def done(self, form_list, **kwargs):
container = self.get_cleaned_data_for_step('container')['container']
dataset = self.get_cleaned_data_for_step('container')['dataset']
has_scales = self.get_cleaned_data_for_step('container')['has_scales']
slicing_dims = self.get_cleaned_data_for_step('stack')['slicing_dims']
title = self.get_cleaned_data_for_step('stack')['title']
dimension = self.get_cleaned_data_for_step('stack')['dimension']
resolution = self.get_cleaned_data_for_step('stack')['resolution']
downsample_factors = self.get_cleaned_data_for_step(
'stack')['downsample_factors']
block_size = self.get_cleaned_data_for_step('stack')['block_size']
image_base = n5_source_url(container, dataset, has_scales,
slicing_dims)
stack = Stack(title=title,
dimension=dimension,
resolution=resolution,
downsample_factors=downsample_factors)
stack.save()
mirror = StackMirror.objects.create(title='default',
stack=stack,
image_base=image_base,
file_extension='',
tile_width=block_size.x,
tile_height=block_size.y,
tile_source_type=TILE_SOURCE_TYPE)
msg = 'A new stack was successfully created.'
messages.add_message(self.request, messages.SUCCESS, msg)
return redirect(f'catmaid/stack/{stack.id}/change/')
def insert_stack(self):
s = Stack()
s.title = "Example Stack"
s.dimension = Integer3D(x=2048, y=1536, z=460)
s.resolution = Double3D(x=5.0001, y=5.0002, z=9.0003)
s.num_zoom_levels = -1
s.save()
sm = StackMirror()
sm.stack = s
sm.image_base = "http://incf.ini.uzh.ch/image-stack-fib/"
sm.file_extension = 'jpg'
sm.tile_width = 256
sm.tile_height = 256
sm.tile_source_type = 1
sm.save()
return s
def insert_stack(self):
s = Stack()
s.title = "Example Stack"
s.dimension = Integer3D(x=2048, y=1536, z=460)
s.resolution = Double3D(x=5.0001, y=5.0002, z=9.0003)
s.num_zoom_levels = -1
s.save()
sm = StackMirror()
sm.stack = s
sm.image_base = "http://incf.ini.uzh.ch/image-stack-fib/"
sm.file_extension = 'jpg'
sm.tile_width = 256
sm.tile_height = 256
sm.tile_source_type = 1
sm.save()
return s
def done(self, form_list, **kwargs):
dvid_server = self.get_cleaned_data_for_step('server')['server']
dvid_repo = self.get_cleaned_data_for_step('stack')['repository']
dvid_instance = self.get_cleaned_data_for_step('stack')['instance']
title = self.get_cleaned_data_for_step('confirm')['title']
comment = self.get_cleaned_data_for_step('confirm')['comment']
description = self.get_cleaned_data_for_step('confirm')['description']
dc = dvid.DVIDClient(dvid_server)
stack_data = dc.get_instance_properties(dvid_repo, dvid_instance)
dimension = (stack_data['dimension']['x'],
stack_data['dimension']['y'],
stack_data['dimension']['z'])
resolution = (stack_data['resolution']['x'],
stack_data['resolution']['y'],
stack_data['resolution']['z'])
ortho_stacks = self.get_cleaned_data_for_step(
'confirm')['ortho_stacks']
new_project = self.get_cleaned_data_for_step('confirm')['new_project']
# Create DVID stacks and return to admin home
views = ((0, 'XY'), (1, 'XZ'), (2, 'ZY'))
new_stacks = []
for view, label in views:
suffix = ' ' + label if ortho_stacks else ''
stack = Stack(title=title + suffix,
comment=comment,
dimension=dimension,
resolution=resolution,
num_zoom_levels=stack_data['zoom_levels'],
description=description)
stack.save()
mirror = StackMirror.objects.create(
stack=stack,
image_base=stack_data['image_base'],
file_extension=stack_data['file_extension'],
tile_width=stack_data['tile_width'],
tile_height=stack_data['tile_height'],
tile_source_type=stack_data['tile_source_type'])
new_stacks.append((view, stack))
if new_project:
project = Project(title=title, comment=None)
project.save()
# Create three links, each with a different orientation, if an
# ortho project should be created. Link only one XY view otherwise.
views = (0, 1, 2) if ortho_stacks else (0, )
for view, stack in new_stacks:
ps = ProjectStack(project=project,
stack=stack,
orientation=view)
ps.save()
# Create a stack group if there are more than one views
if len(views) > 1:
view_relation = StackGroupRelation.objects.get(name='view')
sg = StackGroup.objects.create(title=project.title)
for view, stack in new_stacks:
StackStackGroup.objects.create(
group_relation=view_relation,
stack=stack,
stack_group=sg,
position=view)
if new_project:
if ortho_stacks:
msg = ('Three new DVID based stacks have been created and '
'linked to a projcet named "%s" with orientations XY, '
'XZ and ZY' % title)
else:
msg = ('A new DVID based stack was successfully created and '
'linked to a new project named "%s".' % title)
else:
msg = 'A new DVID based stack was successfully created.'
messages.add_message(self.request, messages.SUCCESS, msg)
return redirect('admin:index')
def done(self, form_list, **kwargs):
dvid_server = self.get_cleaned_data_for_step('server')['server']
dvid_repo = self.get_cleaned_data_for_step('stack')['repository']
dvid_instance = self.get_cleaned_data_for_step('stack')['instance']
title = self.get_cleaned_data_for_step('confirm')['title']
comment = self.get_cleaned_data_for_step('confirm')['comment']
metadata = self.get_cleaned_data_for_step('confirm')['metadata']
dc = dvid.DVIDClient(dvid_server)
stack_data = dc.get_instance_properties(dvid_repo, dvid_instance)
dimension = (stack_data['dimension']['x'], stack_data['dimension']['y'],
stack_data['dimension']['z'])
resolution = (stack_data['resolution']['x'], stack_data['resolution']['y'],
stack_data['resolution']['z'])
ortho_stacks = self.get_cleaned_data_for_step('confirm')['ortho_stacks']
new_project = self.get_cleaned_data_for_step('confirm')['new_project']
# Create DVID stacks and return to admin home
views = (
(0, 'XY'),
(1, 'XZ'),
(2, 'ZY'))
new_stacks = []
for view, label in views:
suffix = ' ' + label if ortho_stacks else ''
stack = Stack(
title=title + suffix,
comment=comment,
dimension=dimension,
resolution=resolution,
image_base=stack_data['image_base'],
trakem2_project=False,
num_zoom_levels=stack_data['zoom_levels'],
file_extension=stack_data['file_extension'],
tile_width=stack_data['tile_width'],
tile_height=stack_data['tile_height'],
tile_source_type=stack_data['tile_source_type'],
metadata=metadata)
stack.save()
new_stacks.append((view, stack))
if new_project:
project = Project(title=title, comment=None)
project.save()
# Create three links, each with a different orientation, if an
# ortho project should be created. Link only one XY view otherwise.
views = (0, 1, 2) if ortho_stacks else (0,)
for view, stack in new_stacks:
ps = ProjectStack(project=project,
stack=stack,
orientation=view)
ps.save()
# Create a stack group if there are more than one views
if len(views) > 1:
has_view = Relation.objects.get(project=project,
relation_name='has_view')
stack_group = Class.objects.get(project=project,
class_name='stackgroup')
sg = ClassInstance.objects.create(
user=self.request.user,
project=project,
class_column=stack_group,
name=project.title)
for view, stack in new_stacks:
StackClassInstance.objects.create(
user=self.request.user,
project=project,
relation=has_view,
stack=stack,
class_instance=sg)
if new_project:
if ortho_stacks:
msg = ('Three new DVID based stacks have been created and '
'linked to a projcet named "%s" with orientations XY, '
'XZ and ZY' % title)
else:
msg = ('A new DVID based stack was successfully created and '
'linked to a new project named "%s".' % title)
else:
msg = 'A new DVID based stack was successfully created.'
messages.add_message(self.request, messages.SUCCESS, msg)
return HttpResponseRedirect('/admin/')
def done(self, form_list, **kwargs):
dvid_server = self.get_cleaned_data_for_step('server')['server']
dvid_repo = self.get_cleaned_data_for_step('stack')['repository']
dvid_instance = self.get_cleaned_data_for_step('stack')['instance']
title = self.get_cleaned_data_for_step('confirm')['title']
comment = self.get_cleaned_data_for_step('confirm')['comment']
description = self.get_cleaned_data_for_step('confirm')['description']
dc = dvid.DVIDClient(dvid_server)
stack_data = dc.get_instance_properties(dvid_repo, dvid_instance)
dimension = (stack_data['dimension']['x'], stack_data['dimension']['y'],
stack_data['dimension']['z'])
resolution = (stack_data['resolution']['x'], stack_data['resolution']['y'],
stack_data['resolution']['z'])
downsample_factors = DownsampleFactorsField.planar_default(stack_data['num_zoom_levels'])
ortho_stacks = self.get_cleaned_data_for_step('confirm')['ortho_stacks']
new_project = self.get_cleaned_data_for_step('confirm')['new_project']
# Create DVID stacks and return to admin home
views = (
(0, 'XY'),
(1, 'XZ'),
(2, 'ZY'))
new_stacks = []
for view, label in views:
suffix = ' ' + label if ortho_stacks else ''
stack = Stack(
title=title + suffix,
comment=comment,
dimension=dimension,
resolution=resolution,
downsample_factors=downsample_factors,
description=description)
stack.save()
mirror = StackMirror.objects.create(
stack=stack,
image_base=stack_data['image_base'],
file_extension=stack_data['file_extension'],
tile_width=stack_data['tile_width'],
tile_height=stack_data['tile_height'],
tile_source_type=stack_data['tile_source_type'])
new_stacks.append((view, stack))
if new_project:
project = Project(title=title, comment=None)
project.save()
# Create three links, each with a different orientation, if an
# ortho project should be created. Link only one XY view otherwise.
views = (0, 1, 2) if ortho_stacks else (0,)
for view, stack in new_stacks:
ps = ProjectStack(project=project,
stack=stack,
orientation=view)
ps.save()
# Create a stack group if there are more than one views
if len(views) > 1:
view_relation = StackGroupRelation.objects.get(name='view')
sg = StackGroup.objects.create(title=project.title)
for view, stack in new_stacks:
StackStackGroup.objects.create(
group_relation=view_relation,
stack=stack,
stack_group=sg,
position=view)
if new_project:
if ortho_stacks:
msg = ('Three new DVID based stacks have been created and '
'linked to a projcet named "%s" with orientations XY, '
'XZ and ZY' % title)
else:
msg = ('A new DVID based stack was successfully created and '
'linked to a new project named "%s".' % title)
else:
msg = 'A new DVID based stack was successfully created.'
messages.add_message(self.request, messages.SUCCESS, msg)
return redirect('admin:index')
