def layout(self, view):
BaseScene.layout(self, view)
cur = view.frame.centeredSubrect(w=800, h=600)
self.matrix.frame = cur
self.type_label.frame = view.frame.topLeftSubrect(w=240,
h=24,
margins=Size(
40, 100))
grid = Grid(frame=view.frame.bottomCenteredSubrect(w=600,
h=40,
margin=20),
itemSize=Size(120, 40),
columns=4,
rows=1,
spacing=Size(20, 0))
grid.applyToViews(
map(self.buttonWithKey, [
'togglePlotType', 'toggleCounts', 'toggleNull', 'totalCounts'
]))
grid = Grid(frame=view.frame.leftCenteredSubrect(w=120,
h=400,
margin=40),
itemSize=Size(120, 70),
columns=1,
rows=5,
spacing=Size(0, 10))
grid.applyToViews(self.data_type_views)
for dtv in self.data_type_views:
self.layoutDataTypeView(dtv)
return view
def layout(self, view):
BaseScene.layout(self, view)
cur = view.frame.centeredSubrect(w=800, h=view.frame.size.h - 100)
left = cur.leftSubrect(w=400)
self.scroller = layoutInScroller(self.tagViews, cur.leftover,
Size(300, 40), 20, self.scroller)
top = left.topSubrect(40)
left = left.leftover
self.query_label.frame = top.leftSubrect(200).centeredSubrect(w=200,
h=16)
self.buttonWithKey(
'showMatches').frame = top.leftover.leftCenteredSubrect(
size=buttonSize, margin=20)
self.query_scroller = layoutInScroller(self.queryTagViews, left,
Size(300, 40), 20,
self.query_scroller)
for tv in self.tagViews + self.queryTagViews:
f = tv.frame.bounds()
tv.name_label.frame = f.leftCenteredSubrect(w=212, h=16, margin=8)
if tv.incl:
tv.incl.frame = f.leftover.leftCenteredSubrect(w=36,
h=20,
margin=2)
if tv.excl:
tv.excl.frame = f.leftover.rightCenteredSubrect(w=36,
h=20,
margin=2)
return view
def layout(self, view):
BaseScene.layout(self, view)
cur = view.frame.centeredSubrect(w = 1000, h = view.frame.size.h - 100)
self.scroller = layoutInScroller(self.matchViews, cur, Size(1000, 14), 2, self.scroller)
for v in self.matchViews:
self.layoutMatch(v)
self.filter_label.frame = view.frame.topLeftSubrect(w = 200, h = 20, margin = 20)
return view
def layout(self, view):
BaseScene.layout(self, view)
cur = view.frame.centeredSubrect(w = 800, h = 600)
self.matrix.frame = cur
self.type_label.frame = view.frame.topLeftSubrect(w = 240, h = 24, margins = Size(40, 100))
grid = Grid(frame = view.frame.bottomCenteredSubrect(w = 600, h = 40, margin = 20), itemSize = Size(120, 40), columns = 4, rows = 1, spacing = Size(20, 0))
grid.applyToViews(map(self.buttonWithKey, [ 'togglePlotType', 'toggleCounts', 'toggleNull', 'totalCounts' ]))
grid = Grid(frame = view.frame.leftCenteredSubrect(w = 120, h = 400, margin = 40), itemSize = Size(120, 70), columns = 1, rows = 5, spacing = Size(0, 10))
grid.applyToViews(self.data_type_views)
for dtv in self.data_type_views:
self.layoutDataTypeView(dtv)
return view
def layout(self, view):
BaseScene.layout(self, view)
cur = view.frame.centeredSubrect(w = 800, h = view.frame.size.h - 100)
left = cur.leftSubrect(w = 400)
self.scroller = layoutInScroller(self.tagViews, cur.leftover, Size(300, 40), 20, self.scroller)
top = left.topSubrect(40)
left = left.leftover
self.query_label.frame = top.leftSubrect(200).centeredSubrect(w = 200, h = 16)
self.buttonWithKey('showMatches').frame = top.leftover.leftCenteredSubrect(size = buttonSize, margin = 20)
self.query_scroller = layoutInScroller(self.queryTagViews, left, Size(300, 40), 20, self.query_scroller)
for tv in self.tagViews + self.queryTagViews:
f = tv.frame.bounds()
tv.name_label.frame = f.leftCenteredSubrect(w = 212, h = 16, margin = 8)
if tv.incl:
tv.incl.frame = f.leftover.leftCenteredSubrect(w = 36, h = 20, margin = 2)
if tv.excl:
tv.excl.frame = f.leftover.rightCenteredSubrect(w = 36, h = 20, margin = 2)
return view
def layout(self, view):
BaseScene.layout(self, view)
self.buttonWithKey('dump').frame = view.frame.topLeftSubrect(size = buttonSize, margin = 20)
cols = 100
rows = 40
frame = view.frame.centeredSubrect(self.nucSize.w * cols, self.nucSize.h * rows)
grid = Grid(frame = frame, itemSize = self.nucSize, columns = cols, rows = rows)
row_idx = 4
def labelFrame(owner_parts, tag_parts):
base_frame = tag_parts[0].frame.copy()
base_frame.origin.x = owner_parts[0].frame.origin.x - 130
base_frame.size = Size(80, base_frame.size.height)
return base_frame
for part_name in ( "r1", "r2" ):
part_start = 32
part = getattr(self.pair, part_name)
if part_name == "r2":
row_idx = 20
grid.setLocation(part_start, row_idx)
grid.applyToViews(self.parts[part_name])
self.labels[part_name].frame = labelFrame(self.parts[part_name], self.parts[part_name])
for tindex in range(len(part.tags)):
tag = part.tags[tindex]
tseq = self.tag_seqs[tag[0]]
match_index = tag[3]
tstart = max(0, match_index - 4)
col = part_start + tag[1] - (match_index - tstart)
row_idx += 1
#print(part_name + tag[0] + ": {} , {}".format(col, row_idx))
grid.setLocation(col, row_idx)
grid.applyToViews(self.parts[part_name + str(tindex)])
self.labels[part_name + str(tindex)].frame = labelFrame(self.parts[part_name], self.parts[part_name + str(tindex)])
return view
def layout(self, view):
BaseScene.layout(self, view)
cur = view.frame.centeredSubrect(w = 300, h = view.frame.size.h - 100)
self.scroller = layoutInScroller(self.targetViews, cur, Size(200, 40), 20, self.scroller)
return view
def layout(self, view):
BaseScene.layout(self, view)
cur = view.frame.centeredSubrect(w=300, h=view.frame.size.h - 100)
self.scroller = layoutInScroller(self.targetViews, cur, Size(200, 40),
20, self.scroller)
return view
def layout(self, view):
BaseScene.layout(self, view)
cols = 100
rows = 40
frame = view.frame.centeredSubrect(self.nucSize.w * cols, self.nucSize.h * rows)
grid = Grid(frame = frame, itemSize = self.nucSize, columns = cols, rows = rows)
skips = self._skips()
def skipped(idx):
ret_idx = idx
for skip in skips:
if idx > skip[0]:
ret_idx = ret_idx - skip[1] + 1 # +1 for spaces representing skips
return ret_idx
target = self.pair.target
row_idx = 4
skipped_len = skipped(target.n)
start_col = int((cols - skipped_len) / 2)
def labelFrame(tag_parts):
return Rect(grid.frame(start_col).origin.x - 140, tag_parts[0].frame.origin.y, 80, tag_parts[0].frame.size.height)
grid.setLocation(start_col, row_idx)
curskip_idx = 0
nucs = self.parts[target.name]
for idx in range(len(nucs)):
nv = nucs[idx]
if nv:
nv.frame = grid.nextFrame()
elif curskip_idx < len(skips) and idx == skips[curskip_idx][0]:
nv = self.addNucView(Nuc("/", None), [1.0, 1.0, 1.0, 0.0 ])
nv.frame = grid.nextFrame() # skip a frame
curskip_idx += 1
self.labels[target.name].frame = labelFrame(self.parts[target.name])
row_idx += (2 if self.expanded else 1)
r2tagmap = { tag[0] : tag for tag in self.pair.r2.tags }
r2match = r2tagmap.get(target.name, ("", 0, 0, 0))
grid.setLocation(start_col + skipped(r2match[3] - r2match[1]), row_idx)
grid.applyToViews(self.parts["r2"])
self.labels["r2"].frame = labelFrame(self.parts["r2"])
nucs = self.parts.get("r2" + "adapter_t_rc")
if nucs:
row_idx += 1
atag = r2tagmap["adapter_t_rc"]
grid.setLocation(start_col + skipped(r2match[3] - r2match[1] + atag[1] - atag[3]), row_idx)
grid.applyToViews(nucs)
self.labels["r2" + "adapter_t_rc"].frame = labelFrame(nucs)
r1tagmap = { tag[0] : tag for tag in self.pair.r1.tags }
r1match = r1tagmap.get(target.name + "_rc", ("", 0, 0, 0))
r1start = target.n - r1match[3] - r1match[2]
nucs = self.parts.get("r1" + target.name + "_rc")
if nucs:
row_idx += 1
grid.setLocation(start_col + skipped(r1start), row_idx)
grid.applyToViews(nucs)
self.labels["r1" + target.name + "_rc"].frame = labelFrame(nucs)
same_row = (not self.expanded) and (r1start >= r2match[3] + r2match[2])
row_idx += (0 if same_row else 1)
grid.setLocation(start_col + skipped(r1start - r1match[1]), row_idx)
grid.applyToViews(self.parts["r1"])
if same_row:
self.labels["r2"].text = "R2 / R1"
self.labels["r1"].alpha = 0
else:
self.labels["r1"].frame = labelFrame(self.parts["r1"])
nucs = self.parts.get("r1" + "adapter_b")
if nucs:
row_idx += 1
atag = r1tagmap["adapter_b"]
grid.setLocation(start_col + skipped(r1start - r1match[1] + atag[1] - atag[3]), row_idx)
grid.applyToViews(nucs)
self.labels["r1" + "adapter_b"].frame = labelFrame(nucs)
for handle in [ "YYYR", "RRRY" ]:
nucs = self.parts.get("r1" + handle)
if nucs:
row_idx += 1
grid.setLocation(start_col + skipped(r1start - r1match[1]), row_idx)
grid.applyToViews(nucs)
self.labels["r1" + handle].frame = labelFrame(nucs)
return view