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pgleesonpgleeson
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Adding "standard" NeuroML group names
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‎NMC/NeuroML2/cADpyr229_L23_PC_5ecbf9b163_0_0.cell.nml‎

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@@ -7038,6 +7038,16 @@ For more information on this cell model see: https://bbp.epfl.ch/nmc-portal/micr
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<segmentGroup id="somatic">
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<include segmentGroup="soma_0"/>
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</segmentGroup>
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<segmentGroup id="soma_group">
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<include segmentGroup="somatic"/>
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</segmentGroup>
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<segmentGroup id="axon_group">
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<include segmentGroup="axonal"/>
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</segmentGroup>
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<segmentGroup id="dendrite_group">
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<include segmentGroup="basal"/>
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<include segmentGroup="apical"/>
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</segmentGroup>
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</morphology>
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<biophysicalProperties id="biophys">
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<membraneProperties>

‎NMC/NeuroML2/cADpyr232_L5_TTPC1_0fb1ca4724_0_0.cell.nml‎

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@@ -43132,6 +43132,16 @@ For more information on this cell model see: https://bbp.epfl.ch/nmc-portal/micr
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<segmentGroup id="somatic">
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<include segmentGroup="soma_0"/>
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</segmentGroup>
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<segmentGroup id="soma_group">
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<include segmentGroup="somatic"/>
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</segmentGroup>
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<segmentGroup id="axon_group">
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<include segmentGroup="axonal"/>
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</segmentGroup>
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<segmentGroup id="dendrite_group">
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<include segmentGroup="basal"/>
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<include segmentGroup="apical"/>
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</segmentGroup>
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</morphology>
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<biophysicalProperties id="biophys">
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<membraneProperties>

‎NMC/NeuroML2/cNAC187_L1_HAC_f8c9772d9d_0_0.cell.nml‎

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@@ -9551,6 +9551,16 @@ For more information on this cell model see: https://bbp.epfl.ch/nmc-portal/micr
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<segmentGroup id="somatic">
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<include segmentGroup="soma_0"/>
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</segmentGroup>
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<segmentGroup id="soma_group">
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<include segmentGroup="somatic"/>
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</segmentGroup>
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<segmentGroup id="axon_group">
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<include segmentGroup="axonal"/>
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</segmentGroup>
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<segmentGroup id="dendrite_group">
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<include segmentGroup="basal"/>
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<include segmentGroup="apical"/>
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</segmentGroup>
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</morphology>
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<biophysicalProperties id="biophys">
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<membraneProperties>

‎NMC/NeuroML2/cSTUT189_L23_LBC_e6e8f83407_0_0.cell.nml‎

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@@ -6986,6 +6986,16 @@ For more information on this cell model see: https://bbp.epfl.ch/nmc-portal/micr
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<segmentGroup id="somatic">
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<include segmentGroup="soma_0"/>
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</segmentGroup>
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<segmentGroup id="soma_group">
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<include segmentGroup="somatic"/>
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</segmentGroup>
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<segmentGroup id="axon_group">
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<include segmentGroup="axonal"/>
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</segmentGroup>
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<segmentGroup id="dendrite_group">
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<include segmentGroup="basal"/>
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<include segmentGroup="apical"/>
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</segmentGroup>
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</morphology>
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<biophysicalProperties id="biophys">
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<membraneProperties>

‎NMC/parser/ParseAll.py‎

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@@ -291,6 +291,10 @@ def process_celldir(inputs):
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metric="Path Length from root",
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proximal=neuroml.ProximalDetails(
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translation_start="0")))
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cell.morphology.segment_groups.append(neuroml.SegmentGroup(id="soma_group", includes=[neuroml.Include("somatic")]))
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cell.morphology.segment_groups.append(neuroml.SegmentGroup(id="axon_group", includes=[neuroml.Include("axonal")]))
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cell.morphology.segment_groups.append(neuroml.SegmentGroup(id="dendrite_group", includes=[neuroml.Include("basal"),neuroml.Include("apical")]))
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ignore_chans = ['Ih', 'Ca_HVA', 'Ca_LVAst', 'Ca',
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"SKv3_1", "SK_E2", "CaDynamics_E2", "Nap_Et2", "Im",

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