Neuroinflab / kCSD-python / 136
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ccluri 
Fixes skcsd figs (#60)

* Fix #43

* Fix indexing in skcsd figures

* First version of the skcsd complex morphology figure

* New version of figs

* Create two separate look-up tables for CSD and potential for sKCSD

The distance between source and estimation can be at least an order
of magnitude larger than the distance between the source and electrodes.
One interpolation table has either to be very large or miss vital
resolution.

* Fix lambdas and resolution of the interpolation table for figures

* Fixes for the article figure

Lower density of interpolation table.
Remove oscilatory injections to the soma.

* Fix interpolation tables for sKCSD

Some of the sKCSD calculations are performed in 2D space of two
variables on the morphology loop (source and estimation points positions
for potential), some are performed between 3D
cartesian variables (electrode positions) and 1D variables on the
morphology loop (source positions). Make separate spline interpolation routines
for both cases.

* Fix calculation of interpolation table for potentials

* Remove functions needed for sk_monaco, which is no longer used for skcsd

* Add transparency to plots

* Fixes for hexagonal electrode placement and Fig 8 complex morphology (insert hh to all soma)

* First version of the complex morphology figure

* Replication of Dori's figs

* Save number of columns and rows in figure names

* Fix electrode positions and drawing morphology

* Space after comma

* Scale lambdas

* Square electrode distribution, correct orientation

* Add more background to panels

* More transparent colormaps

* Allow for drawing morphologies and transforming CSD and pot in custom rectangles

* Remove unnecessary prints

* Figures 8 and 9

* Remove unnecessary import of run_LFP

* Fix writing morphology

* Indentation

* Move contruction of the table of sources and electrode positions to sKCSDcell for tests sake

* Add a ... (continued)

1673 of 2774 relevant lines covered (60.31%)

2.41 hits per line

Jobs
ID Job ID Ran Files Coverage
1 136.1 (DISTRIB="conda" PYTHON_VERSION="2.7" NUMPY_VERSION="1.10.4" SCIPY_VERSION="0.16.1" SIX_VERSION="1.10.0" COVERAGE="true") 0
60.09
 Travis Job 136.1
2 136.2 (DISTRIB="conda" PYTHON_VERSION="3.5" NUMPY_VERSION="1.10.4" SCIPY_VERSION="0.16.1" SIX_VERSION="1.10.0" COVERAGE="true") 0
60.31
 Travis Job 136.2
3 136.3 (DISTRIB="conda_min" PYTHON_VERSION="2.7" SIX_VERSION="1.10.0" NUMPY_VERSION="1.10.4" SCIPY_VERSION="0.16.1" COVERAGE="true") 0
60.09
 Travis Job 136.3
4 136.4 (DISTRIB="conda_min" PYTHON_VERSION="3.4" SIX_VERSION="1.10.0" NUMPY_VERSION="1.10.4" SCIPY_VERSION="0.16.1" COVERAGE="true") 0
60.31
 Travis Job 136.4
Source Files on build 136
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