file cleanup, slurm scripts and timeout added to batchtools submit templates #831
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* batch tools subpackage * comm update * new search methods * fixed import issues * updates comm, search * search.py * wrapper tools search * update to batchtools * codebase moved to netpyne batchtools https://github.com/jchen6727/netpyne/tree/batch * update to comm.py, runners.py * update to search (kwargs) * config update (should delete two keys @ end?) * replace pubtk with batchtk for compatibility with pip * update the submit (zsh->sh) * update batchtools, submits * fixed socket functionality for submits.py * batchtools documentation * minor updates- search
cfg.progressBar = 2 will display all progress bars cfg.progressBar = 1 will call tqdm with progress bars w/ leave = 0 cfg.progressBar = 0 will disable the progress bar.
…tionary, fanova example started. batchtools.rst updated
update batch re: end user suggestion
can now initialize cfg with a dictionary:
``` Python
from netpyne.batchtools import specs
cfg = specs.SimConfig({'x': [None] * 4})
```
creates a new cfg such that it already has value x, e.g.
cfg.x = [None, None, None, None]
update to documentation with some minimal working examples (see https://github.com/suny-downstate-medical-center/netpyne/tree/batch/netpyne/batchtools/examples), esp. Rosenbrock w/ coupled parameters, nested parameters, etc.
fanova (large sample -- 625), running fanova analysis cfg.py of CA3 including additional cfg settings to avoid confusion
incorrect reference to old batchtk templates, now referencing appropriate templates in batchtools submits.
jchen6727
merged commit 2934100
into
suny-downstate-medical-center:development
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see changes in netpyne.batchtools