pyjip
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thasso
JIP Pipeline System
test.jip ``` #!/usr/bin/env jip # # Test mutually exclusive options # # Usage: # test (-one | -two) ``` There is no error generated from running as follows ``` ./test.jip...
When building python classes and wrapping them with `@pytool` it throws an exception if you have init, setup or validate methods ``` for t in validate init setup; do JIP_MODULES=hello_world.py...
Just an FYI, this does not work in Linux as the shebang line will try to execute `"jip -p"` not `"jip"` `"-p"` The documentation references this quite often ``` #!/usr/bin/env...
From what I can gather, jip submits jobs to SGE by calling qsub with its arguments and then passing "exec jip exec --db " on stdin. This does not work,...
I apologize for asking a question here, but there is no dedicated support forum. The documentation is not clear on how to actually get JIP to submit jobs on a...
jip bash -c "echo 'hello world'" -A StatG -q development -s Error while submitting job: sbatch: error: Batch job submission failed: Invalid feature specification Executed command: sbatch --wrap jip exec...
Say that we have two jobs/tools, which will be grouped by the system: > job1|job2 When I try to set specs for a job2, it looks like they are ignored,...
When running multiple pipelines at same time (like in the order of 50-100, each containing 10 jobs), the database encounters concurrency problems and leaves the jobs in running state, though...
Trying to force to restart the pipeline from one point does not seem to work. I tried two things: a) with restart --force and the given job: but it would...
Jip tools written in bash do not support use of arrays because they require ${} syntax. One can escape those to make jinja parser not to complain. The problem though...