def __init__(self, chartFun, isTemporal = False):
self.isTemporal = isTemporal
JPanel()
#self.setBackground(Color.LIGHT_GRAY)
self.chartFun = chartFun
self.enableChartFun = False
self.setLayout(GridLayout(6,2))
self.add(JLabel('CPU Cores'))
nprocs = ManagementFactory.getOperatingSystemMXBean().getAvailableProcessors()
procvals = sorted(set([nprocs, 1, 2, 4, 8, 16, 32, 64, 128]))
cores = JComboBox(procvals)
cores.setSelectedIndex(procvals.index(nprocs))
cores.setMaximumSize(cores.getPreferredSize())
self.cores = cores
self.add(self.cores)
self.add(JLabel('# of sims (x1000) '))
numSims = JComboBox(
map(lambda x: str((10+x)*5), range(10)) +
map(lambda x: str(x*100), range(1,11))
)
numSims.setMaximumSize(numSims.getPreferredSize())
self.numSims = numSims
self.add(self.numSims)
if isTemporal:
self.add(JLabel('"Neutral" Ne'))
self.neutral = JCheckBox()
self.neutral.addActionListener(self)
self.add(self.neutral)
else:
self.add(JLabel('"Neutral" mean Fst'))
self.neutral = JCheckBox()
self.neutral.addActionListener(self)
self.add(self.neutral)
self.add(JLabel('Force mean Fst'))
self.force = JCheckBox()
self.force.addActionListener(self)
self.add(self.force)
self.add(JLabel('Confidence interval '))
ci = JComboBox(['0.95', '0.99', '0.995'])
ci.addItemListener(self)
ci.setMaximumSize(cores.getPreferredSize())
self.ci = ci
self.add(self.ci)
self.add(JLabel('False Disc. Rate'))
fdr = JFormattedTextField(
NumberFormat.getNumberInstance(Locale.US))
fdr.setValue(0.1)
fdr.addPropertyChangeListener(self)
self.add(fdr)
self.fdr = fdr
def __init__(self, chartFun, isTemporal = False):
self.isTemporal = isTemporal
JPanel()
#self.setBackground(Color.LIGHT_GRAY)
self.chartFun = chartFun
self.enableChartFun = False
self.setLayout(GridLayout(6,2))
self.add(JLabel('CPU Cores'))
cores = JComboBox(['1', '2', '4', '8', '16', '32', '64', '128'])
nprocs = ManagementFactory.getOperatingSystemMXBean().getAvailableProcessors()
pos = min([7, log(ceil(nprocs)) / log(2)])
cores.setSelectedIndex(int(pos))
cores.setMaximumSize(cores.getPreferredSize())
self.cores = cores
self.add(self.cores)
self.add(JLabel('# of sims (x1000) '))
numSims = JComboBox(
map(lambda x: str((10+x)*5), range(10)) +
map(lambda x: str(x*100), range(1,11))
)
numSims.setMaximumSize(numSims.getPreferredSize())
self.numSims = numSims
self.add(self.numSims)
if isTemporal:
self.add(JLabel('"Neutral" Ne'))
self.neutral = JCheckBox()
self.neutral.addActionListener(self)
self.add(self.neutral)
else:
self.add(JLabel('"Neutral" mean Fst'))
self.neutral = JCheckBox()
self.neutral.addActionListener(self)
self.add(self.neutral)
self.add(JLabel('Force mean Fst'))
self.force = JCheckBox()
self.force.addActionListener(self)
self.add(self.force)
self.add(JLabel('Confidence interval '))
ci = JComboBox(['0.95', '0.99', '0.995'])
ci.addItemListener(self)
ci.setMaximumSize(cores.getPreferredSize())
self.ci = ci
self.add(self.ci)
self.add(JLabel('False Disc. Rate'))
fdr = JFormattedTextField(
NumberFormat.getNumberInstance(Locale.US))
fdr.setValue(0.1)
fdr.addPropertyChangeListener(self)
self.add(fdr)
self.fdr = fdr
def __init__(self, currency, noDecimals):
import java.lang.Double as Double
import java.text.NumberFormat as NumberFormat
import javax.swing.table.DefaultTableCellRenderer as DefaultTableCellRenderer
import com.infinitekind.moneydance.model.CurrencyType as CurrencyType
super(DefaultTableCellRenderer, self).__init__()
self.noDecimals = noDecimals
ct = currency.getTable()
relativeToName = currency.getParameter(CurrencyType.TAG_RELATIVE_TO_CURR)
if relativeToName != None:
self.relativeTo = ct.getCurrencyByIDString(relativeToName)
else:
self.relativeTo = ct.getBaseType()
self.noDecimalFormatter = NumberFormat.getNumberInstance()
self.noDecimalFormatter.setMinimumFractionDigits(0)
self.noDecimalFormatter.setMaximumFractionDigits(0)
def readGrinderOutFile(self, summaryData, reportDir):
# reset the test directory
# TODO this logic does not belong in a method named 'readGrinderOutFile' !
if path.isdir(reportDir):
logger.warn("Deleting previous report directory '" + reportDir + "'.")
shutil.rmtree(reportDir)
if path.isfile(reportDir):
logger.warn("Pre-existing file '" + reportDir + "' collides with report dir name. Deleting.")
os.remove(reportDir)
os.mkdir(reportDir)
templates = MavenUtilities.getCurrentDir() + os.sep + classpathtool.GA_NAME + os.sep + "templates"
shutil.copytree(templates, reportDir + os.sep + "templates")
analyzerPlugin = ga.constants.VORPAL.getPlugin("analyzer")
# add the configured response time thresholds to the analyzer columns
if CONFIG.useThresholds and len(CONFIG.rtimeThresholds) > 0:
numberFormat = NumberFormat.getNumberInstance()
list = CONFIG.rtimeThresholds
thresholds = list[:len(list) - 1]
# the first group
colName = "under %s sec" % numberFormat.format(thresholds[0])
analyzerPlugin.addColumnName(colName)
# the middle groups
if len(thresholds) > 1:
for i in range(len(thresholds) - 1):
colName = "%s to %s sec" % (numberFormat.format(thresholds[i]), numberFormat.format(thresholds[i + 1]))
analyzerPlugin.addColumnName(colName)
# the last group
name = "over %s sec" % numberFormat.format(thresholds[len(thresholds) - 1])
analyzerPlugin.addColumnName(name)
logger.warn("Starting log analysis.")
for line in summaryData.getTestDataLines():
if CONFIG.isShowTransactionData():
if line.startswith("Test") or line.startswith("(Test"):
row = self.getRow(line)
logger.debug("Adding row name %s" % row.getTxName())
analyzerPlugin.addDataRow(row)
if line.startswith("Totals"):
analyzerPlugin.setTotalsRow(self.getRow(line, True))
def __init__(self, menuHandles, manager, isDominant, systemPanel, isTemporal=False):
self.systemPanel = systemPanel
self.knownPops = 0
self.ignoreChanges = True
JPanel()
self.menuHandles = menuHandles
self.isDominant = isDominant
self.isTemporal = isTemporal
if isDominant:
self.setLayout(GridLayout(8, 2))
else:
self.setLayout(GridLayout(5, 2))
if isTemporal:
self.add(JLabel("Ne"))
ne = JFormattedTextField(NumberFormat.getNumberInstance(Locale.US))
ne.addPropertyChangeListener(self)
self.ne = ne
self.add(ne)
else:
self.add(JLabel("Attempted Fst"))
fst = JFormattedTextField(NumberFormat.getNumberInstance(Locale.US))
fst.addPropertyChangeListener(self)
self.fst = fst
self.add(fst)
self.add(JLabel("Expected total pops"))
pops = JFormattedTextField(NumberFormat.getIntegerInstance(Locale.US))
pops.addPropertyChangeListener(self)
# self.pops = JComboBox(['1', '2', '4', '8', '12', '16'])
self.pops = pops
self.add(self.pops)
if not isDominant and not isTemporal:
self.add(JLabel("Mutation model"))
self.mut = JComboBox(["Infinite Alleles", "Stepwise"])
self.mut.addItemListener(self)
self.add(self.mut)
self.add(JLabel("Subsample size"))
sampleSize = JFormattedTextField(NumberFormat.getIntegerInstance(Locale.US))
sampleSize.addPropertyChangeListener(self)
self.sampleSize = sampleSize
self.add(self.sampleSize)
if isDominant:
self.add(JLabel("Theta"))
theta = JFormattedTextField(NumberFormat.getNumberInstance(Locale.US))
theta.addPropertyChangeListener(self)
self.theta = theta
self.add(theta)
theta.setValue(0.1)
self.add(JLabel("Beta-a"))
beta1 = JFormattedTextField(NumberFormat.getNumberInstance(Locale.US))
beta1.addPropertyChangeListener(self)
self.beta1 = beta1
self.add(beta1)
beta1.setValue(0.25)
self.add(JLabel("Beta-b"))
beta2 = JFormattedTextField(NumberFormat.getNumberInstance(Locale.US))
beta2.addPropertyChangeListener(self)
self.beta2 = beta2
self.add(beta2)
beta2.setValue(0.25)
self.add(JLabel("Critical frequency"))
crit = JFormattedTextField(NumberFormat.getNumberInstance(Locale.US))
crit.addPropertyChangeListener(self)
self.crit = crit
self.add(crit)
crit.setValue(0.99)
run = JButton("Run!")
run.addActionListener(manager)
run.setActionCommand("RunFDist")
self.run = run
self.add(run)
cancel = JButton("Stop")
cancel.addActionListener(manager)
cancel.setActionCommand("CancelFDist")
self.cancel = cancel
def __init__(self,
menuHandles,
manager,
isDominant,
systemPanel,
isTemporal=False):
self.systemPanel = systemPanel
self.knownPops = 0
self.ignoreChanges = True
JPanel()
self.menuHandles = menuHandles
self.isDominant = isDominant
self.isTemporal = isTemporal
if isDominant:
self.setLayout(GridLayout(8, 2))
else:
self.setLayout(GridLayout(5, 2))
if isTemporal:
self.add(JLabel('Ne'))
ne = JFormattedTextField(NumberFormat.getNumberInstance(Locale.US))
ne.addPropertyChangeListener(self)
self.ne = ne
self.add(ne)
self.add(JLabel('Expected total samples'))
else:
self.add(JLabel('Attempted Fst'))
fst = JFormattedTextField(NumberFormat.getNumberInstance(
Locale.US))
fst.addPropertyChangeListener(self)
self.fst = fst
self.add(fst)
self.add(JLabel('Expected total pops'))
pops = JFormattedTextField(NumberFormat.getIntegerInstance(Locale.US))
pops.addPropertyChangeListener(self)
# self.pops = JComboBox(['1', '2', '4', '8', '12', '16'])
self.pops = pops
self.add(self.pops)
if not isDominant and not isTemporal:
self.add(JLabel('Mutation model'))
self.mut = JComboBox(['Infinite Alleles', 'Stepwise'])
self.mut.addItemListener(self)
self.add(self.mut)
else:
self.mut = None
self.add(JLabel('Subsample size'))
sampleSize = JFormattedTextField(
NumberFormat.getIntegerInstance(Locale.US))
sampleSize.addPropertyChangeListener(self)
self.sampleSize = sampleSize
self.add(self.sampleSize)
if isDominant:
self.add(JLabel('Theta'))
theta = JFormattedTextField(
NumberFormat.getNumberInstance(Locale.US))
theta.addPropertyChangeListener(self)
self.theta = theta
self.add(theta)
theta.setValue(0.1)
self.add(JLabel('Beta-a'))
beta1 = JFormattedTextField(
NumberFormat.getNumberInstance(Locale.US))
beta1.addPropertyChangeListener(self)
self.beta1 = beta1
self.add(beta1)
beta1.setValue(0.25)
self.add(JLabel('Beta-b'))
beta2 = JFormattedTextField(
NumberFormat.getNumberInstance(Locale.US))
beta2.addPropertyChangeListener(self)
self.beta2 = beta2
self.add(beta2)
beta2.setValue(0.25)
self.add(JLabel('Critical frequency'))
crit = JFormattedTextField(
NumberFormat.getNumberInstance(Locale.US))
crit.addPropertyChangeListener(self)
self.crit = crit
self.add(crit)
crit.setValue(0.99)
run = JButton('Run!')
run.addActionListener(manager)
run.setActionCommand('RunFDist')
self.run = run
self.add(run)
def run( self ) :
#---------------------------------------------------------------------------
# Name: label()
# Role: Instantiate a Right aligned label with the specified text
#---------------------------------------------------------------------------
def label( text ) :
return JLabel(
text + ' ',
horizontalAlignment = SwingConstants.RIGHT
)
frame = JFrame(
'PropertyListener',
layout = BorderLayout(),
locationRelativeTo = None,
size = ( 400, 300 ),
defaultCloseOperation = JFrame.EXIT_ON_CLOSE
)
pane = JPanel( layout = GridLayout( 0, 2 ) )
pane.add( label( 'Number:' ) )
pane.add(
JFormattedTextField(
NumberFormat.getNumberInstance(),
value = 12345.67890,
columns = 10,
propertyChange = self.changed
)
)
pane.add( label( 'Currency:' ) )
pane.add(
JFormattedTextField(
NumberFormat.getCurrencyInstance(),
value = 12345.67890,
columns = 10,
propertyChange = self.changed
)
)
frame.add(
JSplitPane(
JSplitPane.HORIZONTAL_SPLIT,
pane,
JButton(
'Clear',
actionPerformed = self.clear
),
),
BorderLayout.NORTH
)
self.textArea = JTextArea(
rows = 10,
columns = 40,
editable = 0,
focusable = 0,
font = Font( 'Courier' , Font.BOLD, 12 )
)
frame.add(
JScrollPane( self.textArea ),
BorderLayout.CENTER
)
frame.setVisible( 1 )