optimization/full-profile-ENSG000000157764-to-display-chrome.txt

   1  Total new objects: 3207143
   2
   3 count           exec(ms)
   4 --------        --------        ------------------------------
   5 ...2100182      ....-24750              undefined[]
   6 ....504006      ......2661              java.lang.StringBuilder
   7 ....436463      ......1022              java.util.HashMap.Node
   8 ....411205      .......708              jalview.datamodel.Annotation
   9 ....232907      .......323              Float
  10 ....215619      .......902              jalview.datamodel.features.FeatureStore$SearchCriterion$3
  11 ....206107      .......370              java.awt.Color
  12 ....206007      .......387              Integer
  13 ....205602      .......863              jalview.datamodel.ResidueCount
  14 ....205602      .......427              jalview.datamodel.Profile
  15 ....172921      ......1119              java.util.ArrayList.Itr
  16 ....170025      .....-2281              Object[]
  17 ....139805      .......151              Long
  18 ....138605      .......377              swingjs.json.JSON.JSONList
  19 ....108563      .......372              java.util.HashMap
  20 ....108553      .....-1316              java.util.HashMap.Node[]
  21 ....107812      ......3263              jalview.datamodel.SequenceFeature
  22 .....79143      .......375              java.util.ArrayList
  23 .....61212      .......381              java.util.HashMap.EntryIterator
  24 .....52231      .......467              java.util.HashMap.EntrySet
  25 .....47590      .......294              swingjs.json.JSON.JSONMap
  26 .....46224      ........94              swingjs.json.JSON.JSONList.ListIterator
  27 ......7084      .......187              jalview.datamodel.features.NCNode
  28 ......3870      ........10              jalview.analysis.AlignmentUtils.DnaVariant
  29 ......3051      ........30              java.awt.Dimension
  30 ......2153      ........14              java.beans.PropertyChangeEvent
  31 ......1567      .........4              jalview.datamodel.SequenceCursor
  32 ......1356      .........6              java.util.LinkedHashMap.Entry
  33 ......1329      ........46              jalview.datamodel.features.NCList
  34 ......1290      .......-16              java.util.ArrayList[]
  35 .......687      .........4              java.util.Hashtable.Entry
  36 .......684      .........5              jalview.datamodel.DBRefEntry
  37 .......505      .........6              java.util.TreeMap.ValueIterator
  38 .......479      .........2              javax.swing.event.EventListenerList
  39 .......449      .........6              java.util.ArrayList.SubList
  40 .......449      .........4              java.util.HashSet
  41 .......449      .........4              java.util.ArrayList$SubList$1
  42 .......444      .........1              jalview.datamodel.HiddenCursorPosition
  43 .......402      ........-5              java.lang.Class[]
  44 .......383      .........4              javajs.util.Lst
  45 .......346      .........1              java.awt.geom.AffineTransform
  46 .......346      .........1              java.awt.BasicStroke
  47 .......290      ........-4              java.beans.PropertyChangeListener[]
  48 .......287      .........3              java.util.Hashtable.Enumerator
  49 .......280      .........5              java.awt.Rectangle
  50 .......276      .........4              java.util.TreeMap.EntryIterator
  51 .......274      ........-5              java.awt.Component[]
  52 .......261      .........2              java.beans.PropertyChangeSupport
  53 .......261      .........1              java.beans.PropertyChangeSupport.PropertyChangeListenerMap
  54 .......226      .........1              java.util.Collections.UnmodifiableSet
  55 .......219      .........0              com.stevesoft.pat.StrPos
  56 .......206      .........1              java.awt.AWTEventMulticaster
  57 .......200      .........2              java.util.HashMap.KeySet
  58 .......200      .........2              java.util.HashMap.KeyIterator
  59 .......198      .........4              javax.swing.plaf.ComponentInputMapUIResource
  60 .......187      .........2              java.util.Arrays.ArrayList
  61 .......182      .........2              java.awt.event.ContainerEvent
  62 .......176      ........-3              java.util.Hashtable.Entry[]
  63 .......173      .........1              javax.swing.ActionMap
  64 .......173      ........-2              javax.swing.KeyStroke[]
  65 .......171      .........2              java.awt.Insets
  66 .......169      .........2              javax.swing.JMenuItem.MenuItemFocusListener
  67 .......169      .........2              javax.swing.AbstractButton.Handler
  68 .......169      .........1              swingjs.plaf.ButtonListener
  69 .......154      .........1              javax.swing.KeyboardManager.ComponentKeyStrokePair
  70 .......138      .........1              jalview.datamodel.PDBEntry
  71 .......136      .........1              java.util.Vector.Itr
  72 .......130      .........1              javajs.util.SB
  73 .......120      .........2              java.io.BufferedInputStream
  74 .......120      .........1              java.io.ByteArrayInputStream
  75 .......116      .........2              javax.swing.DefaultButtonModel
  76 .......112      .........2              java.lang.StringBuffer
  77 .......108      .........3              java.awt.EventDispatchThread$1
  78 .......100      .........1              jalview.datamodel.features.FeatureStore$SearchCriterion$2
  79 ........99      .........1              javax.swing.event.ChangeEvent
  80 ........94      .......514              javax.swing.JMenuItem
  81 ........91      .........2              java.awt.event.MouseEvent
  82 ........88      .........2              java.util.Hashtable
  83 ........88      .........0              java.util.TreeMap.Entry
  84 ........77      .........0              javax.swing.ArrayTable
  85 ........72      .........2              jalview.datamodel.features.FeatureStore
  86 ........72      .........1              java.util.TreeMap
  87 ........69      ........-1              java.util.concurrent.ConcurrentHashMap.HashEntry[]
  88 ........67      .......277              jalview.datamodel.Sequence
  89 ........67      ........18              jalview.datamodel.features.SequenceFeatures
  90 ........66      .........2              java.net.URL
  91 ........64      .........1              javajs.util.AjaxURLConnection
  92 ........64      .........0              java.util.concurrent.ConcurrentHashMap.Segment
  93 ........63      ........-1              jalview.datamodel.SequenceGroup[]
  94 ........60      .........2              java.util.Collections$UnmodifiableCollection$1
  95 ........60      .........0              javax.swing.SizeRequirements
  96 ........57      .........2              java.awt.EventDispatchThread
  97 ........57      .........1              java.awt.EventDispatchThread.HierarchyEventFilter
  98 ........54      .........3              swingjs.json.JSON.JSONReader
  99 ........53      .........1              javax.swing.JToggleButton.ToggleButtonModel
 100 ........53      .........1              java.util.ArrayList.ListItr
 101 ........53      ........-1              swingjs.api.js.DOMNode[]
 102 ........51      .........0              java.awt.EventQueueItem
 103 ........51      ........-1              jalview.datamodel.SequenceI[]
 104 ........44      .........0              jalview.util.LinkedIdentityHashSet.IdentityWrapper
 105 ........39      .........4              jalview.datamodel.HiddenColumnsCursor
 106 ........38      .........0              java.lang.StackTraceElement
 107 ........35      ........90              javax.swing.JCheckBoxMenuItem
 108 ........34      .........5              jalview.util.MapList
 109 ........33      .........2              jalview.ext.ensembl.EnsemblXref
 110 ........33      .........1              java.util.StringTokenizer
 111 ........33      .........1              jalview.datamodel.Sequence.DBModList
 112 ........33      .........0              jalview.renderer.ScaleRenderer.ScaleMark
 113 ........32      .........0              java.util.Collections.SynchronizedRandomAccessList
 114 ........31      .........0              java.lang.reflect.Constructor
 115 ........31      .........0              java.awt.Point
 116 ........31      .........0              com.stevesoft.pat.oneChar
 117 ........30      .........0              javax.swing.KeyStroke
 118 ........30      .........0              javax.swing.ComponentInputMap
 119 ........28      .........0              com.stevesoft.pat.patInt
 120 ........27      .........0              java.util.Vector
 121 ........24      .........1              javax.swing.DefaultSingleSelectionModel
 122 ........23      .........1              java.util.SubList$1
 123 ........23      .........0              java.util.TreeMap.Values
 124 ........23      .........0              java.util.TreeMap.EntrySet
 125 ........23      .........0              java.util.AbstractList.ListItr
 126 ........23      .........0              jalview.datamodel.Mapping
 127 ........22      .........8              javax.swing.JPopupMenu
 128 ........22      .........5              javax.swing.JPopupMenu.Separator
 129 ........22      .........1              javax.swing.JMenu.MenuChangeListener
 130 ........22      .........1              java.util.TimSort
 131 ........22      .........1              java.util.RandomAccessSubList
 132 ........22      .........0              swingjs.plaf.JSPopupMenuUI.JSMenuKeyListener
 133 ........22      .........0              javax.swing.JMenu.WinListener
 134 ........21      ........16              javax.swing.JMenu
 135 ........21      .........1              jalview.ext.ensembl.EnsemblProtein
 136 ........21      .........1              jalview.ext.ensembl.EnsemblCdna
 137 ........20      .........0              java.awt.FlowLayout
 138 ........18      ........98              javax.swing.JRadioButtonMenuItem
 139 ........18      .........0              java.util.Formatter.Flags
 140 ........18      .........0              java.awt.event.ItemEvent
 141 ........18      .........0              java.awt.event.InvocationEvent
 142 ........18      .........0              java.awt.BorderLayout
 143 ........16      .........0              jalview.datamodel.features.FeatureAttributes.AttributeData
 144 ........15      .........5              javax.swing.JPanel
 145 ........15      .........0              javax.swing.JComponent$2
 146 ........14      .......183              jalview.datamodel.Alignment
 147 ........14      .........8              jalview.datamodel.HiddenColumns
 148 ........14      .........1              java.util.LinkedList.ListItr
 149 ........14      .........1              jalview.schemes.JalviewColourScheme
 150 ........14      .........0              jalview.gui.ColourMenuHelper$3
 151 ........14      .........0              jalview.datamodel.HiddenSequences
 152 ........13      .........1              java.util.LinkedHashMap
 153 ........13      .........1              jalview.util.ReverseListIterator
 154 ........12      .........0              java.awt.AlphaComposite
 155 ........11      .........0              jalview.jbgui.GAlignFrame$1
 156 ........10      .........0              java.util.BitSet
 157 ........10      .........0              java.awt.geom.Rectangle2D.Float
 158 ........10      .........0              java.awt.Color[]
 159 .........9      .........1              java.util.LinkedHashMap.LinkedEntrySet
 160 .........9      .........0              java.util.LinkedHashMap.LinkedEntryIterator
 161 .........8      .........1              java.util.Formatter.FormatSpecifier
 162 .........8      .........0              java.util.Formatter.FixedString
 163 .........8      .........0              java.awt.Font
 164 .........8      .........0              com.stevesoft.pat.Pthings
 165 .........7      .........0              javax.swing.text.Segment
 166 .........7      .........0              java.util.concurrent.ConcurrentHashMap.HashEntry
 167 .........7      .........0              java.awt.event.ComponentEvent
 168 .........7      .........0              com.stevesoft.pat.Bracket
 169 .........6      .........0              swingjs.JSFontMetrics
 170 .........6      .........0              javax.swing.SizeRequirements[]
 171 .........6      .........0              javax.swing.DefaultBoundedRangeModel
 172 .........6      .........0              java.util.Formatter.FormatString[]
 173 .........6      .........0              java.util.AbstractList.Itr
 174 .........6      .........0              jalview.datamodel.Range
 175 .........6      .........0              com.stevesoft.pat.SubMark
 176 .........6      .........0              com.stevesoft.pat.Range
 177 .........6      .........0              com.stevesoft.pat.OrMark
 178 .........6      .........0              com.stevesoft.pat.FastMulti
 179 .........5      .........1              swingjs.JSGraphics2D
 180 .........5      .........0              sun.java2d.StateTrackableDelegate
 181 .........5      .........0              javax.swing.event.InternalFrameEvent
 182 .........5      .........0              java.awt.RenderingHints
 183 .........5      .........0              jalview.renderer.ResidueShader
 184 .........5      .........0              Boolean
 185 .........4      .........2              javax.swing.JLabel
 186 .........4      .........1              java.util.concurrent.ConcurrentHashMap
 187 .........4      .........1              jalview.analysis.AnnotationSorter
 188 .........4      .........0              sun.java2d.StateTrackable.State
 189 .........4      .........0              javax.swing.JScrollBar.ModelListener
 190 .........4      .........0              java.util.concurrent.ConcurrentHashMap.Segment[]
 191 .........4      .........0              java.awt.geom.RectIterator
 192 .........4      .........0              java.awt.event.AdjustmentEvent
 193 .........4      .........0              jalview.ext.ensembl.EnsemblSeqProxy.EnsemblSeqType
 194 .........4      .........0              jalview.analysis.AnnotationSorter$3
 195 .........4      .........0              jalview.analysis.AnnotationSorter$2
 196 .........4      .........0              jalview.analysis.AnnotationSorter$1
 197 .........4      .........0              com.stevesoft.pat.End
 198 .........4      ........-2              jalview.datamodel.Annotation[]
 199 .........3      ........81              java.awt.image.BufferedImage
 200 .........3      .........9              java.awt.image.DataBufferInt
 201 .........3      .........5              java.awt.image.DirectColorModel
 202 .........3      .........0              swingjs.JSToolkit$1
 203 .........3      .........0              sun.font.FontDesignMetrics.KeyReference
 204 .........3      .........0              sun.font.FontDesignMetrics
 205 .........3      .........0              javax.swing.ButtonGroup
 206 .........3      .........0              java.util.regex.Matcher
 207 .........3      .........0              java.util.Collections.SynchronizedSet
 208 .........3      .........0              java.awt.image.SinglePixelPackedSampleModel
 209 .........3      .........0              java.awt.GridLayout
 210 .........3      .........0              jalview.schemes.NucleotideColourScheme
 211 .........3      .........0              jalview.renderer.ScaleRenderer
 212 .........3      .........0              jalview.gui.AnnotationPanel.DragMode
 213 .........3      .........0              jalview.datamodel.features.FeatureAttributes.Datatype
 214 .........3      .........0              jalview.datamodel.VisibleContigsIterator
 215 .........3      .........0              jalview.datamodel.StartRegionIterator
 216 .........3      .........0              jalview.analysis.AnnotationSorter.SequenceAnnotationOrder
 217 .........2      .........8              javax.swing.JScrollBar
 218 .........2      .........7              javax.swing.JScrollPane.ScrollBar
 219 .........2      .........7              javax.swing.JProgressBar
 220 .........2      .........2              java.lang.IndexOutOfBoundsException
 221 .........2      .........2              com.stevesoft.pat.Regex
 222 .........2      .........1              jalview.datamodel.AlignmentAnnotation
 223 .........2      .........0              javax.swing.text.AbstractDocument.DefaultDocumentEvent
 224 .........2      .........0              javax.swing.event.UndoableEditEvent
 225 .........2      .........0              javax.swing.border.LineBorder
 226 .........2      .........0              javax.swing.JProgressBar.ModelListener
 227 .........2      .........0              java.util.LinkedHashMap.LinkedValues
 228 .........2      .........0              java.util.LinkedHashMap.LinkedValueIterator
 229 .........2      .........0              java.util.IdentityHashMap.KeyIterator
 230 .........2      .........0              java.util.Hashtable.KeySet
 231 .........2      .........0              java.util.Collections.SynchronizedCollection
 232 .........2      .........0              java.util.Collections.SingletonList
 233 .........2      .........0              java.util.Collections$1
 234 .........2      .........0              java.util.ArrayDeque
 235 .........2      .........0              java.lang.Thread
 236 .........2      .........0              java.lang.StackTraceElement[]
 237 .........2      .........0              java.awt.geom.Path2D.Float.CopyIterator
 238 .........2      .........0              java.awt.geom.Path2D.Float
 239 .........2      .........0              java.awt.event.ActionEvent
 240 .........2      .........0              java.awt.Container
 241 .........2      .........0              jalview.util.IntRangeComparator
 242 .........2      .........0              jalview.io.SequenceAnnotationReport
 243 .........2      .........0              jalview.gui.AlignmentPanel[]
 244 .........2      .........0              jalview.ext.ensembl.EnsemblSequenceFetcher.EnsemblFeatureType[]
 245 .........2      .........0              jalview.ext.ensembl.EnsemblLookup
 246 .........2      .........0              jalview.datamodel.features.RangeComparator
 247 .........2      .........0              jalview.datamodel.SearchResults
 248 .........2      .........0              jalview.datamodel.AlignmentAnnotation[]
 249 .........2      .........0              jalview.controller.AlignViewController
 250 .........2      .........0              com.stevesoft.pat.patInf
 251 .........2      .........0              com.stevesoft.pat.Rthings
 252 .........2      .........0              com.stevesoft.pat.Or
 253 .........2      .........0              com.stevesoft.pat.NullPattern
 254 .........1      .....14506              jalview.gui.AlignFrame
 255 .........1      ......1341              jalview.gui.AlignViewport
 256 .........1      .......249              jalview.gui.AlignmentPanel
 257 .........1      ........85              jalview.gui.SeqPanel
 258 .........1      ........84              jalview.schemes.ColourSchemes
 259 .........1      ........53              jalview.gui.SeqCanvas
 260 .........1      ........26              jalview.gui.IdPanel
 261 .........1      ........13              javax.swing.JTabbedPane
 262 .........1      ........11              jalview.io.FileFormats
 263 .........1      ........10              jalview.gui.FeatureRenderer
 264 .........1      .........9              javax.swing.JScrollPane
 265 .........1      .........9              javax.swing.JInternalFrame.JDesktopIcon
 266 .........1      .........8              jalview.datamodel.ColumnSelection.IntList
 267 .........1      .........8              jalview.datamodel.ColumnSelection
 268 .........1      .........7              sun.awt.image.SunWritableRaster$1
 269 .........1      .........7              jalview.gui.AnnotationPanel
 270 .........1      .........5              javax.swing.JToolTip
 271 .........1      .........4              jalview.jbgui.GAlignFrame$72
 272 .........1      .........3              jalview.gui.SequenceRenderer
 273 .........1      .........3              jalview.ext.ensembl.EnsemblLookup$1
 274 .........1      .........2              javax.swing.JRootPane
 275 .........1      .........2              jalview.io.gff.SequenceOntologyLite
 276 .........1      .........2              jalview.gui.ViewSelectionMenu
 277 .........1      .........1              swingjs.JSKeyEvent
 278 .........1      .........1              javax.swing.text.GapContent.RemoveUndo
 279 .........1      .........1              javax.swing.JViewport
 280 .........1      .........1              javax.swing.JMenuBar
 281 .........1      .........1              jalview.util.LinkedIdentityHashSet$1
 282 .........1      .........1              jalview.gui.ScalePanel
 283 .........1      .........1              jalview.gui.IdwidthAdjuster
 284 .........1      .........1              jalview.gui.IdCanvas
 285 .........1      .........1              jalview.gui.AnnotationLabels
 286 .........1      .........0              swingjs.plaf.Resizer
 287 .........1      .........0              swingjs.plaf.LazyActionMap
 288 .........1      .........0              swingjs.plaf.JSTabbedPaneUI.TabbedPaneLayout
 289 .........1      .........0              swingjs.plaf.JSTabbedPaneUI.Handler
 290 .........1      .........0              swingjs.plaf.JSScrollPaneUI.Handler
 291 .........1      .........0              swingjs.plaf.JSMenuBarUI.Handler
 292 .........1      .........0              swingjs.plaf.JSInternalFrameUI.Handler
 293 .........1      .........0              swingjs.plaf.DefaultMenuLayout
 294 .........1      .........0              swingjs.JSMouse
 295 .........1      .........0              swingjs.JSFrameViewer
 296 .........1      .........0              sun.java2d.StateTrackable.State[]
 297 .........1      .........0              javax.swing.text.GapContent.UndoPosRef
 298 .........1      .........0              javax.swing.text.GapContent.InsertUndo
 299 .........1      .........0              javax.swing.plaf.basic.BasicBorders.MarginBorder
 300 .........1      .........0              javax.swing.ScrollPaneLayout.UIResource
 301 .........1      .........0              javax.swing.JViewport.ViewListener
 302 .........1      .........0              javax.swing.JTabbedPane.ModelListener
 303 .........1      .........0              javax.swing.JRootPane.RootLayout
 304 .........1      .........0              javax.swing.JRootPane$1
 305 .........1      .........0              javax.swing.JLayeredPane
 306 .........1      .........0              javax.swing.JComponent.IntVector
 307 .........1      .........0              javajs.util.AjaxURLStreamHandler
 308 .........1      .........0              javajs.api.JSFunction[]
 309 .........1      .........0              java.util.concurrent.locks.ReentrantReadWriteLock.WriteLock
 310 .........1      .........0              java.util.concurrent.locks.ReentrantReadWriteLock.ReadLock
 311 .........1      .........0              java.util.concurrent.locks.ReentrantReadWriteLock
 312 .........1      .........0              java.util.concurrent.ConcurrentHashMap.KeySet
 313 .........1      .........0              java.util.concurrent.ConcurrentHashMap.KeyIterator
 314 .........1      .........0              java.util.LinkedHashMap.LinkedKeySet
 315 .........1      .........0              java.util.LinkedHashMap.LinkedKeyIterator
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