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from __future__ import absolute_import
# #START_LICENSE###########################################################
#
#
# This file is part of the Environment for Tree Exploration program
# (ETE). http://etetoolkit.org
#
# ETE is free software: you can redistribute it and/or modify it
# under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later version.
#
# ETE is distributed in the hope that it will be useful, but WITHOUT
# ANY WARRANTY; without even the implied warranty of MERCHANTABILITY
# or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public
# License for more details.
#
# You should have received a copy of the GNU General Public License
# along with ETE. If not, see <http://www.gnu.org/licenses/>.
#
#
# ABOUT THE ETE PACKAGE
# =====================
#
# ETE is distributed under the GPL copyleft license (2008-2015).
#
# If you make use of ETE in published work, please cite:
#
# Jaime Huerta-Cepas, Joaquin Dopazo and Toni Gabaldon.
# ETE: a python Environment for Tree Exploration. Jaime BMC
# Bioinformatics 2010,:24doi:10.1186/1471-2105-11-24
#
# Note that extra references to the specific methods implemented in
# the toolkit may be available in the documentation.
#
# More info at http://etetoolkit.org. Contact: huerta@embl.de
#
#
# #END_LICENSE#############################################################
import types
import signal
from .qt import *
from .qt4_gui import _GUI, _PropertiesDialog, _BasicNodeActions
from . import layouts
from .main import save
from .qt4_render import _TreeScene, render, get_tree_img_map, init_tree_style
__all__ = ["show_tree", "render_tree"]
_QApp = None
GUI_TIMEOUT = None
def exit_gui(a, b):
_QApp.exit(0)
def init_scene(t, layout, ts):
global _QApp
ts = init_tree_style(t, ts)
if layout:
ts.layout_fn = layout
if not _QApp:
_QApp = QApplication(["ETE"])
scene = _TreeScene()
#ts._scale = None
return scene, ts
def show_tree(t, layout=None, tree_style=None, win_name=None):
""" Interactively shows a tree."""
scene, img = init_scene(t, layout, tree_style)
tree_item, n2i, n2f = render(t, img)
scene.init_values(t, img, n2i, n2f)
tree_item.setParentItem(scene.master_item)
scene.addItem(scene.master_item)
mainapp = _GUI(scene)
if win_name:
mainapp.setObjectName(win_name)
mainapp.show()
mainapp.on_actionFit2tree_triggered()
# Restore Ctrl-C behavior
signal.signal(signal.SIGINT, signal.SIG_DFL)
if GUI_TIMEOUT is not None:
signal.signal(signal.SIGALRM, exit_gui)
signal.alarm(GUI_TIMEOUT)
_QApp.exec_()
def render_tree(t, imgName, w=None, h=None, layout=None,
tree_style = None, header=None, units="px",
dpi=90):
""" Render tree image into a file."""
global _QApp
for nid, n in enumerate(t.traverse("preorder")):
n.add_feature("_nid", nid)
scene, img = init_scene(t, layout, tree_style)
tree_item, n2i, n2f = render(t, img)
scene.init_values(t, img, n2i, n2f)
tree_item.setParentItem(scene.master_item)
scene.master_item.setPos(0,0)
scene.addItem(scene.master_item)
if imgName.startswith("%%inline"):
imgmap = save(scene, imgName, w=w, h=h, units=units, dpi=dpi)
else:
x_scale, y_scale = save(scene, imgName, w=w, h=h, units=units, dpi=dpi)
imgmap = get_tree_img_map(n2i, x_scale, y_scale)
return imgmap
class RenderThread(QThread):
def __init__(self, tree, layout, tree_style, w, h, dpi, units, rformat):
self.tree = tree
self.layout = layout
self.tree_style = tree_style
self.w = w
self.h = h
self.dpi = dpi
self.units = units
self.return_format = rformat
self.result = None
QThread.__init__(self)
def run(self):
scene, img = init_scene(self.tree, self.layout, self.tree_style)
tree_item, n2i, n2f = render(self.tree, img)
scene.init_values(self.tree, img, n2i, n2f)
tree_item.setParentItem(scene.master_item)
scene.master_item.setPos(0, 0)
scene.addItem(scene.master_item)
x_scale, y_scale, imgdata = save(scene, self.return_format, w=self.w,
h=self.h, units=self.units, dpi=self.dpi)
if 'PNG' in self.return_format:
img_map = get_tree_img_map(n2i, x_scale, y_scale)
else:
img_map = {}
self.result = [imgdata, img_map]
def get_img(t, w=None, h=None, layout=None, tree_style = None,
header=None, units="px", dpi=90, return_format="%%return"):
global _QApp
if not _QApp:
_QApp = QApplication(["ETE"])
r = RenderThread(t, layout, tree_style, w, h, dpi, units, return_format)
r.start()
r.wait()
return r.result
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