PR from development to master - VERSION 1.0.5 #777
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…unctions to run properly
…o init.py in plotting
…imilar to plotLFPTimeSeries
…t similar to lfp time series plots
… to lfp psd plotting
…nts for flexibility
re-integrate release 1.0.4.1
…therData optimized and re-factored sim.gatherData()…
* doc for stim
* added __getitem__ functions to netParams and simConfig
now can do nested __getitem__ calls
should netParams and simConfig inherit from some dictionary class?
* documentation ---
added documentation
* point cell documentation
point cell documentation
* updated documentation to describe optional 'cellModel': 'VecStim' args
specifically -- 'spikePattern': {'type': # 'rhythmic', 'evoked', 'poisson', 'gauss' ...}
see doc/source/reference.rst
updated pointCell.py documentation
* updated documentation
netpyne/network/stim.py refers to netpyne/cell/pointCell.py
netpyne/network/pop.py has 'xRange', 'yRange', 'zRange' explicitly named to avoid confusion
* replaced eval from netpyne/analysis/utils.py
* install.rst documentation changes
* update for SGE submission
SGE submission with grid
* sge wip
* commit on downstate hpc
* more wip
* revisions, downstate SGE WIP
* working submission
* tutorial for running tutorial 8 on SGE, see README.md
…dded checking of input parameter 'feature'
…from web tutorial
* tutorial for running tutorial 8 on SGE, see README.md * updated example, to be run from outside src * modifications to grid and utils per recommendations, Dr. Dura-Bernal: now .run are generated within the batch directory, removed rsync commands, added pre and post commands, fixed -N flag taking in special characters (jobname) * modify SGE batch. * use $NSLOTS to avoid resource allocation issues.
'import imp' was not used throughout the code
…ersion restriction
DOC: Small typo fix
removed 'import imp'
CSD colorbar
…ct in replaceDictODict() and got rid of this method where it's not needed
…corrections fixed distributed loading, removed side-effect of modifying input obje…
…ation of synapses' and stim's to those in 'recordTraces' with precision up to segment
…m_iclamp issue-553: fixed recording from stims and synMechs
-Included population name in error message -Included case in which pop < 1 and not just == 0
Error message for numCell==0 in scaled models
…ime_series_and_psd time series and PSD plots for CSD (along with some related re-factoring)
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