file: file_worm
  Traceback (most recent call last):
    File "/nfs/users/cn/jespinosa/git/pergola/examples/celegans_db/bin/extract_worm_motion_joined.py", line 121, in <module>
      fh = open(file_name + "." + "motion" + ".csv",'wb')
  IOError: [Errno 13] Permission denied: 'file_worm.motion.csv'

Work dir:
  /nfs/users/cn/jespinosa/git/pergola/examples/celegans_db/work/24/6806a88a8895c16a07a3ce2328865d

Tip: when you have fixed the problem you can continue the execution appending to the nextflow command line the option '-resume'
I don't get this error when running without docker how can I solve it?
BTW the script crashes while trying to write a file and nextflow is running on a sge cluster