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Unable to update Snow Leopard - 10.6.4 to 10.6.5 Help?

DeepIn2U

DeepIn2U

macrumors G5
Original poster
May 30, 2002
13,239
7,084
Toronto, Ontario, Canada
I apologize in advance if posted in the wrong sub-forum [mods' please adjust if needed]

OK, I'm unable to update from 10.6.4 Snow Leopard to the 10.6.5 Security Update - either from built-in Software Update, the downloaded 10.6.5 Combo update, or the full 644MB OS X 10.6.5 Update. Using Disk Utility to Verify or Repair Disk Permissions I see the error - "Warning: SUID file "System/Library/CoreS... as been modified and will not be repaired". Also my Mac Mini 2.0Ghz 4GB RAM, 320GB HDD is pretty much on 24/7 and I've rebooted several times after each attempt listed above and running Disk Utility before each reboot and before each attempt.

An aside to this ... I'm unable to use the numeric keys above the keypad on my Apple Keyboard Pro [aluminum] for the past 20days. Yes I've checked System Preferences:
Keyboard: Restore Defaults, Full keyboard access = All Controls, Modifier keys = [only Apple Keyboard is selectable], and I've restored defaults, Expose Fkeys have been removed [tried and set back to no avail]. Lastly, I'm unable to use the powered USB ports on my Dell monitor which worked just a few days ago before my wife moved around the desk - doubtful she would've damaged anything [she knows I'm anal about the Mac - I work with PCs].

I'm unsure if all are related and I DO recall having to do the 10.6.4 Combo update from the original shipping Snow Leopard.

Have I missed anything to test? Any help would be appreciated as this is the family Mac - wife and kids rely on this.

Dec 5 23:57:10 Galactica Installer[773]: @(#)PROGRAM:Install PROJECT:Install-581
Dec 5 23:57:10 Galactica Installer[773]: @(#)PROGRAM:Installer PROJECT:Installer-430.1
Dec 5 23:57:10 Galactica Installer[773]: Hardware: Macmini3,1 @ 2.00 GHz (x 2), 4096 MB RAM
Dec 5 23:57:10 Galactica Installer[773]: Running OS Build: Mac OS X 10.6.4 (10F569)
Dec 5 23:57:10 Galactica Installer[773]: Env: PATH=/usr/bin:/bin:/usr/sbin:/sbin
Dec 5 23:57:10 Galactica Installer[773]: Env: TMPDIR=/var/folders/6d/6d0f5v1kGeyZRSB9W25-P++++TY/-Tmp-/
Dec 5 23:57:10 Galactica Installer[773]: Env: SHELL=/bin/bash
Dec 5 23:57:10 Galactica Installer[773]: Env: HOME=/Users/Blade1
Dec 5 23:57:10 Galactica Installer[773]: Env: USER=Blade
Dec 5 23:57:10 Galactica Installer[773]: Env: LOGNAME=Blade
Dec 5 23:57:10 Galactica Installer[773]: Env: DISPLAY=/tmp/launch-MSapsh/org.x:0
Dec 5 23:57:10 Galactica Installer[773]: Env: SSH_AUTH_SOCK=/tmp/launch-02x86o/Listeners
Dec 5 23:57:10 Galactica Installer[773]: Env: Apple_PubSub_Socket_Render=/tmp/launch-z644s6/Render
Dec 5 23:57:10 Galactica Installer[773]: Env: __CF_USER_TEXT_ENCODING=0x1F9:0:0
Dec 5 23:57:10 Galactica Installer[773]: Env: COMMAND_MODE=unix2003
Dec 5 23:57:10 Galactica Installer[773]: Mac OS X Update Installation Log
Dec 5 23:57:10 Galactica Installer[773]: Opened from: /Volumes/Mac OS X 10.6.5 Update/MacOSXUpd10.6.5.pkg
Dec 6 00:00:05 Galactica runner[781]: Administrator authorization granted.
Dec 6 00:00:09 Galactica Installer[773]: ================================================================================
Dec 6 00:00:09 Galactica Installer[773]: User picked Standard Install
Dec 6 00:00:09 Galactica Installer[773]: Choices selected for installation:
Dec 6 00:00:09 Galactica Installer[773]: Install: "Mac OS X Update"
Dec 6 00:00:09 Galactica Installer[773]: Install: "Mac OS X Update"
Dec 6 00:00:09 Galactica Installer[773]: MacOSXUpd10.6.5.pkg#MacOSXUpd10.6.5.pkg : delta : 1.0.1.1249367152
Dec 6 00:00:09 Galactica Installer[773]: MacOSXUpd10.6.5.pkg#X11For10.6.5.pkg : X11Delta : 1.0.1.1249367152
Dec 6 00:00:09 Galactica Installer[773]: ================================================================================
Dec 6 00:00:09 Galactica Installer[773]: It took 0.00 seconds to summarize the package selections.
Dec 6 00:00:09 Galactica Installer[773]: -[IFDInstallController(Private) _buildInstallPlan]: location = file://localhost
Dec 6 00:00:09 Galactica Installer[773]: -[IFDInstallController(Private) _buildInstallPlan]: file://localhost/Volumes/Mac%20OS%20X%2010.6.5%20Update/MacOSXUpd10.6.5.pkg#MacOSXUpd10.6.5.pkg
Dec 6 00:00:09 Galactica Installer[773]: -[IFDInstallController(Private) _buildInstallPlan]: file://localhost/Volumes/Mac%20OS%20X%2010.6.5%20Update/MacOSXUpd10.6.5.pkg#X11For10.6.5.pkg
Dec 6 00:00:10 Galactica Installer[773]: Will use PK session
Dec 6 00:00:10 Galactica Installer[773]: Starting installation:
Dec 6 00:00:10 Galactica Installer[773]: Configuring volume "Galactica"
Dec 6 00:00:10 Galactica Installer[773]: Preparing disk for local booted install.
Dec 6 00:00:10 Galactica Installer[773]: Free space on "Galactica": 114.38 GB (114378645504 bytes).
Dec 6 00:00:10 Galactica Installer[773]: Create temporary directory "/var/folders/6d/6d0f5v1kGeyZRSB9W25-P++++TY/-Tmp-//Install.773Yxb95v"
Dec 6 00:00:10 Galactica Installer[773]: IFPKInstallElement (2 packages)
Dec 6 00:00:10 Galactica installd[785]: PackageKit: ----- Begin install -----
Dec 6 00:00:10 Galactica installd[785]: PackageKit: request=PKInstallRequest <2 packages, destination=/>
Dec 6 00:00:10 Galactica installd[785]: PackageKit: packages=(\n "PKLeopardPackage <file://localhost/Volumes/Mac%20OS%20X%2010.6.5%20Update/MacOSXUpd10.6.5.pkg#MacOSXUpd10.6.5.pkg>",\n "PKLeopardPackage <file://localhost/Volumes/Mac%20OS%20X%2010.6.5%20Update/MacOSXUpd10.6.5.pkg#X11For10.6.5.pkg>"\n)
Dec 6 00:00:12 Galactica installd[785]: PackageKit: Skipping component "com.apple.CoreMediaAuthoring.CoreMediaAuthoringLegacyInventory.bundle" (0.8.0-705.0.0-7050000-*) because the version 0.700.0-700.0.0-7000000-7 is already installed.
Dec 6 00:00:19 Galactica installd[785]: PackageKit: Skipping component "com.apple.CoreMediaAuthoring.CoreMediaAuthoringInventory.bundle" (0.8.0-705.0.0-7050000-*) because the version 0.700.0-700.0.0-7000000-7 is already installed.
Dec 6 00:00:21 Galactica installd[785]: PackageKit: Skipping component "com.apple.CoreMediaAuthoring" (0.8.0-705.0.0-7050000-*) because the version 0.700.0-700.0.0-7000000-7 is already installed.
Dec 6 00:00:23 Galactica installd[785]: PackageKit: Skipping component "com.apple.CoreMediaAuthoring.CoreMediaAuthoringCrunchers.bundle" (0.8.0-705.0.0-7050000-*) because the version 0.700.0-700.0.0-7000000-7 is already installed.
Dec 6 00:00:34 Galactica installd[785]: PackageKit: Skipping component "com.apple.Safari" (5.0.2-6533.18.5-75331805-*) because the version 5.0.3-6533.19.4-75331904-2 is already installed.
Dec 6 00:00:35 Galactica installd[785]: PackageKit: Skipping component "com.apple.CoreMediaAuthoring.CoreMediaAuthoringLegacyCrunchers.bundle" (0.8.0-705.0.0-7050000-*) because the version 0.700.0-700.0.0-7000000-7 is already installed.
Dec 6 00:00:37 Galactica installd[785]: PackageKit: Skipping component "com.apple.Safari.SyncClient" (1.0.0-1.0.0-75331805-*) because the version 1.0.0-1.0.0-75331904-2 is already installed.
Dec 6 00:00:48 Galactica installd[785]: PackageKit: Extracting /Volumes/Mac OS X 10.6.5 Update/MacOSXUpd10.6.5.pkg (destination=/var/folders/zz/zzzivhrRnAmviuee+++++++++++/Cleanup At Startup/PKInstallSandbox-tmp/Root, uid=0)
Dec 6 00:02:17 Galactica installd[785]: PackageKit: Extracting /Volumes/Mac OS X 10.6.5 Update/MacOSXUpd10.6.5.pkg (destination=/var/folders/zz/zzzivhrRnAmviuee+++++++++++/Cleanup At Startup/PKInstallSandbox-tmp/Root, uid=0)
Dec 6 00:02:20 Galactica installd[785]: PackageKit: Executing script "preinstall" in /private/tmp/PKInstallSandbox.RJ6MU8/Scripts/com.apple.pkg.update.os.10.6.5.IWjzF3
Dec 6 00:02:22 Galactica _spotlight[795]: Running Install Scripts . . .
Dec 6 00:02:22 Galactica _spotlight[797]: Begin script: MTSupportPre
Dec 6 00:02:25 Galactica _spotlight[800]: End script: MTSupportPre
Dec 6 00:02:25 Galactica _spotlight[801]: Begin script: MessagePartitions.pl
Dec 6 00:02:31 Galactica installd[785]: preinstall: root disk is disk0
Dec 6 00:02:33 Galactica installd[785]: preinstall: countHFS: 1
Dec 6 00:02:33 Galactica installd[785]: preinstall: countWindows: 0
Dec 6 00:02:33 Galactica installd[785]: preinstall: signature: No Boot Camp partitions
Dec 6 00:02:33 Galactica _spotlight[808]: End script: MessagePartitions.pl
Dec 6 00:02:33 Galactica _spotlight[809]: Begin script: checkForFlash
Dec 6 00:02:33 Galactica _spotlight[811]: End script: checkForFlash
Dec 6 00:02:33 Galactica _spotlight[812]: Begin script: createDNI
Dec 6 00:02:33 Galactica _spotlight[815]: End script: createDNI
Dec 6 00:02:33 Galactica _spotlight[816]: Begin script: forceSync
Dec 6 00:02:34 Galactica _spotlight[819]: End script: forceSync
Dec 6 00:02:34 Galactica _spotlight[820]: 5 Install Scripts run.
Dec 6 00:02:34 Galactica installd[785]: PackageKit: update_dyld_shared_cache -overlay /var/folders/zz/zzzivhrRnAmviuee+++++++++++/Cleanup At Startup/PKInstallSandbox-tmp/Root
Dec 6 00:02:46 Galactica installd[785]: update_dyld_shared_cache[821] current i386 cache file invalid because /System/Library/PrivateFrameworks/DesktopServicesPriv.framework/Versions/A/DesktopServicesPriv has changed
Dec 6 00:02:58 Galactica installd[785]: update_dyld_shared_cache: warning mismatched install path in /System/Library/PrivateFrameworks/iLifeMediaBrowser.framework/Versions/A/iLifeMediaBrowser for /usr/lib/libgcc_s.1.dylib
Dec 6 00:03:10 Galactica installd[785]: update_dyld_shared_cache[821] current ppc cache file invalid because /System/Library/PrivateFrameworks/DesktopServicesPriv.framework/Versions/A/DesktopServicesPriv has changed
Dec 6 00:03:25 Galactica installd[785]: update_dyld_shared_cache[821] current x86_64 cache file invalid because /System/Library/PrivateFrameworks/DesktopServicesPriv.framework/Versions/A/DesktopServicesPriv has changed
Dec 6 00:03:33 Galactica installd[785]: update_dyld_shared_cache: warning mismatched install path in /System/Library/PrivateFrameworks/iLifeMediaBrowser.framework/Versions/A/iLifeMediaBrowser for /usr/lib/libgcc_s.1.dylib
Dec 6 00:03:51 Galactica installd[785]: PackageKit: Shoving /var/folders/zz/zzzivhrRnAmviuee+++++++++++/Cleanup At Startup/PKInstallSandbox-tmp/Root (9 items) to /
Dec 6 00:03:52 Galactica /System/Library/PrivateFrameworks/PackageKit.framework/Resources/shove[822]: [source=file] failed _RelinkFile(/var/folders/zz/zzzivhrRnAmviuee+++++++++++/Cleanup At Startup/PKInstallSandbox-tmp/Root/Applications/Address Book.app/Contents/Resources/English.lproj/ABLargeTypeWindow.nib/keyedobjects.nib, /Applications/Address Book.app/Contents/Resources/English.lproj/ABLargeTypeWindow.nib/keyedobjects.nib): Operation not permitted
Dec 6 00:03:52 Galactica installd[785]: PackageKit: Install Failed: (null)\nError Domain=PKInstallErrorDomain Code=120 UserInfo=0x10401f030 "An unexpected error occurred while moving files to the final destination." Underlying Error=(Error Domain=NSPOSIXErrorDomain Code=1 "The operation couldn’t be completed. Operation not permitted") {\n NSLocalizedDescription = "An unexpected error occurred while moving files to the final destination.";\n NSUnderlyingError = "Error Domain=NSPOSIXErrorDomain Code=1 \"The operation couldn\U2019t be completed. Operation not permitted\"";\n arguments = (\n "-f",\n "-s",\n "/var/folders/zz/zzzivhrRnAmviuee+++++++++++/Cleanup At Startup/PKInstallSandbox-tmp/Root",\n "/"\n );\n}
Dec 6 00:03:52 Galactica Installer[773]: install:didFailWithError:Error Domain=PKInstallErrorDomain Code=120 UserInfo=0x1180f7f10 "An unexpected error occurred while moving files to the final destination." Underlying Error=(Error Domain=NSPOSIXErrorDomain Code=1 "The operation couldn’t be completed. Operation not permitted")
Dec 6 00:03:53 Galactica Installer[773]: Install failed: The Installer encountered an error that caused the installation to fail. Contact the software manufacturer for assistance.
Dec 6 00:03:54 Galactica Installer[773]: IFDInstallController 1A5460 state = 7
Dec 6 00:03:54 Galactica Installer[773]: Displaying 'Install Failed' UI.
Dec 6 00:03:54 Galactica Installer[773]: 'Install Failed' UI displayed message:'The Installer encountered an error that caused the installation to fail. Contact the software manufacturer for assistance.'.
Dec 6 00:04:28 Galactica Installer[773]: IFJS: *** exception: TypeError: Result of expression 'my.target' [null] is not an object.
Dec 6 00:04:28 Galactica Installer[773]: IFJS: *** exception: TypeError: Result of expression 'my.target' [null] is not an object.
Model: Macmini3,1, BootROM MM31.0081.B06, 2 processors, Intel Core 2 Duo, 2 GHz, 4 GB, SMC 1.35f0
Graphics: NVIDIA GeForce 9400, NVIDIA GeForce 9400, PCI, 256 MB
Memory Module: global_name
AirPort: spairport_wireless_card_type_airport_extreme (0x14E4, 0x90), Broadcom BCM43xx 1.0 (5.10.91.27)
Bluetooth: Version 2.3.3f8, 2 service, 19 devices, 1 incoming serial ports
Network Service: Ethernet, Ethernet, en0
Serial ATA Device: SAMSUNG HM320JI, 298.09 GB
Serial ATA Device: OPTIARC DVD RW AD-5670S
USB Device: My Book 1111, 0x1058 (Western Digital Technologies, Inc.), 0x1111, 0x26400000
USB Device: Keyboard Hub, 0x05ac (Apple Inc.), 0x1006, 0x24300000
USB Device: Apple Keyboard, 0x05ac (Apple Inc.), 0x0220, 0x24320000
USB Device: BRCM2046 Hub, 0x0a5c (Broadcom Corp.), 0x4500, 0x06100000
USB Device: Bluetooth USB Host Controller, 0x05ac (Apple Inc.), 0x8216, 0x06110000
USB Device: IR Receiver, 0x05ac (Apple Inc.), 0x8242, 0x04500000
FireWire Device: iSight, Apple Computer, Inc., Up to 200 Mb/sec
Click to expand...
 
Last edited:
Looks like you've tried a lot of things. Maybe it's time to format and start totally fresh. You have a Time Machine backup right?
 
SandboxGeneral said:
Looks like you've tried a lot of things. Maybe it's time to format and start totally fresh. You have a Time Machine backup right?
Click to expand...

I have a Time Machine Backup ... several in fact. But I've never formated and retrieved from it since I began using a Mac [April for family machine affected, and February for MB which doesn't have issues]. I'm hoping that all my software will also be retrieved and intact.

What happens if I format and keep the Mac's HDD default [currently its custom], and change my logon [the primary of 2 admin accounts] on the machine? will this disallow me access to my documents/pictures/videos/textedits etc etc? I'm really worried about this. Sorry I've been trained in a windows world and even with Win7 this is something to avoid and not fun to sift through so the fear is sunk in REALLY deep.

Is there no other alternatives?
 
Prom1 said:
Warning: SUID file "System/Library/CoreS... as been modified and will not be repaired
Click to expand...

that is probably nothing to worry about. see this support article on permission repair messages you can safely ignore.

Is there no other alternatives?
Click to expand...

you could try this:

(a) download the Mac OS X v10.6.5 Update (Combo) (if you didn't already)
(b) reboot into safe mode
(c) launch disk utility, verify disk and repair permissions
(d) if DU doesn't report anything out of the ordinary, run the combo
(e) after running the combo, let the Mac reboot normally and repair permissions again.
 
Think your problem is, at some time you created an absolutely undeletable file.

As Administrator, open Terminal and run: sudo chflags -R nouchg /
Close Terminal.
Then, run update to 10.6.5.

What this does:
sudo : execute the command which follows as the super user
chflags : this is a command which sets or removes extended file system attributes of files or folders
-R make changes recursively (i.e. change all subfolders and subfolders of subfolders)
nouchg remove the uchg attribute from files or folders (this attribute is synonymous with the Locked status of a file or folder in the finder).
 
karl878 said:
Think your problem is, at some time you created an absolutely undeletable file.

As Administrator, open Terminal and run: sudo chflags -R nouchg /
Close Terminal.
Then, run update to 10.6.5.

What this does:
sudo : execute the command which follows as the super user
chflags : this is a command which sets or removes extended file system attributes of files or folders
-R make changes recursively (i.e. change all subfolders and subfolders of subfolders)
nouchg remove the uchg attribute from files or folders (this attribute is synonymous with the Locked status of a file or folder in the finder).
Click to expand...

I tried this and it would've been nice to know that Terminal would ALSO look at my 2TB external HDD where my backups are in advance. Thus far a crap-load of "Operation Not Permitted" is resulted for each file/location for folders. But its still running and will take a while.


Jolly Giant, I'll try your solution - I think I tried to boot in safe mode and forgot to post about it. I am the administrator for the home Mac Mini, along with my wife.

already tried C/D"launch disk utility, verify disk and repair permissions
(d) if DU doesn't report anything out of the ordinary, run the combo" non work due to the original posted error about "System\Library\CoreS..."; just not in safe mode so I'll try it as you posted.

Many Thanks guys and will post tomorrow to let you know the results of all suggestions. I really hope this works.
 
Jolly Giant said:
that is probably nothing to worry about. see this support article on permission repair messages you can safely ignore.



you could try this:

(a) download the Mac OS X v10.6.5 Update (Combo) (if you didn't already)
(b) reboot into safe mode
(c) launch disk utility, verify disk and repair permissions
(d) if DU doesn't report anything out of the ordinary, run the combo
(e) after running the combo, let the Mac reboot normally and repair permissions again.
Click to expand...

result under safe boot:

Verify permissions for “Galactica”
Warning: SUID file "System/Library/CoreServices/RemoteManagement/ARDAgent.app/Contents/MacOS/ARDAgent" has been modified and will not be repaired.

Permissions verification complete

Verifying volume “Galactica”
Performing live verification.
Checking Journaled HFS Plus volume.
Checking extents overflow file.
Checking catalog file.
Checking multi-linked files.
Checking catalog hierarchy.
Checking extended attributes file.
Checking volume bitmap.
Checking volume information.
The volume Galactica appears to be OK.

Repairing permissions for “Galactica”
Warning: SUID file "System/Library/CoreServices/RemoteManagement/ARDAgent.app/Contents/MacOS/ARDAgent" has been modified and will not be repaired.

Permissions repair complete
Click to expand...

reported successful following your instructions, just rebooting.
 
Last edited:
Jolly Giant said:
that is probably nothing to worry about. see this support article on permission repair messages you can safely ignore.



you could try this:

(a) download the Mac OS X v10.6.5 Update (Combo) (if you didn't already)
(b) reboot into safe mode
(c) launch disk utility, verify disk and repair permissions
(d) if DU doesn't report anything out of the ordinary, run the combo
(e) after running the combo, let the Mac reboot normally and repair permissions again.
Click to expand...

I must say " THANK YOU". This actually resolved my issue. Rebooted and confirmed. Also this allowed me to finally updated the HP printer, Safari 5.0.3, and Java updates after the reboot.

karl878, to your credit I tried your resolution before doing the above. Problem was my attached 2TB WD HDD was included in the Terminal check and after taking so long I left it overnight to complete running which crashed Terminal.

Thank you guys ... VERY much. I actually kissed my Mac Mini.
 
Prom1 said:
Warning: SUID file "System/Library/CoreServices/RemoteManagement/ARDAgent.app/Contents/MacOS/ARDAgent" has been modified and will not be repaired.
Click to expand...

we all get those. more in this support article.

Permissions repair complete
Click to expand...

THAT's what counts !

I must say " THANK YOU". This actually resolved my issue. Rebooted and confirmed. Also this allowed me to finally updated the HP printer, Safari 5.0.3, and Java updates after the reboot.
Click to expand...

we aim to please ;)
 
jpwat81 said:
I found a solution here: http://appletoolbox.com/2010/04/mac-os-x-10-6-3-fails-to-install/

Though it says it's a fix for 10.6.3 update, it works for 10.6.5 as well. I increased max open files from 2000 to 2400.
Click to expand...


The value of "2000" you mention reminded me of the discussion about SMART board software, which installed a file: /etc/launchd.conf with: limit maxfiles 2000 2000 . The normal value for kern.maxfiles is 12288. (The value is normally reset to this every time you reboot.)

If the only thing in /etc/launchd.conf is the above (setting max open files), then remove launchd.conf. (Sudo rm /etc/launchd.conf.)

If launchd.conf has additional lines, you would have to modify the file.

Adobe forum has additional info: http://forums.adobe.com/thread/557967?tstart=0
 
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