def api_get_slide_random_patch(task_id, slide_id, width):
db = get_db()
# Find out which machine the slide is currently being served from
# Get the tiff image from which to sample the region of interest
sr = get_slide_ref(slide_id)
# Get the identifiers for the slide
# TODO: what to do with project here?
(project, specimen, block, slide_name, slide_ext) = sr.get_id_tuple()
# Are we de this slide to a different node?
del_url = find_delegate_for_slide(slide_id)
# If local, call the method directly
rawbytes = None
if del_url is None:
rawbytes = get_random_patch(project, specimen, block, 'raw',
slide_name, slide_ext, 0, width,
'png').data
else:
url = '%s/dzi/random_patch/%s/%s/%s/raw/%s.%s/%d/%d.png' % (
del_url, project, specimen, block, slide_name, slide_ext, 0, width)
pr = sr.get_project_ref()
post_data = urllib.urlencode(
{'project_data': json.dumps(pr.get_dict())})
rawbytes = urllib2.urlopen(url, post_data).read()
# Send the patch
resp = make_response(rawbytes)
resp.mimetype = 'image/png'
return resp
def api_slide_job_status(task_id, slide_id, jobid):
db = get_db()
sr = get_slide_ref(slide_id)
(project, specimen, block, slide_name, slide_ext) = sr.get_id_tuple()
# Are we de this slide to a different node?
del_url = find_delegate_for_slide(slide_id)
# If local, call the method directly
if del_url is None:
return dzi_job_status(project, slide_name, jobid)
else:
url = '%s/dzi/job/%s/%s/%s/status' % (
del_url, project, slide_name, jobid)
pr = sr.get_project_ref()
post_data = urllib.urlencode({'project_data': json.dumps(pr.get_dict())})
return urllib2.urlopen(url, post_data).read()
def wrapped_view(**kwargs):
# Find or allocate an assigned worker for this slide
worker_url = find_delegate_for_slide(project=kwargs['project'],
slide_name=kwargs['slide_name'])
# If no worker, just call the method
if worker_url is None:
return view(**kwargs)
# Call the worker's method
full_url = '%s/%s' % (worker_url, request.full_path)
# Take the project information and embed it in the call as a POST parameter
pr = ProjectRef(kwargs['project'])
post_data = urllib.urlencode(
{'project_data': json.dumps(pr.get_dict())})
return urllib2.urlopen(full_url, post_data).read()
def generate_sample_patch(slide_id, sample_id, rect, dims=(512, 512), level=0):
# Find out which machine the slide is currently being served from
# Get the tiff image from which to sample the region of interest
db = get_db()
sr = get_slide_ref(slide_id)
# Get the identifiers for the slide
# TODO: what to do with project here?
(project, specimen, block, slide_name, slide_ext) = sr.get_id_tuple()
# Are we de this slide to a different node?
del_url = find_delegate_for_slide(slide_id)
# Compute the parameters
ctr_x = int((rect[0] + rect[2]) / 2.0 + 0.5)
ctr_y = int((rect[1] + rect[3]) / 2.0 + 0.5)
(w, h) = dims
x = ctr_x - ((w - int(w / 2.0)) - 1)
y = ctr_y - ((h - int(h / 2.0)) - 1)
# If local, call the method directly
rawbytes = None
if del_url is None:
rawbytes = get_patch(project, specimen, block, 'raw', slide_name,
slide_ext, level, ctr_x, ctr_y, w, h, 'png').data
else:
url = '%s/dzi/patch/%s/%s/%s/raw/%s.%s/%d/%d_%d_%d_%d.png' % (
del_url, project, specimen, block, slide_name, slide_ext, level,
ctr_x, ctr_y, w, h)
pr = sr.get_project_ref()
post_data = urllib.urlencode(
{'project_data': json.dumps(pr.get_dict())})
rawbytes = urllib2.urlopen(url, post_data).read()
# Save as PNG
with open(get_sample_patch_filename(sample_id), 'wb') as f:
f.write(rawbytes)
# Record that patch has been written
db.execute('UPDATE training_sample SET have_patch=1 where id=?',
(sample_id, ))
db.commit()
def get_sample_custom_png(id, level, w, h):
# Get the slide reference
db = get_db()
sample = db.execute('SELECT * FROM training_sample WHERE id=?',
(id, )).fetchone()
slide_id = sample['slide']
sr = get_slide_ref(slide_id)
# Get the identifiers for the slide
# TODO: what to do with project name here
(project, specimen, block, slide_name, slide_ext) = sr.get_id_tuple()
# Are we delegating this slide to a different node?
del_url = find_delegate_for_slide(slide_id)
# Compute the parameters
ctr_x = int((sample['x0'] + sample['x1']) / 2.0 + 0.5)
ctr_y = int((sample['y0'] + sample['y1']) / 2.0 + 0.5)
x = ctr_x - ((w - int(w / 2.0)) - 1)
y = ctr_y - ((h - int(h / 2.0)) - 1)
# If local, call the method directly
rawbytes = None
if del_url is None:
rawbytes = get_patch(project, specimen, block, 'raw', slide_name,
slide_ext, level, ctr_x, ctr_y, w, h, 'png').data
else:
url = '%s/dzi/patch/%s/%s/%s/raw/%s.%s/%d/%d_%d_%d_%d.png' % (
del_url, project, specimen, block, slide_name, slide_ext, level,
ctr_x, ctr_y, w, h)
pr = sr.get_project_ref()
post_data = urllib.urlencode(
{'project_data': json.dumps(pr.get_dict())})
rawbytes = urllib2.urlopen(url, post_data).read()
resp = make_response(rawbytes)
resp.mimetype = 'image/%s' % format
return resp