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bhive01/R-GUI_1.72_debug_PID13961_console.log Secret

Created June 8, 2020 14:15
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R-GUI_1.72_debug_PID13961_console.log
default 07:08:27.803973-0700 runningboardd _resolveProcessWithIdentifier sysctl pid 13961 is euid 501
default 07:08:27.804017-0700 runningboardd Unable to obtain process properties from launchd for pid=13961
default 07:08:27.807630-0700 runningboardd Resolved pid 13961 to [executable<R(501)>:13961]
default 07:08:27.810751-0700 runningboardd [executable<R(501)>:13961] This process will not be managed.
default 07:08:27.810796-0700 runningboardd Now tracking process: [executable<R(501)>:13961]
default 07:08:27.819797-0700 runningboardd Acquiring assertion targeting executable<R(501)> from originator [daemon<com.apple.coreservices.launchservicesd>:142] with description <RBSAssertionDescriptor; foregroundApp:13961; ID: 413-142-2622; target: 13961> attributes = {
<RBSDomainAttribute: 0x7fd9dd752590; domain: com.apple.launchservicesd; name: RoleUserInteractiveNonFocal; sourceEnvironment: 0x0>;
}
default 07:08:27.821249-0700 runningboardd [executable<R(501)>:13961] Ignoring jetsam update because this process is not memory-managed
default 07:08:27.821353-0700 runningboardd [executable<R(501)>:13961] Ignoring resume because this process is not lifecycle managed
default 07:08:27.821461-0700 runningboardd [executable<R(501)>:13961] Set darwin role to: UserInteractiveNonFocal
default 07:08:27.821562-0700 runningboardd [executable<R(501)>:13961] Ignoring GPU update because this process is not GPU managed
default 07:08:27.829732-0700 runningboardd Acquiring assertion targeting executable<R(501)> from originator [daemon<com.apple.coreservices.launchservicesd>:142] with description <RBSAssertionDescriptor; foregroundApp:13961; ID: 413-142-2623; target: 13961> attributes = {
<RBSDomainAttribute: 0x7fd9dd4412a0; domain: com.apple.launchservicesd; name: RoleUserInteractiveNonFocal; sourceEnvironment: 0x0>;
}
default 07:08:27.849931-0700 distnoted register name: AppleColorPreferencesChangedNotification object: kCFNotificationAnyObject token: f4242 pid: 13961
default 07:08:27.853202-0700 distnoted register name: AppleAppSleepPreferencesChangedNotification object: kCFNotificationAnyObject token: f4243 pid: 13961
default 07:08:27.854650-0700 R FRONTLOGGING: version 1
default 07:08:27.854676-0700 R Registering, pid=13961
default 07:08:27.857148-0700 R CHECKIN: pid=13961
default 07:08:27.864638-0700 launchservicesd CHECKIN:0x0-0x2de2de 13961 org.R-project.R
default 07:08:27.865039-0700 R CHECKEDIN: pid=13961 asn=0x0-0x2de2de foreground=1
default 07:08:27.879955-0700 tccd PID[203] is checking access for target PID[13961]
default 07:08:27.892539-0700 R Registered, pid=13961 ASN=0x0,0x2de2de
default 07:08:27.892714-0700 R Registered, pid=13961 cgConnectionID=b3f47
default 07:08:27.895185-0700 R BringForward: pid=13961 asn=0x0-0x2de2de bringForward=1 foreground=1 uiElement=0 launchedByLS=1 modifiersCount=1 allDisabled=0
default 07:08:27.895267-0700 R BringFrontModifier: pid=13961 asn=0x0-0x2de2de Modifier 0 hideAfter=0 hideOthers=0 dontMakeFrontmost=0 mouseDown=0/0 seed=0/0
default 07:08:27.895792-0700 R BringForward: pid=13961 asn=0x0-0x2de2de
default 07:08:27.896368-0700 launchservicesd SETFRONT: pid=13961 asn=0x-0x2de2de foreground=1 oldFrontPid=1196 oldFrontASN=0x-0x139298
default 07:08:27.895930-0700 R SetFrontProcess: asn=0x0-0x2de2de options=0
default 07:08:27.897743-0700 runningboardd Acquiring assertion targeting executable<R(501)> from originator [daemon<com.apple.coreservices.launchservicesd>:142] with description <RBSAssertionDescriptor; frontmost:13961; ID: 413-142-2624; target: 13961> attributes = {
<RBSDomainAttribute: 0x7fd9dd539b30; domain: com.apple.launchservicesd; name: RoleUserInteractiveFocal; sourceEnvironment: 0x0>;
}
default 07:08:27.903261-0700 distnoted register name: AppleInterfaceMenuBarHidingChangedNotification object: kCFNotificationAnyObject token: f4244 pid: 13961
default 07:08:27.903506-0700 distnoted register name: __NSFakeMemoryPressureNotification object: kCFNotificationAnyObject token: f4245 pid: 13961
default 07:08:27.903669-0700 distnoted register name: ApplePrivateInterfaceThemeChangedNotification object: kCFNotificationAnyObject token: f4246 pid: 13961
default 07:08:27.900294-0700 runningboardd [executable<R(501)>:13961] Ignoring jetsam update because this process is not memory-managed
default 07:08:27.900535-0700 runningboardd [executable<R(501)>:13961] Set darwin role to: UserInteractiveFocal
default 07:08:27.901237-0700 runningboardd [executable<R(501)>:13961] Ignoring GPU update because this process is not GPU managed
default 07:08:27.909821-0700 R Current system appearance, (HLTB: 2), (SLS: 1)
default 07:08:27.910697-0700 distnoted register name: AppleAquaColorVariantChanged object: kCFNotificationAnyObject token: f4247 pid: 13961
default 07:08:27.914607-0700 R Post-registration system appearance: (HLTB: 2)
default 07:08:27.914458-0700 distnoted register name: AXInterfaceIncreaseContrastStatusDidChange object: kCFNotificationAnyObject token: f424a pid: 13961
default 07:08:27.914616-0700 distnoted register name: AXInterfaceClassicInvertColorStatusDidChange object: kCFNotificationAnyObject token: f424b pid: 13961
default 07:08:27.914689-0700 distnoted register name: AXInterfaceDifferentiateWithoutColorStatusDidChange object: kCFNotificationAnyObject token: f424c pid: 13961
default 07:08:27.914758-0700 distnoted register name: AXInterfaceReduceTransparencyStatusDidChange object: kCFNotificationAnyObject token: f424d pid: 13961
default 07:08:27.914827-0700 distnoted register name: AXInterfaceReduceMotionStatusDidChange object: kCFNotificationAnyObject token: f424e pid: 13961
default 07:08:27.914895-0700 distnoted register name: com.apple.universalaccess.screenPolarityDidChange object: kCFNotificationAnyObject token: f424f pid: 13961
default 07:08:27.914972-0700 distnoted register name: com.apple.universalaccess.screenGrayscaleDidChange object: kCFNotificationAnyObject token: f4250 pid: 13961
default 07:08:27.915043-0700 distnoted register name: AppleInterfaceThemeChangedNotification object: kCFNotificationAnyObject token: f4252 pid: 13961
default 07:08:27.915374-0700 distnoted register name: com.apple.universalaccess.VoiceOverSettingsDidChange object: kCFNotificationAnyObject token: f4254 pid: 13961
default 07:08:27.915524-0700 distnoted register name: UniversalAccessDomainAssistiveControlSettingsDidChangeNotification object: kCFNotificationAnyObject token: f4256 pid: 13961
default 07:08:27.915607-0700 distnoted register name: AppleNoRedisplayAppearancePreferenceChanged object: kCFNotificationAnyObject token: f425c pid: 13961
default 07:08:27.915791-0700 distnoted register name: AppleNoRedisplayAppearancePreferenceChanged object: kCFNotificationAnyObject token: f425d pid: 13961
default 07:08:27.915872-0700 distnoted register name: com.apple.AppleSpacesSwitchOnActivate object: kCFNotificationAnyObject token: f425e pid: 13961
default 07:08:27.935355-0700 distnoted register name: NSEventResetDefaults object: com.apple.AppKit.NSEventResetDefaults token: f4264 pid: 13961
default 07:08:27.935448-0700 distnoted register name: com.apple.AppleMultitouchTrackpadDomainDidChangeNotification object: kCFNotificationAnyObject token: f4265 pid: 13961
default 07:08:27.935522-0700 distnoted register name: AppleEnableSwipeNavigateWithScrollsDidChangeNotification object: kCFNotificationAnyObject token: f4266 pid: 13961
default 07:08:27.935595-0700 distnoted register name: AppleEnableMouseSwipeNavigateWithScrollsDidChangeNotification object: kCFNotificationAnyObject token: f4267 pid: 13961
default 07:08:27.935672-0700 distnoted register name: com.apple.xctest.FakeForceTouchDevice object: org.R-project.R token: f4268 pid: 13961
default 07:08:27.939806-0700 distnoted register name: AppleAquaAntiAliasingChanged object: kCFNotificationAnyObject token: f426b pid: 13961
default 07:08:27.948931-0700 R NSApp cache appearance:
-NSRequiresAquaSystemAppearance: 0
-appearance: (null)
-effectiveAppearance: <NSCompositeAppearance: 0x600000c5dc80
(
"<NSDarkAquaAppearance: 0x600000c5db00>",
"<NSSystemAppearance: 0x600000c5db80>"
)>
default 07:08:27.964627-0700 distnoted register name: com.apple.Carbon.TISNotifySelectedKeyboardInputSourceChanged object: kCFNotificationAnyObject token: f427e pid: 13961
default 07:08:27.967228-0700 distnoted register name: AppleAquaScrollBarVariantChanged object: kCFNotificationAnyObject token: f4281 pid: 13961
default 07:08:27.982933-0700 distnoted register name: com.apple.nsquiet_safe_quit_give_reason object: org.R-project.R token: f428e pid: 13961
default 07:08:27.985867-0700 distnoted register name: NSPersistentUIBitmapEncryptionKeyDidChange object: kCFNotificationAnyObject token: f4292 pid: 13961
default 07:08:28.034507-0700 distnoted register name: AppleLanguagePreferencesChangedNotification object: kCFNotificationAnyObject token: f42bc pid: 13961
default 07:08:28.037847-0700 R 0x107bb2000 - [frame=0x107bd4100, main=1] FrameLoader::setProvisionalDocumentLoader: Setting provisional document loader (m_provisionalDocumentLoader=0x107cf6000)
default 07:08:28.037868-0700 R 0x107bb2000 - [frame=0x107bd4100, main=1] FrameLoader::transitionToCommitted: Clearing provisional document loader (m_provisionalDocumentLoader=0x107cf6000)
default 07:08:28.037883-0700 R 0x107bb2000 - [frame=0x107bd4100, main=1] FrameLoader::setProvisionalDocumentLoader: Setting provisional document loader (m_provisionalDocumentLoader=0x0)
default 07:08:28.045572-0700 R 0x107cf6000 - DocumentLoader::startLoadingMainResource: Returning empty document (frame = 0x107bd4100, main = 1)
default 07:08:28.045624-0700 R 0x107bb2000 - [frame=0x107bd4100, main=1] FrameLoader::setState: main frame load completed
default 07:08:28.045655-0700 R Memory usage info dump at MainFrameLoadCompleted:
default 07:08:28.045670-0700 R document_count: 1
default 07:08:28.045686-0700 R phys_footprint: 6594560
default 07:08:28.045697-0700 R virtual_size: 6097145856
default 07:08:28.045711-0700 R resident_size: 19005440
default 07:08:28.045723-0700 R compressed: 0
default 07:08:28.045761-0700 R javascript_gc_heap_capacity: 32768
default 07:08:28.045821-0700 R javascript_gc_heap_extra_memory_size: 0
default 07:08:28.045872-0700 R backforward_cache_page_count: 0
default 07:08:28.045926-0700 R internal: 6598656
default 07:08:28.046087-0700 R 0x107b9d000 - PerformanceMonitor::measureCPUUsageInActivityState: Process is using 74.5% CPU in state: VisibleNonActive
default 07:08:28.082794-0700 R 0x107b8b000 - [frame=0x107bd4200, main=1] FrameLoader::setProvisionalDocumentLoader: Setting provisional document loader (m_provisionalDocumentLoader=0x107cf6c00)
default 07:08:28.083122-0700 R 0x107b8b000 - [frame=0x107bd4200, main=1] FrameLoader::transitionToCommitted: Clearing provisional document loader (m_provisionalDocumentLoader=0x107cf6c00)
default 07:08:28.083139-0700 R 0x107b8b000 - [frame=0x107bd4200, main=1] FrameLoader::setProvisionalDocumentLoader: Setting provisional document loader (m_provisionalDocumentLoader=0x0)
default 07:08:28.083584-0700 R 0x107cf6c00 - DocumentLoader::startLoadingMainResource: Returning empty document (frame = 0x107bd4200, main = 1)
default 07:08:28.083612-0700 R 0x107b8b000 - [frame=0x107bd4200, main=1] FrameLoader::setState: main frame load completed
default 07:08:28.083640-0700 R Memory usage info dump at MainFrameLoadCompleted:
default 07:08:28.083901-0700 R document_count: 2
default 07:08:28.083919-0700 R phys_footprint: 6729728
default 07:08:28.083931-0700 R virtual_size: 6097145856
default 07:08:28.083945-0700 R resident_size: 19177472
default 07:08:28.083957-0700 R compressed: 0
default 07:08:28.083970-0700 R javascript_gc_heap_capacity: 32768
default 07:08:28.083982-0700 R javascript_gc_heap_extra_memory_size: 0
default 07:08:28.083996-0700 R backforward_cache_page_count: 0
default 07:08:28.084440-0700 R internal: 6733824
default 07:08:28.105479-0700 distnoted register name: com.apple.userkeyequivalentsdidchange object: kCFNotificationAnyObject token: f42da pid: 13961
default 07:08:28.114631-0700 R 0x107b85000 - [frame=0x107bd4300, main=1] FrameLoader::setProvisionalDocumentLoader: Setting provisional document loader (m_provisionalDocumentLoader=0x107cf7800)
default 07:08:28.114650-0700 R 0x107b85000 - [frame=0x107bd4300, main=1] FrameLoader::transitionToCommitted: Clearing provisional document loader (m_provisionalDocumentLoader=0x107cf7800)
default 07:08:28.114665-0700 R 0x107b85000 - [frame=0x107bd4300, main=1] FrameLoader::setProvisionalDocumentLoader: Setting provisional document loader (m_provisionalDocumentLoader=0x0)
default 07:08:28.115164-0700 R 0x107cf7800 - DocumentLoader::startLoadingMainResource: Returning empty document (frame = 0x107bd4300, main = 1)
default 07:08:28.115195-0700 R 0x107b85000 - [frame=0x107bd4300, main=1] FrameLoader::setState: main frame load completed
default 07:08:28.115225-0700 R Memory usage info dump at MainFrameLoadCompleted:
default 07:08:28.115246-0700 R document_count: 3
default 07:08:28.115259-0700 R phys_footprint: 6967296
default 07:08:28.115298-0700 R virtual_size: 6097162240
default 07:08:28.115380-0700 R resident_size: 19546112
default 07:08:28.115422-0700 R compressed: 0
default 07:08:28.115492-0700 R javascript_gc_heap_capacity: 32768
default 07:08:28.115539-0700 R javascript_gc_heap_extra_memory_size: 0
default 07:08:28.115596-0700 R backforward_cache_page_count: 0
default 07:08:28.115670-0700 R internal: 6971392
default 07:08:28.157777-0700 R 0x107b81000 - [frame=0x107bd4400, main=1] FrameLoader::setProvisionalDocumentLoader: Setting provisional document loader (m_provisionalDocumentLoader=0x107cf8400)
default 07:08:28.157794-0700 R 0x107b81000 - [frame=0x107bd4400, main=1] FrameLoader::transitionToCommitted: Clearing provisional document loader (m_provisionalDocumentLoader=0x107cf8400)
default 07:08:28.157850-0700 R 0x107b81000 - [frame=0x107bd4400, main=1] FrameLoader::setProvisionalDocumentLoader: Setting provisional document loader (m_provisionalDocumentLoader=0x0)
default 07:08:28.158503-0700 R 0x107cf8400 - DocumentLoader::startLoadingMainResource: Returning empty document (frame = 0x107bd4400, main = 1)
default 07:08:28.158534-0700 R 0x107b81000 - [frame=0x107bd4400, main=1] FrameLoader::setState: main frame load completed
default 07:08:28.158562-0700 R Memory usage info dump at MainFrameLoadCompleted:
default 07:08:28.158648-0700 R document_count: 4
default 07:08:28.158826-0700 R phys_footprint: 7016448
default 07:08:28.158842-0700 R virtual_size: 6097162240
default 07:08:28.158904-0700 R resident_size: 19595264
default 07:08:28.159121-0700 R compressed: 0
default 07:08:28.159140-0700 R javascript_gc_heap_capacity: 32768
default 07:08:28.159154-0700 R javascript_gc_heap_extra_memory_size: 0
default 07:08:28.159219-0700 R backforward_cache_page_count: 0
default 07:08:28.159851-0700 R internal: 7020544
default 07:08:28.254761-0700 distnoted register name: AppleNoRedisplayAppearancePreferenceChanged object: kCFNotificationAnyObject token: f43ef pid: 13961
default 07:08:28.254933-0700 R RDocumentController<RDocumentController: 0x60000376a780>.init
default 07:08:28.255204-0700 R <RDocumentController: 0x60000376a780> autosave ENABLED
fault 07:08:28.275387-0700 R <private>
fault 07:08:28.275571-0700 R <private>
default 07:08:28.278969-0700 R PackageInstaller: awakeFromNib
default 07:08:28.280739-0700 R PackageInstaller.awakeFromNib: found previous R at /Library/Frameworks/R.framework/Versions/3.6/Resources
default 07:08:28.349551-0700 R MiscPrefPane.updatePreferences: 'ask'
default 07:08:28.350836-0700 R MiscPrefPane.updatePreferences: 'ask'
default 07:08:28.375221-0700 distnoted register name: NSColorSwatchesChangedDistributedNotification object: kCFNotificationAnyObject token: f4496 pid: 13961
default 07:08:28.467840-0700 R RController<RController: 0x7fc540632c70>.windowWillCloseNotifications:<NSColorPanel: 0x7fc5406943b0>
default 07:08:28.468250-0700 R - no window found; make RConsole key window
default 07:08:28.476713-0700 distnoted register name: com.apple.KeyboardUIModeDidChange object: kCFNotificationAnyObject token: f44d1 pid: 13961
default 07:08:28.479975-0700 distnoted register name: NSFavoriteStylesChanged object: kCFNotificationAnyObject token: f44d2 pid: 13961
default 07:08:28.482342-0700 distnoted register name: NSWindowForceInvalidateShadow object: kCFNotificationAnyObject token: f44d3 pid: 13961
default 07:08:28.541630-0700 R RTextView: awakeFromNib <RTextView: 0x7fc54102b600>
Frame = {{0.00, 0.00}, {550.00, 412.00}}, Bounds = {{0.00, 0.00}, {550.00, 412.00}}
Horizontally resizable: NO, Vertically resizable: YES
MinSize = {550.00, 412.00}, MaxSize = {1098.00, 10000000.00}
default 07:08:28.542506-0700 R - delegate: <RController: 0x7fc540632c70>
default 07:08:28.545192-0700 R RController.awakeFromNib
default 07:08:28.545619-0700 R RTextView: set console flag to yes (<RTextView: 0x7fc54102b600>
Frame = {{0.00, 0.00}, {550.00, 412.00}}, Bounds = {{0.00, 0.00}, {550.00, 412.00}}
Horizontally resizable: NO, Vertically resizable: YES
MinSize = {550.00, 412.00}, MaxSize = {1098.00, 10000000.00}
)
default 07:08:28.553246-0700 distnoted register name: NSServicesChangedNotification object: kCFNotificationAnyObject token: f4503 pid: 13961
default 07:08:28.606883-0700 R - working directory setup timer
default 07:08:28.607028-0700 R - load preferences
default 07:08:28.607162-0700 R RController.updatePreferences
default 07:08:28.617697-0700 R - done, preferences updated
default 07:08:28.618171-0700 R - init R_LIBS
default 07:08:28.618274-0700 R - set APP VERSION (1.72) and REVISION (7841)
default 07:08:28.618329-0700 R - set R home
default 07:08:28.735563-0700 R /Library/Frameworks/R.framework/Resources
default 07:08:28.735682-0700 R - set locale
default 07:08:28.735794-0700 R CFLocaleGetIdentifier="en_US"
default 07:08:28.735846-0700 R - setting LANG=en_US.UTF-8
default 07:08:28.735902-0700 R - init R
default 07:08:28.736027-0700 R - other widgets
default 07:08:28.736114-0700 R - setup stdout/err grabber
default 07:08:28.736777-0700 R - set cwd and load history
default 07:08:28.736954-0700 R RController.doLoadHistory
default 07:08:28.737027-0700 R - history file to load: .Rapp.history
default 07:08:28.737117-0700 R RController.doClearHistory
default 07:08:28.737258-0700 R - cleared history, reload with: .Rapp.history
default 07:08:28.764678-0700 R - awake is done
default 07:08:28.781145-0700 R - initalizing R
default 07:08:28.781213-0700 R REngine.activate: starting R ...
default 07:08:28.796767-0700 R SignalReady: pid=13961 asn=0x0-0x2de2de
default 07:08:28.800144-0700 R SIGNAL: pid=13961 asn=0x0x-0x3007198
default 07:08:28.807138-0700 distnoted register name: com.apple.Carbon.TISNotifyHandwritingInputSourceChanged object: kCFNotificationAnyObject token: f457c pid: 13961
default 07:08:28.807617-0700 distnoted register name: AppleTextInputMenuExtraDidLoadNotification object: kCFNotificationAnyObject token: f457d pid: 13961
default 07:08:28.807796-0700 distnoted register name: AppleKeyboardPreferencesSelectedItemsChangedNotification object: kCFNotificationAnyObject token: f457e pid: 13961
default 07:08:28.807878-0700 distnoted register name: com.apple.Carbon.TISNotifyEnabledKeyboardInputSourcesChanged object: kCFNotificationAnyObject token: f457f pid: 13961
default 07:08:28.807928-0700 distnoted register name: AppleLanguagePreferencesChangedNotification object: kCFNotificationAnyObject token: f4580 pid: 13961
default 07:08:28.807970-0700 distnoted register name: com.apple.Carbon.TISNotifyHandwritingInputSourceChanged object: kCFNotificationAnyObject token: f4581 pid: 13961
default 07:08:28.808032-0700 distnoted register name: com.apple.Carbon.TISNotifyIronwoodAutoEnableChanged object: kCFNotificationAnyObject token: f4582 pid: 13961
default 07:08:28.808095-0700 distnoted register name: AppleInstalledInputSourcesChangedNotification object: kCFNotificationAnyObject token: f4583 pid: 13961
default 07:08:28.808161-0700 distnoted register name: AppleEnabledInputSourcesChangedNotification object: kCFNotificationAnyObject token: f4584 pid: 13961
default 07:08:28.808309-0700 distnoted register name: AppleSelectedInputSourcesChangedNotification object: kCFNotificationAnyObject token: f4585 pid: 13961
default 07:08:28.808362-0700 distnoted register name: com.apple.Carbon.TISNotifyEnabledHandwritingLanguagesChanged object: kCFNotificationAnyObject token: f4586 pid: 13961
default 07:08:28.808410-0700 distnoted register name: com.apple.Carbon.TISNotifySelectedHandwritingLanguageChanged object: kCFNotificationAnyObject token: f4587 pid: 13961
default 07:08:28.808475-0700 distnoted register name: AppleRomanSwitchSettingChangedNotification object: kCFNotificationAnyObject token: f4588 pid: 13961
default 07:08:28.826391-0700 distnoted register name: AXInterfaceIncreaseContrastStatusDidChange object: kCFNotificationAnyObject token: f4589 pid: 13961
default 07:08:28.826476-0700 distnoted register name: AppleDatePreferencesChangedNotification object: kCFNotificationAnyObject token: f458a pid: 13961
default 07:08:28.826561-0700 distnoted register name: AppleTimePreferencesChangedNotification object: kCFNotificationAnyObject token: f458b pid: 13961
default 07:08:28.826673-0700 distnoted register name: AppleNumberPreferencesChangedNotification object: kCFNotificationAnyObject token: f458c pid: 13961
default 07:08:28.826843-0700 distnoted register name: AppleTextBehaviorPreferencesChangedNotification object: kCFNotificationAnyObject token: f458d pid: 13961
default 07:08:28.826922-0700 distnoted register name: AppleKeyboardMenuPreferencesChangedNotification object: kCFNotificationAnyObject token: f458e pid: 13961
default 07:08:28.826987-0700 distnoted register name: AppleKeyboardPreferencesChangedNotification object: kCFNotificationAnyObject token: f458f pid: 13961
default 07:08:28.827055-0700 distnoted register name: AppleSelectedInputMethodPasteboardInvalidNotification object: kCFNotificationAnyObject token: f4590 pid: 13961
default 07:08:28.952195-0700 distnoted register name: CGFontOverrideSettingsDidChange object: kCFNotificationAnyObject token: f45d9 pid: 13961
default 07:08:28.976218-0700 distnoted register name: AppleShowScrollBarsSettingChanged object: kCFNotificationAnyObject token: f45db pid: 13961
default 07:08:28.976480-0700 distnoted register name: AppleGestureScrollSettingChanged object: kCFNotificationAnyObject token: f45dc pid: 13961
default 07:08:28.980003-0700 distnoted register name: NSSecondaryDisplayVisChanged object: kCFNotificationAnyObject token: f45dd pid: 13961
default 07:08:28.980763-0700 distnoted register name: AXInterfaceReduceTransparencyStatusDidChange object: kCFNotificationAnyObject token: f45de pid: 13961
default 07:08:28.983598-0700 distnoted register name: AppleAquaColorVariantChanged object: kCFNotificationAnyObject token: f45df pid: 13961
default 07:08:28.983685-0700 distnoted register name: AppleInterfaceThemeChangedNotification object: kCFNotificationAnyObject token: f45e0 pid: 13961
default 07:08:28.983755-0700 distnoted register name: AppleAquaAntiAliasingChanged object: kCFNotificationAnyObject token: f45e1 pid: 13961
default 07:08:29.014292-0700 hidd Connection added: IOHIDEventSystemConnection uuid:7FAD2C74-126A-4B14-BE31-0CF65AAE3240 pid:13961 process:R type:Passive entitlements:0x0 caller:HIToolbox: ___GetIOHIDEventSystemClient_block_invoke + 26 attributes:(null) state:0x0 events:0 mask:0x0
default 07:08:29.015971-0700 distnoted register name: com.apple.sessionDidMoveOnConsole object: kCFNotificationAnyObject token: f45e5 pid: 13961
default 07:08:29.016057-0700 distnoted register name: com.apple.sessionDidMoveOffConsole object: kCFNotificationAnyObject token: f45e7 pid: 13961
default 07:08:29.174731-0700 R RController.handleAppleEvent is called
default 07:08:29.174873-0700 R - 1 files to open
default 07:08:29.175757-0700 R appending /Users/brandonhurr/Dropbox (BioLumic Ltd)/Data standardisation/Data_PIpeline.R to open after launching
default 07:08:29.181032-0700 R Read options: 0 -- URL: <private> -- purposeID: A5781515-8340-4F46-95AB-4CE9F1D094D1 -- claimID: 0CD448D3-4367-4DAD-9CDE-5FF5609411F1
default 07:08:29.184082-0700 R Claim 0CD448D3-4367-4DAD-9CDE-5FF5609411F1 granted in client
default 07:08:29.184109-0700 R Claim 0CD448D3-4367-4DAD-9CDE-5FF5609411F1 invoked in client
default 07:08:29.228972-0700 R REngine.activate: R started with no error
default 07:08:29.229042-0700 R - load R code for R.app
default 07:08:29.229161-0700 R - loading code from '/Applications/R.app/Contents/Resources/GUI-tools.R'
default 07:08:29.229221-0700 R REngine.executeString:"try(local(source("/Applications/R.app/Contents/Resources/GUI-tools.R",local=TRUE,echo=FALSE,verbose=FALSE,encoding='UTF-8',keep.source=FALSE)))"
default 07:08:29.230130-0700 R RController.setStatusLine: "executing: try(local(source("/Applications/R.app/Contents/Resources/GUI-tools.R",local=TRUE,echo=FALSE,verbose=FALSE,encoding='UTF-8',keep.source=FALSE)))"
default 07:08:29.242233-0700 R RDocument(<RDocument: 0x600001349d60>) init
default 07:08:29.242609-0700 distnoted register name: com.apple.LaunchServices.ShowAllExtensionsChangedToTrue object: kCFNotificationAnyObject token: f45e9 pid: 13961
default 07:08:29.242710-0700 distnoted register name: com.apple.LaunchServices.ShowAllExtensionsChangedToFalse object: kCFNotificationAnyObject token: f45ea pid: 13961
default 07:08:29.249356-0700 R RDocument.loadDataRepresentation loading 48341 bytes of data and docType R Source File
default 07:08:29.250459-0700 R Adding presenter 13F7B605-A369-4FFD-B7A6-EF424CA7B751 for URL: <private>
default 07:08:29.251182-0700 R Adding presenter 13F7B605-A369-4FFD-B7A6-EF424CA7B751 for URL: <private>
default 07:08:29.251420-0700 R RDocument.makeWindowControllers: creating RDocumentWinCtrl
default 07:08:29.251756-0700 R RDocumentWinCtrl<<RDocumentWinCtrl: 0x7fc542479310>>.initWithNibName:RDocument
default 07:08:29.255626-0700 R 0x107b7c000 - [frame=0x107bd4500, main=1] FrameLoader::setProvisionalDocumentLoader: Setting provisional document loader (m_provisionalDocumentLoader=0x107cf0000)
default 07:08:29.255651-0700 R 0x107b7c000 - [frame=0x107bd4500, main=1] FrameLoader::transitionToCommitted: Clearing provisional document loader (m_provisionalDocumentLoader=0x107cf0000)
default 07:08:29.255666-0700 R 0x107b7c000 - [frame=0x107bd4500, main=1] FrameLoader::setProvisionalDocumentLoader: Setting provisional document loader (m_provisionalDocumentLoader=0x0)
default 07:08:29.256597-0700 R 0x107cf0000 - DocumentLoader::startLoadingMainResource: Returning empty document (frame = 0x107bd4500, main = 1)
default 07:08:29.256633-0700 R 0x107b7c000 - [frame=0x107bd4500, main=1] FrameLoader::setState: main frame load completed
default 07:08:29.256664-0700 R Memory usage info dump at MainFrameLoadCompleted:
default 07:08:29.256684-0700 R document_count: 5
default 07:08:29.256700-0700 R phys_footprint: 71438336
default 07:08:29.256983-0700 R virtual_size: 6174351360
default 07:08:29.257003-0700 R resident_size: 87183360
default 07:08:29.257019-0700 R compressed: 0
default 07:08:29.257035-0700 R javascript_gc_heap_capacity: 32768
default 07:08:29.257051-0700 R javascript_gc_heap_extra_memory_size: 0
default 07:08:29.257066-0700 R backforward_cache_page_count: 0
default 07:08:29.257313-0700 R internal: 65945600
default 07:08:29.264564-0700 distnoted register name: com.apple.sharedfilelist.change object: com.apple.LSSharedFileList.RecentDocuments token: f45fc pid: 13961
default 07:08:29.264712-0700 distnoted register name: com.apple.sharedfilelist.launch object: kCFNotificationAnyObject token: f45fd pid: 13961
default 07:08:29.267819-0700 distnoted register name: com.apple.sharedfilelist.change object: com.apple.LSSharedFileList.ApplicationRecentDocuments token: f45fe pid: 13961
default 07:08:29.267940-0700 distnoted register name: com.apple.sharedfilelist.launch object: kCFNotificationAnyObject token: f45ff pid: 13961
default 07:08:29.287949-0700 R <RDocumentWinCtrl: 0x7fc542479310> fileEncoding (<RDocument: 0x600001349d60> gives 4)
default 07:08:29.288211-0700 R <RDocumentWinCtrl: 0x7fc542479310> fileEncoding (<RDocument: 0x600001349d60> gives 4)
default 07:08:29.288635-0700 R RTextView: awakeFromNib <RScriptEditorTextView: 0x7fc5418fb000>
Frame = {{0.00, 0.00}, {509.00, 398.00}}, Bounds = {{0.00, 0.00}, {509.00, 398.00}}
Horizontally resizable: NO, Vertically resizable: YES
MinSize = {507.00, 398.00}, MaxSize = {1012.00, 10000000.00}
default 07:08:29.288706-0700 R - delegate: <RDocumentWinCtrl: 0x7fc542479310>
default 07:08:29.288800-0700 R RScriptEditorTextView: awakeFromNib <<RScriptEditorTextView: 0x7fc5418fb000>
Frame = {{0.00, 0.00}, {509.00, 398.00}}, Bounds = {{0.00, 0.00}, {509.00, 398.00}}
Horizontally resizable: NO, Vertically resizable: YES
MinSize = {507.00, 398.00}, MaxSize = {1012.00, 10000000.00}
>
default 07:08:29.289300-0700 R RScriptEditorTextView:awakeFromNib set scrollView
default 07:08:29.293082-0700 R - tiHelpSearch=<NSToolbarItem: 0x600001375cc0> identifier = "RETI Help Search", view=<NSView: 0x7fc542437e30>
default 07:08:29.293657-0700 R - tiFnList=<NSToolbarItem: 0x600001375c20> identifier = "RETI FnList", view=<NSView: 0x7fc542446f10>
default 07:08:29.293942-0700 R toolbar:<NSToolbar: 0x600000c45f80> itemForItemIdentifier:RETI Save Document
default 07:08:29.294569-0700 R toolbar:<NSToolbar: 0x600000c45f80> itemForItemIdentifier:RETI FnList
default 07:08:29.294625-0700 R toolbar:<NSToolbar: 0x600000c45f80> itemForItemIdentifier:RETI Help Search
default 07:08:29.304563-0700 R RDocumentWinCtrl.setStatusLine: ""
default 07:08:29.305202-0700 R RScriptEditorTextView: setTabStops <<RScriptEditorTextView: 0x7fc5418fb000>
Frame = {{0.00, 0.00}, {509.00, 398.00}}, Bounds = {{0.00, 0.00}, {509.00, 398.00}}
Horizontally resizable: NO, Vertically resizable: YES
MinSize = {507.00, 398.00}, MaxSize = {1012.00, 10000000.00}
>
default 07:08:29.305896-0700 R RScriptEditorTextView: textStorageDidProcessEditing <<RScriptEditorTextView: 0x7fc5418fb000>
Frame = {{0.00, 0.00}, {509.00, 398.00}}, Bounds = {{0.00, 0.00}, {509.00, 398.00}}
Horizontally resizable: NO, Vertically resizable: YES
MinSize = {507.00, 398.00}, MaxSize = {1012.00, 10000000.00}
> with mask 1
default 07:08:29.309536-0700 R RDocumentWinCtrl(<RDocumentWinCtrl: 0x7fc542479310>).windowDidLoad
default 07:08:29.310127-0700 R - load document contents into textView
default 07:08:29.310192-0700 R RDocument.loadInitialContents: loading
default 07:08:29.310226-0700 R - try to auto-detect file encoding
default 07:08:29.310646-0700 R - new string contents (48338 chars) for window controller <RDocumentWinCtrl: 0x7fc542479310>
default 07:08:29.310765-0700 R <RDocumentWinCtrl: 0x7fc542479310> setFileEncoding: 4 (doc <RDocument: 0x600001349d60>)
default 07:08:29.310856-0700 R - setFileEncoding: 4
default 07:08:29.310981-0700 R <RDocumentWinCtrl: 0x7fc542479310> fileEncoding (<RDocument: 0x600001349d60> gives 4)
default 07:08:29.311116-0700 R <RDocumentWinCtrl: 0x7fc542479310> fileEncoding (<RDocument: 0x600001349d60> gives 4)
default 07:08:29.353015-0700 R RScriptEditorTextView: textStorageDidProcessEditing <<RScriptEditorTextView: 0x7fc5418fb000>
Frame = {{0.00, 0.00}, {509.00, 398.00}}, Bounds = {{0.00, 0.00}, {509.00, 398.00}}
Horizontally resizable: NO, Vertically resizable: YES
MinSize = {507.00, 398.00}, MaxSize = {1012.00, 10000000.00}
> with mask 3
default 07:08:29.353481-0700 R RDocumentWinCtrl: textViewDidChangeSelection and calls currentFunctionHint
default 07:08:29.353784-0700 R RDocumentWinCtrl: textViewDidChangeSelection and calls currentFunctionHint
default 07:08:29.354029-0700 R RDocumentWinCtrl - received notification about search type change to 10
default 07:08:29.363739-0700 R - scan document for functions
default 07:08:29.363795-0700 R - set up line numbering for text view
default 07:08:29.366060-0700 R RDocumentWinCtrl.functionReset
default 07:08:29.367424-0700 R - reset done
default 07:08:29.367547-0700 R - windowDidLoad is done
default 07:08:29.377410-0700 R RDocumentWinCtrl: textViewDidChangeSelection and calls currentFunctionHint
default 07:08:29.378571-0700 hidd Connection added: IOHIDEventSystemConnection uuid:BF58D26A-D995-419D-AB32-AF5E831645C9 pid:13961 process:R type:Passive entitlements:0x0 caller:HIServices: ___GetIOHIDEventSystemClient_block_invoke + 26 attributes:(null) state:0x0 events:0 mask:0x0
default 07:08:29.381462-0700 R <PKDiscoveryDriver:0x60000060cc60> created discovery driver
default 07:08:29.381571-0700 R [d <private>] <PKHost:0x6000037a1340> Beginning discovery for flags: 0, point: multiple
default 07:08:29.381768-0700 R <PKDiscoveryDriver:0x60000060cb40> created discovery driver
default 07:08:29.381829-0700 R [d <private>] <PKHost:0x6000037a1340> Beginning discovery for flags: 0, point: com.apple.FinderSync
default 07:08:29.393323-0700 R RController: textViewDidChangeSelection
default 07:08:29.435452-0700 R RTextView: parserContextForPosition: 17, line start: 0
default 07:08:29.436716-0700 R RTextView: parserContextForPosition: 35, line start: 19
default 07:08:29.437041-0700 R RTextView: parserContextForPosition: 51, line start: 37
default 07:08:29.437333-0700 R RTextView: parserContextForPosition: 63, line start: 53
default 07:08:29.437515-0700 R RTextView: parserContextForPosition: 78, line start: 65
default 07:08:29.437731-0700 R RTextView: parserContextForPosition: 93, line start: 80
default 07:08:29.437995-0700 R RTextView: parserContextForPosition: 110, line start: 95
default 07:08:29.438173-0700 R RTextView: parserContextForPosition: 129, line start: 112
default 07:08:29.438780-0700 R RTextView: parserContextForPosition: 198, line start: 131
default 07:08:29.438906-0700 R RTextView: parserContextForPosition: 197, line start: 131
default 07:08:29.438976-0700 R RTextView: parserContextForPosition: 196, line start: 131
default 07:08:29.439017-0700 R RTextView: parserContextForPosition: 195, line start: 131
default 07:08:29.439071-0700 R RTextView: parserContextForPosition: 194, line start: 131
default 07:08:29.439115-0700 R RTextView: parserContextForPosition: 193, line start: 131
default 07:08:29.439148-0700 R RTextView: parserContextForPosition: 192, line start: 131
default 07:08:29.439177-0700 R RTextView: parserContextForPosition: 191, line start: 131
default 07:08:29.439205-0700 R RTextView: parserContextForPosition: 190, line start: 131
default 07:08:29.439285-0700 R RTextView: parserContextForPosition: 189, line start: 131
default 07:08:29.439325-0700 R RTextView: parserContextForPosition: 188, line start: 131
default 07:08:29.439522-0700 R RTextView: parserContextForPosition: 187, line start: 131
default 07:08:29.439567-0700 R RTextView: parserContextForPosition: 186, line start: 131
default 07:08:29.439779-0700 R RTextView: parserContextForPosition: 185, line start: 131
default 07:08:29.439820-0700 R RTextView: parserContextForPosition: 184, line start: 131
default 07:08:29.439850-0700 R RTextView: parserContextForPosition: 183, line start: 131
default 07:08:29.439929-0700 R RTextView: parserContextForPosition: 182, line start: 131
default 07:08:29.439968-0700 R RTextView: parserContextForPosition: 181, line start: 131
default 07:08:29.440370-0700 R RTextView: parserContextForPosition: 180, line start: 131
default 07:08:29.440438-0700 R RTextView: parserContextForPosition: 179, line start: 131
default 07:08:29.440552-0700 R RTextView: parserContextForPosition: 178, line start: 131
default 07:08:29.440639-0700 R RTextView: parserContextForPosition: 177, line start: 131
default 07:08:29.440730-0700 R RTextView: parserContextForPosition: 176, line start: 131
default 07:08:29.440817-0700 R RTextView: parserContextForPosition: 175, line start: 131
default 07:08:29.440850-0700 R RTextView: parserContextForPosition: 174, line start: 131
default 07:08:29.440920-0700 R RTextView: parserContextForPosition: 173, line start: 131
default 07:08:29.440953-0700 R RTextView: parserContextForPosition: 172, line start: 131
default 07:08:29.441018-0700 R RTextView: parserContextForPosition: 171, line start: 131
default 07:08:29.441049-0700 R RTextView: parserContextForPosition: 170, line start: 131
default 07:08:29.441076-0700 R RTextView: parserContextForPosition: 169, line start: 131
default 07:08:29.441142-0700 R RTextView: parserContextForPosition: 168, line start: 131
default 07:08:29.441186-0700 R RTextView: parserContextForPosition: 167, line start: 131
default 07:08:29.441248-0700 R RTextView: parserContextForPosition: 166, line start: 131
default 07:08:29.441277-0700 R RTextView: parserContextForPosition: 165, line start: 131
default 07:08:29.441342-0700 R RTextView: parserContextForPosition: 164, line start: 131
default 07:08:29.441426-0700 R RTextView: parserContextForPosition: 163, line start: 131
default 07:08:29.441505-0700 R RTextView: parserContextForPosition: 162, line start: 131
default 07:08:29.441612-0700 R RTextView: parserContextForPosition: 161, line start: 131
default 07:08:29.441720-0700 R RTextView: parserContextForPosition: 160, line start: 131
default 07:08:29.441800-0700 R RTextView: parserContextForPosition: 159, line start: 131
default 07:08:29.441894-0700 R RTextView: parserContextForPosition: 158, line start: 131
default 07:08:29.441973-0700 R RTextView: parserContextForPosition: 157, line start: 131
default 07:08:29.442050-0700 R RTextView: parserContextForPosition: 156, line start: 131
default 07:08:29.442188-0700 R RTextView: parserContextForPosition: 155, line start: 131
default 07:08:29.442692-0700 R RTextView: parserContextForPosition: 154, line start: 131
default 07:08:29.442725-0700 R RTextView: parserContextForPosition: 153, line start: 131
default 07:08:29.442754-0700 R RTextView: parserContextForPosition: 152, line start: 131
default 07:08:29.442780-0700 R RTextView: parserContextForPosition: 148, line start: 131
default 07:08:29.443727-0700 R RTextView: parserContextForPosition: 258, line start: 200
default 07:08:29.443777-0700 R RTextView: parserContextForPosition: 257, line start: 200
default 07:08:29.443809-0700 R RTextView: parserContextForPosition: 256, line start: 200
default 07:08:29.443835-0700 R RTextView: parserContextForPosition: 255, line start: 200
default 07:08:29.444245-0700 R RTextView: parserContextForPosition: 254, line start: 200
default 07:08:29.444339-0700 R RTextView: parserContextForPosition: 253, line start: 200
default 07:08:29.444370-0700 R RTextView: parserContextForPosition: 252, line start: 200
default 07:08:29.444399-0700 R RTextView: parserContextForPosition: 251, line start: 200
default 07:08:29.444643-0700 R RTextView: parserContextForPosition: 250, line start: 200
default 07:08:29.444680-0700 R RTextView: parserContextForPosition: 249, line start: 200
default 07:08:29.444709-0700 R RTextView: parserContextForPosition: 248, line start: 200
default 07:08:29.444736-0700 R RTextView: parserContextForPosition: 247, line start: 200
default 07:08:29.444762-0700 R RTextView: parserContextForPosition: 246, line start: 200
default 07:08:29.444789-0700 R RTextView: parserContextForPosition: 245, line start: 200
default 07:08:29.444816-0700 R RTextView: parserContextForPosition: 244, line start: 200
default 07:08:29.445806-0700 R RTextView: parserContextForPosition: 243, line start: 200
default 07:08:29.446192-0700 R RTextView: parserContextForPosition: 242, line start: 200
default 07:08:29.446304-0700 R RTextView: parserContextForPosition: 241, line start: 200
default 07:08:29.446412-0700 R RTextView: parserContextForPosition: 240, line start: 200
default 07:08:29.446542-0700 R RTextView: parserContextForPosition: 239, line start: 200
default 07:08:29.446574-0700 R RTextView: parserContextForPosition: 238, line start: 200
default 07:08:29.446602-0700 R RTextView: parserContextForPosition: 237, line start: 200
default 07:08:29.446629-0700 R RTextView: parserContextForPosition: 236, line start: 200
default 07:08:29.446655-0700 R RTextView: parserContextForPosition: 235, line start: 200
default 07:08:29.446681-0700 R RTextView: parserContextForPosition: 234, line start: 200
default 07:08:29.446707-0700 R RTextView: parserContextForPosition: 233, line start: 200
default 07:08:29.450246-0700 R RTextView: parserContextForPosition: 232, line start: 200
default 07:08:29.450288-0700 R RTextView: parserContextForPosition: 231, line start: 200
default 07:08:29.450316-0700 R RTextView: parserContextForPosition: 230, line start: 200
default 07:08:29.450344-0700 R RTextView: parserContextForPosition: 229, line start: 200
default 07:08:29.450370-0700 R RTextView: parserContextForPosition: 228, line start: 200
default 07:08:29.450396-0700 R RTextView: parserContextForPosition: 227, line start: 200
default 07:08:29.450422-0700 R RTextView: parserContextForPosition: 226, line start: 200
default 07:08:29.450447-0700 R RTextView: parserContextForPosition: 225, line start: 200
default 07:08:29.450473-0700 R RTextView: parserContextForPosition: 224, line start: 200
default 07:08:29.450499-0700 R RTextView: parserContextForPosition: 223, line start: 200
default 07:08:29.450525-0700 R RTextView: parserContextForPosition: 222, line start: 200
default 07:08:29.450550-0700 R RTextView: parserContextForPosition: 221, line start: 200
default 07:08:29.450576-0700 R RTextView: parserContextForPosition: 220, line start: 200
default 07:08:29.450601-0700 R RTextView: parserContextForPosition: 219, line start: 200
default 07:08:29.454009-0700 R [d <private>] <PKHost:0x6000037a1340> Completed discovery. Final # of matches: 21
default 07:08:29.454099-0700 R <PKDiscoveryDriver:0x60000060cc60> delivering update to host (21 plugins)
default 07:08:29.455765-0700 R [d <private>] <PKHost:0x6000037a1340> Completed discovery. Final # of matches: 3
default 07:08:29.455831-0700 R <PKDiscoveryDriver:0x60000060cb40> delivering update to host (3 plugins)
default 07:08:29.456341-0700 R RTextView: parserContextForPosition: 218, line start: 200
default 07:08:29.456378-0700 R RTextView: parserContextForPosition: 217, line start: 200
default 07:08:29.456408-0700 R RTextView: parserContextForPosition: 214, line start: 200
default 07:08:29.457174-0700 R RTextView: parserContextForPosition: 319, line start: 260
default 07:08:29.457257-0700 R RTextView: parserContextForPosition: 318, line start: 260
default 07:08:29.457326-0700 R RTextView: parserContextForPosition: 317, line start: 260
default 07:08:29.457768-0700 R RTextView: parserContextForPosition: 316, line start: 260
default 07:08:29.457926-0700 R RTextView: parserContextForPosition: 315, line start: 260
default 07:08:29.458461-0700 R RTextView: parserContextForPosition: 314, line start: 260
default 07:08:29.460225-0700 R RTextView: parserContextForPosition: 313, line start: 260
default 07:08:29.460705-0700 R <PKDiscoveryDriver:0x60000060cb40> installing watchers for continuous discovery
default 07:08:29.460923-0700 distnoted register name: com.apple.LaunchServices.pluginsregistered object: kCFNotificationAnyObject token: f468a pid: 13961
default 07:08:29.461035-0700 distnoted register name: com.apple.LaunchServices.pluginsunregistered object: kCFNotificationAnyObject token: f468b pid: 13961
default 07:08:29.461221-0700 R RTextView: parserContextForPosition: 312, line start: 260
default 07:08:29.461256-0700 R RTextView: parserContextForPosition: 311, line start: 260
default 07:08:29.461285-0700 R RTextView: parserContextForPosition: 310, line start: 260
default 07:08:29.461313-0700 R RTextView: parserContextForPosition: 309, line start: 260
default 07:08:29.461339-0700 R RTextView: parserContextForPosition: 308, line start: 260
default 07:08:29.461366-0700 R RTextView: parserContextForPosition: 307, line start: 260
default 07:08:29.462141-0700 R RTextView: parserContextForPosition: 306, line start: 260
default 07:08:29.462173-0700 R RTextView: parserContextForPosition: 305, line start: 260
default 07:08:29.462202-0700 R RTextView: parserContextForPosition: 304, line start: 260
default 07:08:29.462589-0700 R RTextView: parserContextForPosition: 303, line start: 260
default 07:08:29.462621-0700 R RTextView: parserContextForPosition: 302, line start: 260
default 07:08:29.462650-0700 R RTextView: parserContextForPosition: 301, line start: 260
default 07:08:29.462677-0700 R RTextView: parserContextForPosition: 300, line start: 260
default 07:08:29.462702-0700 R RTextView: parserContextForPosition: 299, line start: 260
default 07:08:29.462728-0700 R RTextView: parserContextForPosition: 298, line start: 260
default 07:08:29.462754-0700 R RTextView: parserContextForPosition: 297, line start: 260
default 07:08:29.463068-0700 R RTextView: parserContextForPosition: 296, line start: 260
default 07:08:29.463099-0700 R RTextView: parserContextForPosition: 295, line start: 260
default 07:08:29.463126-0700 R RTextView: parserContextForPosition: 294, line start: 260
default 07:08:29.463152-0700 R RTextView: parserContextForPosition: 293, line start: 260
default 07:08:29.463179-0700 R RTextView: parserContextForPosition: 292, line start: 260
default 07:08:29.463205-0700 R RTextView: parserContextForPosition: 291, line start: 260
default 07:08:29.463231-0700 R RTextView: parserContextForPosition: 290, line start: 260
default 07:08:29.463707-0700 R RTextView: parserContextForPosition: 289, line start: 260
default 07:08:29.463737-0700 R RTextView: parserContextForPosition: 288, line start: 260
default 07:08:29.463766-0700 R RTextView: parserContextForPosition: 287, line start: 260
default 07:08:29.463792-0700 R RTextView: parserContextForPosition: 286, line start: 260
default 07:08:29.463818-0700 R RTextView: parserContextForPosition: 285, line start: 260
default 07:08:29.463844-0700 R RTextView: parserContextForPosition: 284, line start: 260
default 07:08:29.463870-0700 R RTextView: parserContextForPosition: 283, line start: 260
default 07:08:29.464359-0700 R RTextView: parserContextForPosition: 282, line start: 260
default 07:08:29.464463-0700 R RTextView: parserContextForPosition: 281, line start: 260
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default 07:08:29.586996-0700 runningboardd Resolved XPC Service com.google.GoogleDrive.FinderSyncAPIExtension (FinderSyncAPIExtension.appex) with host pid 13961, variant 2, scope 1, pid 13966, and euid 501
default 07:08:29.736242-0700 R [u 3BBFE944-6FF8-4AA6-AFF0-F0123581E1F6:m 1536BA8D-5E1E-4B27-82C0-10996F2EC8B1] [<private>(<private>)] Begin using sent as euid = 501, uid = 501, (persona not available)
default 07:08:29.737047-0700 R [u 3BBFE944-6FF8-4AA6-AFF0-F0123581E1F6:m 1536BA8D-5E1E-4B27-82C0-10996F2EC8B1] [<private>(<private>)] plugin loaded and ready for host
default 07:08:29.789959-0700 distnoted register name: com.apple.inputmethodkit.abnormaldeath object: com.apple.PressAndHold token: f468c pid: 13961
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default 07:08:29.824385-0700 R RTextView: parserContextForPosition: 1067, line start: 1000
default 07:08:29.830034-0700 R RController.setStatusLine: "Loading R ..."
default 07:08:29.830233-0700 R - success: YES
default 07:08:29.830276-0700 R - set R options
default 07:08:29.830306-0700 R REngine.executeString:"options(help_type='html')"
default 07:08:29.830890-0700 R RController.setStatusLine: "executing: options(help_type='html')"
default 07:08:29.831614-0700 R RController.setStatusLine: "Loading R ..."
default 07:08:29.831980-0700 R - success: YES
default 07:08:29.832026-0700 R - set default CRAN mirror
default 07:08:29.832117-0700 R - loading secondary NIBs
default 07:08:29.826423-0700 distnoted register name: NSSnappingPrefsDidChangeNotificationNameGlobal object: kCFNotificationAnyObject token: f468e pid: 13961
default 07:08:29.846281-0700 R VignettesController.awakeFromNib
default 07:08:29.847253-0700 R main: finish launching
default 07:08:29.847795-0700 R Registering for test daemon availability notify post.
default 07:08:29.848057-0700 R notify_get_state check indicated test daemon not ready.
default 07:08:29.847712-0700 distnoted register name: com.apple.accessibility.api object: kCFNotificationAnyObject token: f46d5 pid: 13961
default 07:08:29.858115-0700 R RController:applicationDidFinishLaunching
default 07:08:29.858175-0700 R - clean up and flush console
default 07:08:29.858225-0700 R original: 0:0, insertion: 0, length: 738, prompt: 0, commit: 0, overwrite:0
default 07:08:29.858259-0700 R RController writeConsoleDirectly, beginEditing
default 07:08:29.858360-0700 R RController: textStorageDidProcessEditing <<RController: 0x7fc540632c70>> with mask 3
default 07:08:29.858527-0700 R RController: textViewDidChangeSelection
default 07:08:29.859563-0700 R RController writeConsoleDirectly, endEditing
default 07:08:29.859643-0700 R RController: textViewDidChangeSelection
default 07:08:29.859745-0700 R REngine.evaluateString:".Platform$pkgType"
default 07:08:29.860404-0700 R RController.setStatusLine: "executing: .Platform$pkgType"
default 07:08:29.860958-0700 R RController.setStatusLine: "Loading R ..."
default 07:08:29.861082-0700 R - result: RSEXP@41072bb0, string[1]
default 07:08:29.861134-0700 R - pkgType in this R: "mac.binary"
default 07:08:29.861166-0700 R - setup notification and timers
default 07:08:29.861598-0700 R RController.applicationDidFinishLaunching - load history file .Rapp.history
default 07:08:29.861917-0700 R RController.openDocumentsPending: process pending 'odoc' events
default 07:08:29.861953-0700 R - 1 documents to open
default 07:08:29.861989-0700 R - application:openFile:/Users/brandonhurr/Dropbox (BioLumic Ltd)/Data standardisation/Data_PIpeline.R called
default 07:08:29.862102-0700 R - intial start, changing wd to pathname whic is /Users/brandonhurr/Dropbox (BioLumic Ltd)/Data standardisation/
default 07:08:29.862242-0700 R RController.doClearHistory
default 07:08:29.862521-0700 R RController.doLoadHistory
default 07:08:29.862734-0700 R - history file to load: .Rapp.history
default 07:08:29.862870-0700 R RController.doClearHistory
default 07:08:29.863260-0700 R - cleared history, reload with: .Rapp.history
default 07:08:29.979057-0700 R appLaunched = NO, openInEditor = YES
default 07:08:29.979156-0700 R - application:openFile path of URL: <file:///Users/brandonhurr/Dropbox%20(BioLumic%20Ltd)/Data%20standardisation/Data_PIpeline.R>
default 07:08:29.979197-0700 R RDocumentController.openDocumentWithContentsOfURL: /Users/brandonhurr/Dropbox (BioLumic Ltd)/Data standardisation/Data_PIpeline.R
default 07:08:29.979338-0700 R - call super -> openDocumentWithContentsOfURL: /Users/brandonhurr/Dropbox (BioLumic Ltd)/Data standardisation/Data_PIpeline.R
default 07:08:29.980026-0700 distnoted register name: com.apple.quicklook.GlobalChange object: kCFNotificationAnyObject token: f46da pid: 13961
default 07:08:29.983819-0700 R - application:openFile:/Users/brandonhurr/Dropbox (BioLumic Ltd)/Data standardisation/Data_PIpeline.R with wd: </Users/brandonhurr/Dropbox (BioLumic Ltd)/Data standardisation/> done
default 07:08:29.983884-0700 R REngine.executeString:"if (exists('.First') && is.function(.First) && !identical(.First, .__RGUI__..First)) .First()"
default 07:08:29.984575-0700 R RController.setStatusLine: "executing: if (exists('.First') && is.function(.First) && !identical(.First, .__RGUI__..First)) .First()"
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default 07:08:30.032211-0700 R RController.setStatusLine: "Loading R ..."
default 07:08:30.032350-0700 R - success: YES
default 07:08:30.032393-0700 R - set Quartz preferences (if necessary)
default 07:08:30.032469-0700 R RController.setStatusLine: ""
default 07:08:30.032512-0700 R REngine.evaluateString:"Sys.getlocale()"
default 07:08:30.033262-0700 R RController.setStatusLine: "executing: Sys.getlocale()"
default 07:08:30.033837-0700 R RController.setStatusLine: ""
default 07:08:30.033916-0700 R - result: RSEXP@457b9320, string[1]
default 07:08:30.034926-0700 R WARNING: _autoreopenDocuments is not supported, cannot re-open autosaved documents
default 07:08:30.034996-0700 R - done, ready to go
default 07:08:30.035423-0700 R RController.applicationDidFinishLaunching - show main window
default 07:08:30.054554-0700 R main: entering REPL
default 07:08:30.054655-0700 R original: 738:0, insertion: 738, length: 58, prompt: 738, commit: 738, overwrite:0
default 07:08:30.054697-0700 R RController writeConsoleDirectly, beginEditing
default 07:08:30.054766-0700 R RController: textStorageDidProcessEditing <<RController: 0x7fc540632c70>> with mask 3
default 07:08:30.054929-0700 R RController: textViewDidChangeSelection
default 07:08:30.055321-0700 R RController writeConsoleDirectly, endEditing
default 07:08:30.055418-0700 R RController: textViewDidChangeSelection
default 07:08:30.055500-0700 R RController handleWritePrompt: '> ', beginEditing
default 07:08:30.055571-0700 R RController: textStorageDidProcessEditing <<RController: 0x7fc540632c70>> with mask 3
default 07:08:30.055687-0700 R RController: textViewDidChangeSelection
default 07:08:30.055860-0700 R RController handleWritePrompt: '> ', endEditing
default 07:08:30.055939-0700 R RController: textViewDidChangeSelection
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default 07:08:30.144850-0700 R RTextView: parserContextForPosition: 957, line start: 947
default 07:08:30.144886-0700 R RTextView: parserContextForPosition: 956, line start: 947
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default 07:08:30.145061-0700 R RTextView: parserContextForPosition: 951, line start: 947
default 07:08:30.145113-0700 R RTextView: parserContextForPosition: 950, line start: 947
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default 07:08:30.145379-0700 R RTextView: parserContextForPosition: 1067, line start: 1000
default 07:08:30.147886-0700 R RTextView: functionNameForCurrentScope
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default 07:08:30.148015-0700 R - current word “library”
default 07:08:30.148063-0700 R - invalid current word -> start parsing for current function scope
default 07:08:30.148096-0700 R - parse range invalid - bail
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default 07:08:30.251518-0700 R RTextView: parserContextForPosition: 446, line start: 435
default 07:08:30.251547-0700 R RTextView: parserContextForPosition: 445, line start: 435
default 07:08:30.251619-0700 R RTextView: parserContextForPosition: 444, line start: 435
default 07:08:30.251646-0700 R RTextView: parserContextForPosition: 443, line start: 435
default 07:08:30.251672-0700 R RTextView: parserContextForPosition: 441, line start: 435
default 07:08:30.251719-0700 R RTextView: parserContextForPosition: 440, line start: 435
default 07:08:30.251748-0700 R RTextView: parserContextForPosition: 439, line start: 435
default 07:08:30.251794-0700 R RTextView: parserContextForPosition: 438, line start: 435
default 07:08:30.251889-0700 R RTextView: parserContextForPosition: 437, line start: 435
default 07:08:30.252163-0700 R RTextView: parserContextForPosition: 594, line start: 481
default 07:08:30.252315-0700 R RTextView: parserContextForPosition: 727, line start: 596
default 07:08:30.252468-0700 R RTextView: parserContextForPosition: 818, line start: 729
default 07:08:30.252507-0700 R RTextView: parserContextForPosition: 817, line start: 729
default 07:08:30.252537-0700 R RTextView: parserContextForPosition: 816, line start: 729
default 07:08:30.252566-0700 R RTextView: parserContextForPosition: 815, line start: 729
default 07:08:30.252593-0700 R RTextView: parserContextForPosition: 814, line start: 729
default 07:08:30.252619-0700 R RTextView: parserContextForPosition: 812, line start: 729
default 07:08:30.252645-0700 R RTextView: parserContextForPosition: 811, line start: 729
default 07:08:30.252672-0700 R RTextView: parserContextForPosition: 810, line start: 729
default 07:08:30.252698-0700 R RTextView: parserContextForPosition: 809, line start: 729
default 07:08:30.252726-0700 R RTextView: parserContextForPosition: 808, line start: 729
default 07:08:30.252753-0700 R RTextView: parserContextForPosition: 807, line start: 729
default 07:08:30.252779-0700 R RTextView: parserContextForPosition: 806, line start: 729
default 07:08:30.252805-0700 R RTextView: parserContextForPosition: 805, line start: 729
default 07:08:30.252831-0700 R RTextView: parserContextForPosition: 803, line start: 729
default 07:08:30.252857-0700 R RTextView: parserContextForPosition: 802, line start: 729
default 07:08:30.252885-0700 R RTextView: parserContextForPosition: 801, line start: 729
default 07:08:30.252911-0700 R RTextView: parserContextForPosition: 799, line start: 729
default 07:08:30.252994-0700 R RTextView: parserContextForPosition: 797, line start: 729
default 07:08:30.253040-0700 R RTextView: parserContextForPosition: 796, line start: 729
default 07:08:30.253084-0700 R RTextView: parserContextForPosition: 794, line start: 729
default 07:08:30.253128-0700 R RTextView: parserContextForPosition: 793, line start: 729
default 07:08:30.253232-0700 R RTextView: parserContextForPosition: 792, line start: 729
default 07:08:30.253356-0700 R RTextView: parserContextForPosition: 791, line start: 729
default 07:08:30.253433-0700 R RTextView: parserContextForPosition: 790, line start: 729
default 07:08:30.253477-0700 R RTextView: parserContextForPosition: 789, line start: 729
default 07:08:30.253530-0700 R RTextView: parserContextForPosition: 788, line start: 729
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default 07:08:30.254050-0700 R RTextView: parserContextForPosition: 779, line start: 729
default 07:08:30.254142-0700 R RTextView: parserContextForPosition: 778, line start: 729
default 07:08:30.254255-0700 R RTextView: parserContextForPosition: 777, line start: 729
default 07:08:30.254384-0700 R RTextView: parserContextForPosition: 776, line start: 729
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default 07:08:30.254656-0700 R RTextView: parserContextForPosition: 773, line start: 729
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default 07:08:30.255299-0700 R RTextView: parserContextForPosition: 758, line start: 729
default 07:08:30.255325-0700 R RTextView: parserContextForPosition: 757, line start: 729
default 07:08:30.255352-0700 R RTextView: parserContextForPosition: 756, line start: 729
default 07:08:30.255378-0700 R RTextView: parserContextForPosition: 755, line start: 729
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default 07:08:30.255430-0700 R RTextView: parserContextForPosition: 752, line start: 729
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default 07:08:30.255510-0700 R RTextView: parserContextForPosition: 748, line start: 729
default 07:08:30.255536-0700 R RTextView: parserContextForPosition: 747, line start: 729
default 07:08:30.255562-0700 R RTextView: parserContextForPosition: 746, line start: 729
default 07:08:30.255588-0700 R RTextView: parserContextForPosition: 745, line start: 729
default 07:08:30.255614-0700 R RTextView: parserContextForPosition: 743, line start: 729
default 07:08:30.255640-0700 R RTextView: parserContextForPosition: 742, line start: 729
default 07:08:30.255665-0700 R RTextView: parserContextForPosition: 741, line start: 729
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default 07:08:30.255717-0700 R RTextView: parserContextForPosition: 739, line start: 729
default 07:08:30.255743-0700 R RTextView: parserContextForPosition: 738, line start: 729
default 07:08:30.255769-0700 R RTextView: parserContextForPosition: 737, line start: 729
default 07:08:30.255795-0700 R RTextView: parserContextForPosition: 735, line start: 729
default 07:08:30.255820-0700 R RTextView: parserContextForPosition: 734, line start: 729
default 07:08:30.255846-0700 R RTextView: parserContextForPosition: 733, line start: 729
default 07:08:30.255871-0700 R RTextView: parserContextForPosition: 732, line start: 729
default 07:08:30.255897-0700 R RTextView: parserContextForPosition: 731, line start: 729
default 07:08:30.256067-0700 R RTextView: parserContextForPosition: 945, line start: 820
default 07:08:30.256242-0700 R RTextView: parserContextForPosition: 998, line start: 947
default 07:08:30.256278-0700 R RTextView: parserContextForPosition: 997, line start: 947
default 07:08:30.256308-0700 R RTextView: parserContextForPosition: 996, line start: 947
default 07:08:30.256335-0700 R RTextView: parserContextForPosition: 995, line start: 947
default 07:08:30.256362-0700 R RTextView: parserContextForPosition: 994, line start: 947
default 07:08:30.256393-0700 R RTextView: parserContextForPosition: 993, line start: 947
default 07:08:30.256421-0700 R RTextView: parserContextForPosition: 992, line start: 947
default 07:08:30.256448-0700 R RTextView: parserContextForPosition: 991, line start: 947
default 07:08:30.256474-0700 R RTextView: parserContextForPosition: 990, line start: 947
default 07:08:30.256508-0700 R RTextView: parserContextForPosition: 989, line start: 947
default 07:08:30.256537-0700 R RTextView: parserContextForPosition: 988, line start: 947
default 07:08:30.256606-0700 R RTextView: parserContextForPosition: 986, line start: 947
default 07:08:30.256639-0700 R RTextView: parserContextForPosition: 985, line start: 947
default 07:08:30.256669-0700 R RTextView: parserContextForPosition: 984, line start: 947
default 07:08:30.256695-0700 R RTextView: parserContextForPosition: 983, line start: 947
default 07:08:30.256722-0700 R RTextView: parserContextForPosition: 982, line start: 947
default 07:08:30.256747-0700 R RTextView: parserContextForPosition: 981, line start: 947
default 07:08:30.256773-0700 R RTextView: parserContextForPosition: 980, line start: 947
default 07:08:30.256799-0700 R RTextView: parserContextForPosition: 979, line start: 947
default 07:08:30.256825-0700 R RTextView: parserContextForPosition: 978, line start: 947
default 07:08:30.256850-0700 R RTextView: parserContextForPosition: 977, line start: 947
default 07:08:30.256875-0700 R RTextView: parserContextForPosition: 975, line start: 947
default 07:08:30.256901-0700 R RTextView: parserContextForPosition: 974, line start: 947
default 07:08:30.256927-0700 R RTextView: parserContextForPosition: 973, line start: 947
default 07:08:30.256952-0700 R RTextView: parserContextForPosition: 972, line start: 947
default 07:08:30.257023-0700 R RTextView: parserContextForPosition: 971, line start: 947
default 07:08:30.257055-0700 R RTextView: parserContextForPosition: 969, line start: 947
default 07:08:30.257124-0700 R RTextView: parserContextForPosition: 968, line start: 947
default 07:08:30.257195-0700 R RTextView: parserContextForPosition: 967, line start: 947
default 07:08:30.257249-0700 R RTextView: parserContextForPosition: 965, line start: 947
default 07:08:30.257294-0700 R RTextView: parserContextForPosition: 964, line start: 947
default 07:08:30.257380-0700 R RTextView: parserContextForPosition: 963, line start: 947
default 07:08:30.257411-0700 R RTextView: parserContextForPosition: 961, line start: 947
default 07:08:30.257440-0700 R RTextView: parserContextForPosition: 960, line start: 947
default 07:08:30.257467-0700 R RTextView: parserContextForPosition: 959, line start: 947
default 07:08:30.257514-0700 R RTextView: parserContextForPosition: 958, line start: 947
default 07:08:30.257603-0700 R RTextView: parserContextForPosition: 957, line start: 947
default 07:08:30.257635-0700 R RTextView: parserContextForPosition: 956, line start: 947
default 07:08:30.257662-0700 R RTextView: parserContextForPosition: 955, line start: 947
default 07:08:30.257710-0700 R RTextView: parserContextForPosition: 953, line start: 947
default 07:08:30.257800-0700 R RTextView: parserContextForPosition: 952, line start: 947
default 07:08:30.257833-0700 R RTextView: parserContextForPosition: 951, line start: 947
default 07:08:30.257860-0700 R RTextView: parserContextForPosition: 950, line start: 947
default 07:08:30.257903-0700 R RTextView: parserContextForPosition: 949, line start: 947
default 07:08:30.258122-0700 R RTextView: parserContextForPosition: 1067, line start: 1000
default 07:08:30.306278-0700 R RScriptEditorTextView: textStorageDidProcessEditing <<RScriptEditorTextView: 0x7fc5418fb000>
Frame = {{0.00, 0.00}, {475.00, 22264.50}}, Bounds = {{0.00, 0.00}, {475.00, 22264.50}}
Horizontally resizable: NO, Vertically resizable: YES
MinSize = {475.00, 398.00}, MaxSize = {1012.00, 10000000.00}
> with mask 1
default 07:08:30.312186-0700 R Making presenter 13F7B605-A369-4FFD-B7A6-EF424CA7B751 observe change
default 07:08:30.448271-0700 R RDocumentWinCtrl.functionReset
default 07:08:30.449479-0700 R - reset done
default 07:08:30.449548-0700 R RDoumentWinCtrl.functionRescan
default 07:08:30.450126-0700 R - found function 1838:33 " check_unique_rows_df"
default 07:08:30.450236-0700 R - found function 2170:26 " check_num_TRT"
default 07:08:30.450340-0700 R - found function 3072:25 " pull_columns"
default 07:08:30.450412-0700 R - found function 3380:28 " get_file_data
function("
default 07:08:30.450498-0700 R - found function 3886:28 " check_file_data"
default 07:08:30.450664-0700 R - found function 6653:23 " munge_data"
default 07:08:30.450825-0700 R - found function 9318:27 " label_outliers"
default 07:08:30.450901-0700 R - found function 9785:24 " p.t.test
function("
default 07:08:30.450974-0700 R - found function 10227:19 " diffmat = function("
default 07:08:30.451045-0700 R - found function 10640:26 " calc_pct_ctrl"
default 07:08:30.451136-0700 R - found function 11360:24 " HSD_merging"
default 07:08:30.451272-0700 R - found function 13020:25 " make_corr_df"
default 07:08:30.451348-0700 R - found function 13688:26 " no_var_filter"
default 07:08:30.451415-0700 R - found function 14208:33 " impute_PCA_to_tibble"
default 07:08:30.451477-0700 R - found function 14336:31 " get_num_timepoints"
default 07:08:30.451587-0700 R - found function 14588:29 " blank_PCA_plot
function("
default 07:08:30.452066-0700 R - found function 15564:27 " scatter_plot
function("
default 07:08:30.452187-0700 R - found function 16149:26 " PCA_plotter
function("
default 07:08:30.452276-0700 R - found function 16811:23 " make_plots"
default 07:08:30.452429-0700 R - found function 17872:26 " do_pca_plots"
default 07:08:30.453001-0700 R - found function 22628:29 " make_corr_matrix"
default 07:08:30.453074-0700 R - found function 22804:28 " cor_matrix_plot"
default 07:08:30.453212-0700 R - found function 24624:22 " diagPlot
function("
default 07:08:30.453349-0700 R - found function 26818:23 " box_plot
function("
default 07:08:30.453573-0700 R - found function 31209:23 " bar_plot
function("
default 07:08:30.453746-0700 R - found function 34217:29 " plot_combination"
default 07:08:30.453804-0700 R - found function 34405:25 " pull_p_value"
default 07:08:30.453860-0700 R - found function 34537:25 " model_n_plot"
default 07:08:30.453986-0700 R - found function 36674:26 " create_dirs
function("
default 07:08:30.454243-0700 R - found function 37113:28 " make_db_outputs"
default 07:08:30.454432-0700 R - found function 40210:29 " save_DB_inputs
function("
default 07:08:30.454509-0700 R - found function 40902:25 " save_t.test
function("
default 07:08:30.454585-0700 R - found function 41510:29 " save_PCA_plots
function("
default 07:08:30.454651-0700 R - found function 42046:30 " save_corr_plots
function("
default 07:08:30.454715-0700 R - found function 42501:38 " save_variable_bar_plots
function("
default 07:08:30.454782-0700 R - found function 43115:38 " save_variable_box_plots
function("
default 07:08:30.454852-0700 R - found function 43731:23 " render_one"
default 07:08:30.454916-0700 R - found function 44099:32 " render_html_reports"
default 07:08:30.454972-0700 R - found function 44348:25 " process_file"
default 07:08:30.456078-0700 R - rescan finished (39 sections)
default 07:08:30.859950-0700 R RDocumentWinCtrl.setStatusLine: ""
default 07:08:31.082138-0700 distnoted register name: NSServicesChangedNotification object: kCFNotificationAnyObject token: f4715 pid: 13961
default 07:08:31.091304-0700 distnoted register name: NSSpellServerLanguagesChanged object: kCFNotificationAnyObject token: f4717 pid: 13961
default 07:08:31.091406-0700 distnoted register name: AppleLanguagePreferencesChangedNotification object: kCFNotificationAnyObject token: f4718 pid: 13961
default 07:08:31.091674-0700 distnoted register name: NSSpellServerQuotesChanged object: kCFNotificationAnyObject token: f4719 pid: 13961
default 07:08:31.092066-0700 distnoted register name: NSSpellServerReplacementsChanged object: kCFNotificationAnyObject token: f471a pid: 13961
default 07:08:31.092231-0700 distnoted register name: NSUserReplacementItemsEnabledChanged object: kCFNotificationAnyObject token: f471b pid: 13961
default 07:08:31.092386-0700 distnoted register name: NSAutomaticSpellingCorrectionEnabledChanged object: kCFNotificationAnyObject token: f471c pid: 13961
default 07:08:31.092474-0700 distnoted register name: NSAutomaticQuoteSubstitutionEnabledChanged object: kCFNotificationAnyObject token: f471d pid: 13961
default 07:08:31.092612-0700 distnoted register name: NSAutomaticDashSubstitutionEnabledChanged object: kCFNotificationAnyObject token: f471e pid: 13961
default 07:08:31.092994-0700 distnoted register name: NSAutomaticTextCompletionEnabledChanged object: kCFNotificationAnyObject token: f471f pid: 13961
default 07:08:31.093040-0700 distnoted register name: NSAutomaticTextCompletionCollapsedChanged object: kCFNotificationAnyObject token: f4720 pid: 13961
default 07:08:31.093128-0700 distnoted register name: NSAutomaticCapitalizationEnabledChanged object: kCFNotificationAnyObject token: f4721 pid: 13961
default 07:08:31.093200-0700 distnoted register name: NSAutomaticPeriodSubstitutionEnabledChanged object: kCFNotificationAnyObject token: f4722 pid: 13961
default 07:08:31.093267-0700 distnoted register name: DictationIMNotificationStartedListening object: kCFNotificationAnyObject token: f4723 pid: 13961
default 07:08:33.884208-0700 launchservicesd SETFRONT: pid=13946 asn=0x-0x2d72d7 foreground=1 oldFrontPid=13961 oldFrontASN=0x-0x3007198
default 07:08:33.894619-0700 runningboardd [executable<Activity Monitor(501)>:13946] Ignoring GPU update because this process is not GPU managed
default 07:08:33.919986-0700 distnoted register name: com.apple.MultitouchSupport.HID.DeviceAdded object: kCFNotificationAnyObject token: f4734 pid: 13961
default 07:08:33.920092-0700 distnoted register name: com.apple.MultitouchSupport.HID.DeviceRemoved object: kCFNotificationAnyObject token: f4735 pid: 13961
default 07:08:34.002150-0700 runningboardd [executable<R(501)>:13961] Ignoring jetsam update because this process is not memory-managed
default 07:08:34.002270-0700 runningboardd [executable<R(501)>:13961] Set darwin role to: UserInteractiveNonFocal
default 07:08:34.002456-0700 runningboardd [executable<R(501)>:13961] Ignoring GPU update because this process is not GPU managed
default 07:08:34.030227-0700 tccd PID[203] is checking access for target PID[13961]
default 07:08:38.901710-0700 R LSExceptions shared instance invalidated for timeout.
default 07:10:51.542604-0700 launchservicesd SETFRONT: pid=13961 asn=0x-0x2de2de foreground=1 oldFrontPid=1196 oldFrontASN=0x-0x139298
default 07:10:51.545392-0700 runningboardd Acquiring assertion targeting executable<R(501)> from originator [daemon<com.apple.coreservices.launchservicesd>:142] with description <RBSAssertionDescriptor; frontmost:13961; ID: 413-142-2632; target: 13961> attributes = {
<RBSDomainAttribute: 0x7fd9dd729b50; domain: com.apple.launchservicesd; name: RoleUserInteractiveFocal; sourceEnvironment: 0x0>;
}
default 07:10:51.576889-0700 runningboardd [executable<R(501)>:13961] Ignoring jetsam update because this process is not memory-managed
default 07:10:51.579830-0700 runningboardd [executable<R(501)>:13961] Set darwin role to: UserInteractiveFocal
default 07:10:51.585860-0700 runningboardd [executable<R(501)>:13961] Ignoring GPU update because this process is not GPU managed
default 07:10:51.613800-0700 R - application:openFile:/Users/brandonhurr/Dropbox (BioLumic Ltd)/Data standardisation/Data_PIpeline DEV.R called
default 07:10:51.614330-0700 R appLaunched = YES, openInEditor = YES
default 07:10:51.614404-0700 R - application:openFile path of URL: <file:///Users/brandonhurr/Dropbox%20(BioLumic%20Ltd)/Data%20standardisation/Data_PIpeline%20DEV.R>
default 07:10:51.614447-0700 R RDocumentController.openDocumentWithContentsOfURL: /Users/brandonhurr/Dropbox (BioLumic Ltd)/Data standardisation/Data_PIpeline DEV.R
default 07:10:51.614586-0700 R - call super -> openDocumentWithContentsOfURL: /Users/brandonhurr/Dropbox (BioLumic Ltd)/Data standardisation/Data_PIpeline DEV.R
default 07:10:51.615106-0700 R RDocument(<RDocument: 0x600001348fa0>) init
default 07:10:51.615984-0700 R RDocument.loadDataRepresentation loading 52867 bytes of data and docType R Source File
default 07:10:51.616291-0700 R Adding presenter 8237964F-4961-4456-80DB-3660C409ED5E for URL: <private>
default 07:10:51.616575-0700 R Adding presenter 8237964F-4961-4456-80DB-3660C409ED5E for URL: <private>
default 07:10:51.616723-0700 R RDocument.makeWindowControllers: creating RDocumentWinCtrl
default 07:10:51.617069-0700 R RDocumentWinCtrl<<RDocumentWinCtrl: 0x7fc54064ec10>>.initWithNibName:RDocument
default 07:10:51.619908-0700 R 0x107b74000 - [frame=0x107bd4600, main=1] FrameLoader::setProvisionalDocumentLoader: Setting provisional document loader (m_provisionalDocumentLoader=0x107cf0c00)
default 07:10:51.619930-0700 R 0x107b74000 - [frame=0x107bd4600, main=1] FrameLoader::transitionToCommitted: Clearing provisional document loader (m_provisionalDocumentLoader=0x107cf0c00)
default 07:10:51.619944-0700 R 0x107b74000 - [frame=0x107bd4600, main=1] FrameLoader::setProvisionalDocumentLoader: Setting provisional document loader (m_provisionalDocumentLoader=0x0)
default 07:10:51.620611-0700 R 0x107cf0c00 - DocumentLoader::startLoadingMainResource: Returning empty document (frame = 0x107bd4600, main = 1)
default 07:10:51.620870-0700 R 0x107b74000 - [frame=0x107bd4600, main=1] FrameLoader::setState: main frame load completed
default 07:10:51.620918-0700 R Memory usage info dump at MainFrameLoadCompleted:
default 07:10:51.620935-0700 R document_count: 6
default 07:10:51.620949-0700 R phys_footprint: 106446848
default 07:10:51.620964-0700 R virtual_size: 6261026816
default 07:10:51.620976-0700 R resident_size: 136806400
default 07:10:51.621198-0700 R compressed: 0
default 07:10:51.621215-0700 R javascript_gc_heap_capacity: 32768
default 07:10:51.621229-0700 R javascript_gc_heap_extra_memory_size: 0
default 07:10:51.621243-0700 R backforward_cache_page_count: 0
default 07:10:51.621257-0700 R internal: 99749888
default 07:10:51.647665-0700 R <RDocumentWinCtrl: 0x7fc54064ec10> fileEncoding (<RDocument: 0x600001348fa0> gives 4)
default 07:10:51.647833-0700 R <RDocumentWinCtrl: 0x7fc54064ec10> fileEncoding (<RDocument: 0x600001348fa0> gives 4)
default 07:10:51.648716-0700 R RTextView: awakeFromNib <RScriptEditorTextView: 0x7fc541988c00>
Frame = {{0.00, 0.00}, {509.00, 398.00}}, Bounds = {{0.00, 0.00}, {509.00, 398.00}}
Horizontally resizable: NO, Vertically resizable: YES
MinSize = {507.00, 398.00}, MaxSize = {1012.00, 10000000.00}
default 07:10:51.648786-0700 R - delegate: <RDocumentWinCtrl: 0x7fc54064ec10>
default 07:10:51.648871-0700 R RScriptEditorTextView: awakeFromNib <<RScriptEditorTextView: 0x7fc541988c00>
Frame = {{0.00, 0.00}, {509.00, 398.00}}, Bounds = {{0.00, 0.00}, {509.00, 398.00}}
Horizontally resizable: NO, Vertically resizable: YES
MinSize = {507.00, 398.00}, MaxSize = {1012.00, 10000000.00}
>
default 07:10:51.649394-0700 R RScriptEditorTextView:awakeFromNib set scrollView
default 07:10:51.650753-0700 R - tiHelpSearch=<NSToolbarItem: 0x60000134bb60> identifier = "RETI Help Search", view=<NSView: 0x7fc54c50b770>
default 07:10:51.651093-0700 R - tiFnList=<NSToolbarItem: 0x60000134bde0> identifier = "RETI FnList", view=<NSView: 0x7fc5441fd1e0>
default 07:10:51.651464-0700 R toolbar:<NSToolbar: 0x600000c2e080> itemForItemIdentifier:RETI Save Document
default 07:10:51.651729-0700 R toolbar:<NSToolbar: 0x600000c2e080> itemForItemIdentifier:RETI FnList
default 07:10:51.651774-0700 R toolbar:<NSToolbar: 0x600000c2e080> itemForItemIdentifier:RETI Help Search
default 07:10:51.658684-0700 R RDocumentWinCtrl.setStatusLine: ""
default 07:10:51.658761-0700 R RDocumentWinCtrl.setStatusLine: ""
default 07:10:51.659581-0700 R RScriptEditorTextView: setTabStops <<RScriptEditorTextView: 0x7fc541988c00>
Frame = {{0.00, 0.00}, {509.00, 398.00}}, Bounds = {{0.00, 0.00}, {509.00, 398.00}}
Horizontally resizable: NO, Vertically resizable: YES
MinSize = {507.00, 398.00}, MaxSize = {1012.00, 10000000.00}
>
default 07:10:51.659934-0700 R RScriptEditorTextView: textStorageDidProcessEditing <<RScriptEditorTextView: 0x7fc541988c00>
Frame = {{0.00, 0.00}, {509.00, 398.00}}, Bounds = {{0.00, 0.00}, {509.00, 398.00}}
Horizontally resizable: NO, Vertically resizable: YES
MinSize = {507.00, 398.00}, MaxSize = {1012.00, 10000000.00}
> with mask 1
default 07:10:51.661864-0700 R RDocumentWinCtrl(<RDocumentWinCtrl: 0x7fc54064ec10>).windowDidLoad
default 07:10:51.662164-0700 R - load document contents into textView
default 07:10:51.662209-0700 R RDocument.loadInitialContents: loading
default 07:10:51.662241-0700 R - try to auto-detect file encoding
default 07:10:51.662688-0700 R - new string contents (52864 chars) for window controller <RDocumentWinCtrl: 0x7fc54064ec10>
default 07:10:51.662744-0700 R <RDocumentWinCtrl: 0x7fc54064ec10> setFileEncoding: 4 (doc <RDocument: 0x600001348fa0>)
default 07:10:51.662784-0700 R - setFileEncoding: 4
default 07:10:51.663146-0700 R <RDocumentWinCtrl: 0x7fc54064ec10> fileEncoding (<RDocument: 0x600001348fa0> gives 4)
default 07:10:51.663202-0700 R <RDocumentWinCtrl: 0x7fc54064ec10> fileEncoding (<RDocument: 0x600001348fa0> gives 4)
default 07:10:51.669668-0700 R RScriptEditorTextView: textStorageDidProcessEditing <<RScriptEditorTextView: 0x7fc541988c00>
Frame = {{0.00, 0.00}, {509.00, 398.00}}, Bounds = {{0.00, 0.00}, {509.00, 398.00}}
Horizontally resizable: NO, Vertically resizable: YES
MinSize = {507.00, 398.00}, MaxSize = {1012.00, 10000000.00}
> with mask 3
default 07:10:51.669984-0700 R RDocumentWinCtrl: textViewDidChangeSelection and calls currentFunctionHint
default 07:10:51.670166-0700 R RDocumentWinCtrl: textViewDidChangeSelection and calls currentFunctionHint
default 07:10:51.670331-0700 R RDocumentWinCtrl - received notification about search type change to 10
default 07:10:51.677139-0700 R - scan document for functions
default 07:10:51.677243-0700 R - set up line numbering for text view
default 07:10:51.678216-0700 R RDocumentWinCtrl.functionReset
default 07:10:51.679642-0700 R - reset done
default 07:10:51.679711-0700 R - windowDidLoad is done
default 07:10:51.686009-0700 R - application:openFile:/Users/brandonhurr/Dropbox (BioLumic Ltd)/Data standardisation/Data_PIpeline DEV.R with wd: <> done
default 07:10:51.703203-0700 distnoted register name: com.apple.inputmethodkit.abnormaldeath object: com.apple.PressAndHold token: f47d1 pid: 13961
default 07:10:51.716742-0700 kernel AMFI: Process has GET_TASK_ALLOW, allowing core dump for pid 13961
default 07:10:51.719245-0700 launchservicesd SETFRONT: pid=1196 asn=0x-0x22022 foreground=1 oldFrontPid=13961 oldFrontASN=0x-0x3007198
default 07:10:51.729677-0700 hidd Connection removed: IOHIDEventSystemConnection uuid:BF58D26A-D995-419D-AB32-AF5E831645C9 pid:13961 process:R type:Passive entitlements:0x0 caller:HIServices: ___GetIOHIDEventSystemClient_block_invoke + 26 attributes:(null) state:0x1 events:0 mask:0x0
default 07:10:51.731240-0700 FinderSyncAPIExtension [u C5927C3A-CE4F-4C9E-9025-CC8B7F691981] [<private>(<private>)] host connection from pid 13961 invalidated
default 07:10:51.732460-0700 hidd Connection removed: IOHIDEventSystemConnection uuid:7FAD2C74-126A-4B14-BE31-0CF65AAE3240 pid:13961 process:R type:Passive entitlements:0x0 caller:HIToolbox: ___GetIOHIDEventSystemClient_block_invoke + 26 attributes:(null) state:0x1 events:0 mask:0x0
default 07:10:51.735047-0700 launchservicesd QUITTING: pid=13961 asn=0x-0x2de2de foreground=1 wasFront=0
default 07:10:51.734038-0700 runningboardd [executable<R(501)>:13961] Death sentinel fired!
default 07:10:51.809525-0700 ReportCrash Parsing corpse data for pid 13961
default 07:10:51.809567-0700 ReportCrash Parsing corpse data for process R [pid 13961]
default 07:10:51.828433-0700 runningboardd [executable<R(501)>:13961] Ignoring jetsam update because this process is not memory-managed
default 07:10:51.828635-0700 runningboardd [executable<R(501)>:13961] Ignoring suspend because this process is not lifecycle managed
default 07:10:51.830221-0700 runningboardd [executable<R(501)>:13961] Ignoring GPU update because this process is not GPU managed
default 07:10:51.844110-0700 runningboardd Removing process: [executable<R(501)>:13961]
default 07:10:51.847735-0700 runningboardd Removing assertions for terminated process: [executable<R(501)>:13961]
default 07:10:53.235153-0700 ReportCrash Saved crash report for R[13961] version R for macOS GUI 1.72-devel Debug build (7841) to R_2020-06-08-071053_Weka.crash
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