Neuroglancer admin

This module creates the admin interface for all the Neuroglancer tools used by the user. It lists the classes and methods used to administer the ‘Neuroglancer’ app in our database portal. This is where the end user can create, retrieve, update and delete (CRUD) metadata associated with the ‘Neuroglancer’ app. It does not list the fields (database columns). Look in the models document for the database table model.

class neuroglancer.admin.AnnotationLabelAdmin(model, admin_site)

Bases: AtlasAdminModel, ExportCsvMixin

Class that provides admin capability for managing a region of the brain. This was also called a structure.

created_display(obj)

Formats the date nicely.

list_display = ('label_type', 'label', 'description', 'active', 'created_display')
list_filter = ['label_type', 'created', 'active']
property media
ordering = ['label_type', 'label']
readonly_fields = ['created']
search_fields = ['label', 'description']
class neuroglancer.admin.AnnotationSessionAdmin(model, admin_site)

Bases: AtlasAdminModel

Administer the annotation session data.

get_labels(obj)
get_queryset(request)

Return a QuerySet of all model instances that can be edited by the admin site. This is used by changelist_view.

get_urls()

Shows the HTML of the links to go to the graph, and table data.

label_type(obj)

Returns the label type of the annotation session.

list_display = ['animal', 'get_labels', 'annotation_type', 'annotator', 'created', 'updated']
list_filter = ['created', 'updated']
property media
ordering = ['animal', 'created', 'annotator']
readonly_fields = ['created', 'updated', 'annotation_type']
search_fields = ['animal__prep_id', 'annotator__first_name']
show_points(obj)

Shows the HTML for the link to the graph of data.

Shows the HTML for the link to the graph of data.

view_points_in_session(request, id, *args, **kwargs)

Provides the HTML link to the table data

class neuroglancer.admin.NeuroglancerStateAdmin(model, admin_site)

Bases: ModelAdmin

This class provides the admin backend to the JSON data produced by Neuroglancer. In the original version of Neuroglancer, all the data was stored in the URL, hence the name of this class. The name: ‘NeuroglancerState’ will be changed in future versions.

formfield_overrides = {<class 'django.db.models.fields.CharField'>: {'widget': <django.forms.widgets.TextInput object>}}
get_queryset(request)

Returns the query set of points where the layer contains annotations

list_display = ('id', 'animal', 'open_neuroglancer', 'public_description', 'public', 'readonly', 'owner', 'lab', 'created', 'updated')
list_filter = ['updated', 'created', 'readonly', <class 'neuroglancer.url_filter.UrlFilter'>, 'public']
list_per_page = 25
property media
open_multiuser(obj)

This method creates an HTML link that allows the user to access Neuroglancer in multi user mode.

open_neuroglancer(obj)

This method creates an HTML link that allows the user to access Neuroglancer

ordering = ['-readonly', '-updated']
public_description(obj)

This method displays HTML

readonly_fields = ['user_date']
search_fields = ['id', 'comments', 'description']
class neuroglancer.admin.PointsAdmin(model, admin_site)

Bases: ModelAdmin

This class may become deprecated, but for now it gets point data from the actual JSON and not the 3 new tables we have that contain x,y,z data.

created_display(obj)

Returns a nicely formatted creation date.

get_queryset(request)

Returns the query set of points where the layer contains annotations

get_urls()

Shows the HTML of the links to go to the graph, and table data.

has_add_permission(request, obj=None)

Returns false as the data is readonly

has_change_permission(request, obj=None)

Returns false as the data is readonly

has_delete_permission(request, obj=None)

Returns false as the data is readonly

list_display = ('animal', 'comments', 'owner', 'show_points', 'updated')
list_filter = ['created', 'updated', 'readonly']
property media
ordering = ['-created']
readonly_fields = ['neuroglancer_state', 'created', 'user_date', 'updated']
search_fields = ['comments']
show_points(obj)

Shows the HTML for the link to the graph of data.

view_points_3Dgraph(request, id, *args, **kwargs)

Provides a link to the 3D point graph

Parameters:

  • request – http request

  • id – id of neuroglancer_state

  • args

  • kwargs

Returns:

3dGraph in a django template

view_points_data(request, id, *args, **kwargs)

Provides the HTML link to the table data

neuroglancer.admin.datetime_format(dtime)

A method to return a nicely formatted date and time.

neuroglancer.admin.get_points_in_session(id)

Shows how many points are in data. TODO parse the JSON data and count the points.

neuroglancer.admin.make_active(modeladmin, request, queryset)

A method to set any object active

Parameters:

  • request – HTTP request.

  • queryset – set of querys used to update.

neuroglancer.admin.make_inactive(modeladmin, request, queryset)

A method to set any object inactive

Parameters:

  • request – HTTP request.

  • queryset – set of querys used to update.