Release 2017.03.16 · catmaid/CATMAID

Contributors: Albert Cardona, Chris Barnes, Tom Kazimiers, Andrew Champion

A virtualenv update required!
The 'classic' node provider has been removed, use 'postgis3d' or 'postgis2d'
instead.
Performance of the default node query strategy (NODE_PROVIDER = 'postgis3d')
improves now when connection pooling is used and PREPARED_STATEMENTS = True.
Both 'postgis2d' and 'postgis3d' node providers support now prepared
statements for connector queries.
PyPy is now supported and can be used to improve performance of back-end heavy
endpoints. Most functionality is available, except for the following: Ontology
clustering, Cropping, Synapse clustering, HDF 5 tiles and User analytics. To
use PyPy, a new virtualenv using the PyPy executable has to be created.
There is now a catmaid_prewarm_db management command, which can be used to
populate OS and database buffers with heavily used tables.

Graph widget:

The "Selection" tab now has two new buttons that provide the ability to invert
the selection, and also to select graph nodes based on matching a text string
or by a regular expression (when the text starts with a '/').

3D Viewer:

With the help of the new "Update active" checkbox in the "View" tab it is now
possible to automatically update the active skeleton if it changes.
It is now possible to hide edges that represent a link between a node and a
connector. This is also respected with connector restrictions enabled and can
be set with new "Show connector links" checkbox in the "View settings" tab.

Selection table:

To prevent accidental sorting the new "Lock order" checkbox can be enabled.
Clicks on the table headers will have no effect if the order is locked.
Two new action icons are added on the right of each row: move a skeleton up or
down in the table.

Annotation graph:

A new 'Annotation Graph' widget provides a graph like visualization of
CATMAID's annotation space, which is mainly useful to visualize annotation
hierarchies. Meta-annotation are linked to annotations through edges. This
widget can be opened with Ctrl+Space together with the 'annotation-graph'
keyword.
Optionally, the minimum and maximum number of linked annotations in a single
hierarchy can be configured.
Selecting an annotation will query all (sub-)annotated skeletons, which can be
used as through a regular skeleton source selection in other widgets.

Miscellaneous:

Tracing tool: the "Show labels" setting is now remembered across sessions.
Right clicking on a stack viewer won't bring up the browser context menu
anymore. Instead, the right mouse button can now be used for panning, too.
The merge dialog has now a "Swap" button in the lower left corner. It can be
used to swap winning and losing skeleton in a merge.
Add a 'select' tracing modes to the tracing tool: Clicking an active skeleton or
synapse tracing mode button (first two buttons in toolbar) will switch to the
select mode where clicking doesn't create new nodes.
The layer settings of image data layers allow now to add custom mirrors,
which is useful to e.g. make a local copy of the image data availabl in
CATMAID. This can reduce latency due to remote image loading considerably. See
the user FAQ in the documentation for more details.
Annotation pages in the Neuron Navigator now also list meta annotations and
provide a way to de-annotate them.

Fix occasional tracing overlay resizing problem where a portion of the screen
would not show tracing data, but also won't update.
3D viewer: broken sections can now be displayed again.
3D viewer: the Z plane with stack images will now render correctly for the
default maximum zoom level.

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