Release 2015.5.11
Contributors: Albert Cardona, Andrew Champion, Tom Kazimiers
Features and enhancements
Connectivity widget:
- Partner filtering now supports regular expressions when the first character
of the search input is "/".
Treenode table:
- REMOVED: Radii can no longer be edited by clicking on their cell in the
table.
Connectivity matrix:
- The tracing tool has got a new widget: a connectivity matrix. It can be opened
with the "M" frame icon next to the button for the connectivity widget. To use
it, one has to append skeletons for its rows and columns. Skeletons can also
be added as group. Each cell shows two sub-cells, the first one shows the
number of synapses from row to column and the second one the number synapses
from column to row. When a synapse count number is clicked, a connector
selection is opened, that contains the corresponding synapses. Both pre- and
post-synaptic count cells can be colored individually. By default a coloring
similar to the tracing layer's red and cyan is used. There are also color
gradients available to produce heat maps (i.e. color cells based on the
actual synapse count).
Graph widget:
- ability to split neurons by text tag on their skeletons. It's the
"Tag" button under the "Subgraph" tab. Enables you to manually define regions
on a neuronal arbor (like axon and dendrite, or multiple dendritic domains)
and then have them be represented each as a node in the graph. The skeleton
will be virtually cut at the nodes containing the tags, with the tagged node
belonging to the downstream part (relative to the root node).
3D Viewer:
- Color mode "Downstream of tag" is now a shading mode.
- New synapse coloring mode "Same as skeleton". If you then hide the
skeletons and show only the synapses you will e.g. see spatial tiling of ORN
axons, each defining a glomerulus in the larval olfactory lobe. - For PNG and SVG export one can now specify the dimensions of the result files.
A dialog shown before exporting asks for width and height.
Neuron dendrogram:
- The horizontal and vertical spacing between nodes in the neuron dendrogram can
now be fine tuned.
Administration:
- A new tool 'Group membership helper' has been added to add multiple users to
multiple groups or to revoke their group membership. This can be used to
control access over the data created by individual users.
Miscellaneous:
- A node-placement-and-radius-edit mode has been added. If enabled through the
settings widget (Tracing > "Edit radius after node creation"), the radius for
a node will be edited immediately after it has been created. This allows for
easier volumetric reconstruction. In this mode, the radius circle editing tool
is used to specify the radius. No dialog is shown once a radius is selected for
a node and it will only be saved for the new node. - A new connector type ("abutting") can now be created. In contrast to the
regular synaptic connector, it can be used to represent the fact that two or
more neurons are in abutting processes. For now this mode can be activated
through the settings widget (Tracing > "Create abutting connectors"). For
abutting connectors the lines representing the links to nodes will appear in a
green color.
Bug fixes
3D viewer:
- Adding and removing neurons and static data lead in some situations to many
errors that were displayed on the console (and therefore not visible to most
users) and caused minor performance problems. This has been fixed and all data
should now be added and removed correctly. - Following the active node should now work much more reliable. Before, it could
happen that this stopped working after a second 3D viewer was closed.
Connectivity widget:
- Fix one cause of sluggish behavior for widgets that have been modified many
times. Also fixes repeated alert dialogs when clicking a neuron in the
partner tables that no longer exists or does not have any treenodes.
Neuron Navigator:
- Don't show an error if an invalid regular expression was entered for
searching. Instead, color the search box red and show a warning message.