def __init__(self, mainWin, parent=None):
self.mainWin = mainWin
self.functions = SeqTabFunctions(self)
self.seqStartPB = self.mainWin.seqStartPB
self.seqStartPB.setEnabled(False)
self.includeHomeAxisRB = self.mainWin.includeHomeAxisRB
self.cycleEntryValidatePB = self.mainWin.cycleEntryValidatePB
self.clearSelectionPB = self.mainWin.clearSelectionPB
self.applyPB = self.mainWin.applyPB
self.applyRepeatPB = self.mainWin.applyRepeatPB
self.applyPB.setEnabled(False)
self.applyRepeatPB.setEnabled(False)
self.warningDialog = None
self.touchFlagCB = self.mainWin.touchFlagCB
self.cycleTable = self.mainWin.cycleTable
self.sequenceGraphicsView = self.mainWin.sequenceGraphicsView
self.baseClassL = []
self.sortBaseL = []
self.sortedCyclesL = []
self.sortCycleD = {}
self.seqList = []
self.polonatorCycleListVector = self.mainWin.polonatorCycleListVector
self.seqScene = QGraphicsScene()
self.seqScene.setSceneRect(QRectF(0, 0, self.sequenceGraphicsView.width(), self.sequenceGraphicsView.height()))
self.sequenceGraphicsView.setDragMode(QGraphicsView.RubberBandDrag)
self.sequenceGraphicsView.setScene(self.seqScene)
self.sequenceGraphicsView.mouseReleaseEvent = self.graphicsViewMouseRelease
self.sequenceGraphicsView.setRubberBandSelectionMode(Qt.ContainsItemBoundingRect)
#load most recent template
f = file(_root_dir + "/.config/.polGV.cfg", 'r')
path = json.load(f)
if path != 'None':
try:
self.functions.addSequence(path)
except:
f = file(_root_dir + "/.config/.polGV.cfg", 'w')
json.dump('None', f)
#initialize table widget
self.functions.updateCycleList(True)
self.establishConnections()
class seqTab:
def __init__(self, mainWin, parent=None):
self.mainWin = mainWin
self.functions = SeqTabFunctions(self)
self.seqStartPB = self.mainWin.seqStartPB
self.seqStartPB.setEnabled(False)
self.includeHomeAxisRB = self.mainWin.includeHomeAxisRB
self.cycleEntryValidatePB = self.mainWin.cycleEntryValidatePB
self.clearSelectionPB = self.mainWin.clearSelectionPB
self.applyPB = self.mainWin.applyPB
self.applyRepeatPB = self.mainWin.applyRepeatPB
self.applyPB.setEnabled(False)
self.applyRepeatPB.setEnabled(False)
self.warningDialog = None
self.touchFlagCB = self.mainWin.touchFlagCB
self.cycleTable = self.mainWin.cycleTable
self.sequenceGraphicsView = self.mainWin.sequenceGraphicsView
self.baseClassL = []
self.sortBaseL = []
self.sortedCyclesL = []
self.sortCycleD = {}
self.seqList = []
self.polonatorCycleListVector = self.mainWin.polonatorCycleListVector
self.seqScene = QGraphicsScene()
self.seqScene.setSceneRect(QRectF(0, 0, self.sequenceGraphicsView.width(), self.sequenceGraphicsView.height()))
self.sequenceGraphicsView.setDragMode(QGraphicsView.RubberBandDrag)
self.sequenceGraphicsView.setScene(self.seqScene)
self.sequenceGraphicsView.mouseReleaseEvent = self.graphicsViewMouseRelease
self.sequenceGraphicsView.setRubberBandSelectionMode(Qt.ContainsItemBoundingRect)
#load most recent template
f = file(_root_dir + "/.config/.polGV.cfg", 'r')
path = json.load(f)
if path != 'None':
try:
self.functions.addSequence(path)
except:
f = file(_root_dir + "/.config/.polGV.cfg", 'w')
json.dump('None', f)
#initialize table widget
self.functions.updateCycleList(True)
self.establishConnections()
def establishConnections(self):
self.seqStartPB.pressed.connect(self.start)
self.cycleEntryValidatePB.pressed.connect(self.validate)
self.clearSelectionPB.pressed.connect(self.clear)
self.applyPB.pressed.connect(self.applySeq)
self.applyRepeatPB.pressed.connect(self.applyRepeatSeq)
#prevent user from starting invalid cycle
self.cycleTable.cellChanged.connect(self.disableStart)
def disableStart(self):
self.seqStartPB.setEnabled(False)
def start(self):
print 'start'
touchFlag = "0"
for i in range(self.cycleTable.rowCount()):
if self.cycleTable.item(i,0).text() != '':
print self.cycleTable.item(i,0).text() + \
self.cycleTable.item(i,1).text() + \
self.cycleTable.item(i,2).text()
cmd = 'python ' + _root_dir + '/pol_API/G.007_fluidics/src/polonator_main.py ' + touchFlag
# os.system(cmd)
print cmd
'''
try:
with open("/home/polonator/G.007/G.007_fluidics/src/cycle_list", "w") as outfile:
for i in range(len(entry)):
outfile.write(str(self.polonatorCycleListVector[i][0]+self.polonatorCycleListVector[i][1]+self.polonatorCycleListVector[i][2]))
outfile.write('\n')
if self.touchFlagCB.currentIndex() == 1:
touchFlag = "1"
cmd = "python /home/polonator/G.007/G.007_fluidics/src/polonator_main.py "+ touchFlag
#os.system(cmd)
except IOError: #as (errno, strerror):
print "Error writing to cycle_list file, I/O error" #: ({0}): {1}".format(errno, strerror)
# self.process_start(cmd, ['pass'], "self.process_pass()")
'''
def validate(self):
self.seqStartPB.setEnabled(True)
self.functions.executeValidation()
def clear(self):
self.warningDialog = WarningDialog('Are you sure that you want to'+\
' clear the cycle list?', self.okClear)
self.warningDialog.show()
def okClear(self):
self.cycleTable.clearContents()
while len(self.baseClassL) != 0:
#Make sure to remove all repeats, base select turns bases purple
self.baseClassL[0].fill = self.baseClassL[0].red
self.baseClassL[0].baseSelect()
self.functions.updateCycleList(True)
self.applyPB.setEnabled(False)
self.applyRepeatPB.setEnabled(False)
self.warningDialog = None
def applySeq(self):
self.functions.updateCycleList(True)
self.applyPB.setEnabled(False)
self.applyRepeatPB.setEnabled(True)
def applyRepeatSeq(self):
baseClassLPreserve = []
for base in self.baseClassL:
if baseClassLPreserve.count(base) == 0:
baseClassLPreserve.append(base)
for base in baseClassLPreserve:
self.baseClassL.append(base)
self.functions.updateCycleList(True)
def graphicsViewMouseRelease(self, event):
#Create cycle name from base
if len(self.sortBaseL) != 0:
sortCycleL = []
for base in self.sortBaseL:
cycle = base.primer.primerLetter
if base.parentItem().pos().x() > base.primer.pos().x():
cycle = cycle + 'P'
else:
cycle = cycle + 'M'
cycle = cycle + base.position
self.sortCycleD.update({cycle : base})
sortCycleL.append(cycle)
#Create a plus list and a minus list
plusL = []
minusL = []
maxPos = 1
cycleCount = 0
for cycle in sortCycleL:
if cycle[1] == 'P':
plusL.append(cycle)
if cycle[1] == 'M':
minusL.append(cycle)
#Sort Plus
sortL = []
for cycle in plusL:
pos = int(cycle[2:])
if sortL.count(pos) == 0:
sortL.append(pos)
sortL.sort()
sortL.reverse()
for num in sortL:
for cycle in plusL:
pos = int(cycle[2:])
if pos == num:
self.sortedCyclesL.append(cycle)
#Sort Minus
sortL = []
for cycle in minusL:
pos = int(cycle[2:])
if sortL.count(pos) == 0:
sortL.append(pos)
sortL.sort()
sortL.reverse()
for num in sortL:
for cycle in minusL:
pos = int(cycle[2:])
if pos == num:
self.sortedCyclesL.append(cycle)
for cycle in self.sortedCyclesL:
self.baseClassL.append(self.sortCycleD[cycle])
#Reinitialize data structures
self.sortedCyclesL = []
self.sortCycleD = {}
#Empty list without jeapordizing data structure location
while len(self.sortBaseL) != 0:
self.sortBaseL.pop()
self.applyPB.setEnabled(True)