Following scripts are breaking with this release
Closed this issue · 4 comments
Many of them due to moogli which is now built with openscene-3.2.1 . The problem should be due to new version of openscene library.
- paper-2015/Fig2C.py
File "Fig2C.py", line 356, in <module>
main()
File "Fig2C.py", line 337, in main
rdes = buildRdesigneur()
File "Fig2C.py", line 148, in buildRdesigneur
rd.addSpineProto() # This adds a version with an LCa channel by default.
File "/usr/lib/python2.7/dist-packages/rdesigneur/rdesigneurProtos.py", line 348, in addSpineProto
assert( moose.exists( parent ) ), "%s must exist" % parent
AssertionError: /library must exist
- paper-2015/Fig2D.py
ReadSwc: cells/ko20x-07.CNG.swc : NumSegs = 152, bad = 0, Validated = 1, numBranches = 40
ReadSwc::diagnostics: undef : 0
ReadSwc::diagnostics: soma : 3
ReadSwc::diagnostics: axon : 0
ReadSwc::diagnostics: dend : 59
ReadSwc::diagnostics: apical : 53
ReadSwc::diagnostics: dend_f : 7
ReadSwc::diagnostics: dend_e : 11
ReadSwc::diagnostics: custom : 0
ReadSwc::diagnostics: bad : 0
ReadSwc::diagnostics: undef : 0
ReadSwc::diagnostics: axon_f : 0
ReadSwc::diagnostics: axon_e : 0
ReadSwc::diagnostics: apical_f : 9
ReadSwc::diagnostics: apical_e : 10
Rdesigneur: Elec model has 152 compartments and 0 spines on 0 compartments.
Setting Up 3D Display
QGLTempContext: No GL capable X visuals available.
QGLTempContext: No GL capable X visuals available.
QGLContext::makeCurrent(): Cannot make invalid context current.
Error: OpenGL version test failed, requires valid graphics context.
Segmentation fault
- paper-2015/Fig2E.py
Rdesigneur: Elec model has 152 compartments and 0 spines on 0 compartments.
Setting Up 3D Display
QGLTempContext: No GL capable X visuals available.
QGLTempContext: No GL capable X visuals available.
QGLContext::makeCurrent(): Cannot make invalid context current.
Error: OpenGL version test failed, requires valid graphics context.
Segmentation fault
- paper-2015/Fig4_ReacDiff/rxdSpineSize.py
Traceback (most recent call last):
File "rxdSpineSize.py", line 293, in <module>
showVisualization()
File "rxdSpineSize.py", line 191, in showVisualization
makeModel()
File "rxdSpineSize.py", line 120, in makeModel
rdes.buildModel( '/model' )
File "/usr/lib/python2.7/dist-packages/rdesigneur/rdesigneur.py", line 199, in buildModel
self.buildAdaptors()
File "/usr/lib/python2.7/dist-packages/rdesigneur/rdesigneur.py", line 489, in buildAdaptors
self._buildAdaptor( mesh, i[2], i[3], name, i[1], False, i[4], i[5] )
File "/usr/lib/python2.7/dist-packages/rdesigneur/rdesigneur.py", line 1230, in _buildAdaptor
elecComptList = moose.vec( mesh.elecComptList[0].path + '/../spine' )
IndexError: tuple index out of range
Fig2C.py This is moose problem and fixed by Upi which is also commited and working
paper-2015/Fig5_CellMultiscale/Fig5BCD.py not working. (This is nothing to do with moogli or openscene-3.2.1)
This rdesigneur problem.
Usage: name, path, [spacing, spacingDistrib, size, sizeDistrib, angle, angleDistrib]
Warning: Dsolve::setNinit: Eref z out of range 1, 0
File "moose-core/python/rdesigneur/rdesigneur.py", line 1231, in _buildAdaptor
elecComptList = moose.vec( mesh.elecComptList[0].path + '/../spine' )
IndexError: tuple index out of range
Above scripts worked with latest release on OpenSUSE-42.2. There is some trouble with OpenScene graph.
File Fig4_ReacDiff/rxdSpineSize.py still failing with the same error message.