Upgrade Windows Server 2012 to Windows Server 2012 R2 in-place upgrade

I have tried to do an in place upgrade for Windows Server 2012 Standard to Windows Server 2012 R2 using the in-place upgrade at least a dozen times. Always with the same unhelpful failure message. 
I have tried downloading the latest (setup) update and not downloading it - makes no difference - same error.
I would really rather upgrade this server than re-install. I have scoured the internet looking for answers and I can't find anything useful. 
I have downloaded the latest 2012 R2 Standard iso. The version of 2012 installed is a stock retail Standard version it was never an eval version.
Any help much appreciated.
Andy

I did check the article. I did the ADPREP as described and adprep worked fine. Unfortunately it did not make any difference. Log entries below:
setupact
2014-05-28 07:56:56, Info                  MIG    End of hive list
2014-05-28 07:56:56, Warning    [0x0803db] MIG    IndirectKeyMapper: RegLoadKey(HKEY_USERS,S-1-5-21-902023783-652776199-2643897273-500 (1),C:\Users\Administrator\NTUSER.DAT) failed; giving up (32)
2014-05-28 07:56:56, Error      [0x08039d] MIG    Cannot add mapping for user profile C:\Users\Administrator. Error: 32: Win32Exception: The process cannot access the file because it is being used by another process. [0x00000020] __cdecl
Mig::CIndirectKeyMapper::CIndirectKeyMapper(class UnBCL::String *,struct HKEY__ *,class UnBCL::String *,class UnBCL::String *,int,int,const Mig::HiveLoadRetryOptions *)[gle=0x000000cb]
2014-05-28 07:56:56, Error      [0x080801] MIG    User profile loading error. Aborting due to external request.[gle=0x000000cb]
2014-05-28 07:56:56, Warning    [0x0803de] MIG    Failed to unload hive at HKEY_LOCAL_MACHINE\$ONLINE_RW$ELAM (error 1314)
2014-05-28 07:56:56, Warning    [0x0809d4] MIG    Failed to close keymapper 'ELAM': error 1314
2014-05-28 07:56:56, Warning    [0x0803de] MIG    Failed to unload hive at HKEY_LOCAL_MACHINE\$ONLINE_RW$ELAM (error 1314)
2014-05-28 07:56:56, Error                        MigStartupOnline caught exception: Win32Exception: User profile loading error. Aborting due to external request.: The specified user does not have
a valid profile. [0x000004E5] void __cdecl Mig::COnlineWinNTPlatform::ProcessUser(class Mig::CRegistryDataStore *,class Mig::CRegistryDataUnit *,class UnBCL::String *,class UnBCL::String *,int,int)
2014-05-28 07:56:56, Info                         Leaving MigStartupOnline method
2014-05-28 07:56:56, Error                 MIG    pDoOnlineGather: Engine initialization failed with error: 0x00000004
2014-05-28 07:56:56, Error      [0x0800ad] MIG    Callback_GatherOldSys: Migration phase failed.
2014-05-28 07:56:56, Info                  MIG    PublishCriticalError: Setup can't continue. Restart the computer and restart Setup. When prompted, try getting the latest updates.
2014-05-28 07:56:56, Info       [0x0a013d] UI     Accepting Cancel. Exiting Page Progress.
2014-05-28 07:56:56, Info                  UI     Entering Page Cancel.
2014-05-28 07:56:56, Info       [0x0a0035] UI     Allowing Page 'App Compat' to be shown
2014-05-28 07:56:56, Info       [0x0a0035] UI     Allowing Page 'App Compat' to be shown
2014-05-28 07:56:56, Info       [0x0a011c] UI     WizardDialogPost::SetActive
2014-05-28 09:17:28, Info       [0x070042] DIAG   CallBack_DiagnosticDataSend: Called with notification for Error published by ErrorHandler
2014-05-28 09:17:28, Info       [0x0a0023] UI     progress task ProgressInfo\SendDiagnostics : StartProgress
2014-05-28 09:17:28, Info                  DIAG   DiagnosticDataSendWorker: Phase=1 Start time was 0X309961825, End time was 0X309962C98, total time was 0X1473
2014-05-28 09:17:28, Info       [0x070044] DIAG   DiagnosticDataSendWorker: startSetupTimeInSecs = 0X309962634
2014-05-28 09:17:28, Info       [0x070045] DIAG   Processing Diagnostic data at 2014-05-28 09:17:28
2014-05-28 09:17:28, Info       [0x070046] DIAG   DiagnosticDataSendWorker: endSetupTimeInSecs = 0X309963AA8
2014-05-28 09:17:28, Info                  DIAG   DiagnosticDataSendWorker: setupInstallTime = 0X1474
2014-05-28 09:17:28, Info                  DIAG   DiagnosticDataSendWorker: User is NOT OPTED-IN for SQM and Watson.
2014-05-28 09:17:28, Info       [0x0a0024] UI     progress task ProgressInfo\SendDiagnostics : EndProgress
2014-05-28 09:17:28, Info       [0x090095] PANTHR WdsExitImmediate called!  Execution will stop, and the queue won't be saved.
2014-05-28 09:17:28, Info                  DIAG   Module path is [C:\$WINDOWS.~BT\Sources\setup.exe]
2014-05-28 09:17:28, Info                  DIAG   Module version is [6.3.9600.16384 (winblue_rtm.130821-1623)]
2014-05-28 09:17:28, Info                  DIAG   Module path is [C:\$WINDOWS.~BT\Sources\setup.exe]
2014-05-28 09:17:28, Info                  DIAG   Failed install count for build [6.3.9600.16384 (winblue_rtm.130821-1623)] is [12]
2014-05-28 09:17:28, Info                  IBS    Successfully incremented the failed install count on this machine
2014-05-28 09:17:28, Info       [0x0800af] MIG    Leaving Callback_GatherOldSys (failure)
2014-05-28 09:17:28, Info       [0x09008c] PANTHR SeqExecute -- stopping, since WdsExitImmediate() was called
2014-05-28 09:17:28, Info       [0x090086] PANTHR pWorkerThreadFunc -- Stopping
2014-05-28 09:17:28, Info       [0x090086] PANTHR pWorkerThreadFunc -- Stopping
2014-05-28 09:17:28, Info       [0x090086] PANTHR pWorkerThreadFunc -- Stopping
2014-05-28 09:17:28, Info                  PANTHR DeleteCriticalSection for pExecQueue->csLock;
2014-05-28 09:17:28, Info       [0x0500bd] DU     Module_Term_DU called
2014-05-28 09:17:28, Info       [0x050081] DU     Done with DU. DUMgr is cleaning up...
2014-05-28 09:17:28, Info       [0x050082] DU     Cleanup completed
2014-05-28 09:17:28, Info       [0x0605a6] IBS    Requested UI to hide the language and locale selection pages.
2014-05-28 09:17:28, Info       [0x06010d] IBS    Module_Term_Productkey: Valid product key in blackboard, show property set to hide.
2014-05-28 09:17:28, Info                  UI     CallbackWin32UITerminate: Deleted WizardUI
2014-05-28 09:17:28, Info       [0x090081] PANTHR Destroying any unreferenced modules! (SEQ6)
2014-05-28 09:17:28, Info       [0x0601d7] IBS    InstallWindows:Error Type = 3211266
2014-05-28 09:17:28, Info       [0x090009] PANTHR CBlackboard::Close: c:\$windows.~bt\sources\panther\setupinfo.
setuperr
2014-05-28 07:56:56, Error      [0x08039d] MIG    Cannot add mapping for user profile C:\Users\Administrator. Error: 32: Win32Exception: The process cannot access the file because it is being used by another process. [0x00000020] __cdecl
Mig::CIndirectKeyMapper::CIndirectKeyMapper(class UnBCL::String *,struct HKEY__ *,class UnBCL::String *,class UnBCL::String *,int,int,const Mig::HiveLoadRetryOptions *)[gle=0x000000cb]
2014-05-28 07:56:56, Error      [0x080801] MIG    User profile loading error. Aborting due to external request.[gle=0x000000cb]
2014-05-28 07:56:56, Error                        MigStartupOnline caught exception: Win32Exception: User profile loading error. Aborting due to external request.: The specified user does not have
a valid profile. [0x000004E5] void __cdecl Mig::COnlineWinNTPlatform::ProcessUser(class Mig::CRegistryDataStore *,class Mig::CRegistryDataUnit *,class UnBCL::String *,class UnBCL::String *,int,int)
2014-05-28 07:56:56, Error                 MIG    pDoOnlineGather: Engine initialization failed with error: 0x00000004
2014-05-28 07:56:56, Error      [0x0800ad] MIG    Callback_GatherOldSys: Migration phase failed.
Kind regards, Andy CISSP, GCIA, GCIH, GPEN, GWAPT, CSTA, CSTP Blog.InfoSecMatters.net

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    Conversion failed when converting from a character string to uniqueidentifier., Class: 16, Number: 8169, State: 2    at
    System.Data.SqlClient.SqlConnection.OnError(SqlException exception, Boolean breakConnection, Action`1 wrapCloseInAction)
    (4) Error From source: SharePoint Server
    Application Server Administration job failed for service instance Microsoft.Office.Server.Search.Administration.SearchServiceInstance
    (b7c72eb8-cbaf-435e-b4c9-963cb6e4e745).
    Reason: The gatherer application could not be mounted because the search administration database schema version does not match the expected backwards compatibility schema version. The database might not have been upgraded.  
    Technical Support Details:
    System.Runtime.InteropServices.COMException (0xC0041235): The gatherer application could not be mounted because the search administration database schema version does not match the expected backwards compatibility schema version. The database might not have
    been upgraded.  
    Since separate DC server and SharePoint server do not work, I installed SharePoint 2013 on DC server ( so DC server has everything on it now ) but it gives exactly same result. Later I installed SharePoint 2013 SP1 and still have the same problem with Search
    Service app. I spent two weeks tried all suggestions available from Web and Google but SharePoint Search Service simply does not work. Config and other databases work but why Search Service has this issue seemingly related to search DB.
    Could anybody please help out? You deserve a top SharePoint consultant award if you could find a solution. I am so frustrated and so tired by this issue.    This seems also to be a SP set up issue.
    Thanks a lot.

    Using new Search Service App wizard to create SSA is always a success. I could delete existing SSA and recreate it and no problem. It says successful but when I open Search Admin page from CA, it gives me errors as mentioned.
    Now I used the following PS script for creating SSA from Max Mercher, but it stays at the last setps in following script:
    Add-PsSnapin Microsoft.SharePoint.PowerShell -ErrorAction SilentlyContinue
    $IndexLocation = "C:\Search"  #Location must be empty, will be deleted during the process!
    $SearchAppPoolName = "SSAPool"
    $SearchAppPoolAccountName = "mydomain\admin"
    $SearchServiceName = "SSA"
    $SearchServiceProxyName = "SSA Proxy"
    $DatabaseServer = "W12R2DC1"
    $DatabaseName = "SSA"
    $spAppPool = Get-SPServiceApplicationPool -Identity $SearchAppPoolName -ErrorAction SilentlyContinue
    if (!$spAppPool)
     $spAppPool = New-SPServiceApplicationPool -Name $SearchAppPoolName -Account $SearchAppPoolAccountName -Verbose
    $ServiceApplication = Get-SPEnterpriseSearchServiceApplication -Identity $SearchServiceName -ErrorAction SilentlyContinue
    if (!$ServiceApplication)
    # process stays at the following step forever, already one hour now.  
    $ServiceApplication = New-SPEnterpriseSearchServiceApplication -Name $SearchServiceName -ApplicationPool $spAppPool.Name -DatabaseServer  $DatabaseServer -DatabaseName $DatabaseName
    Account mydomain\admin is an farm managed account, domain admin account, in WG_ADMIN role, It is in all SQL server roles and is DBO. I see search DBs are already on SQL server. From Event viewer, I got following errors in sequence:
    (1) Crawler:Content Plugin under source Crawler:Content Plugin 
    Content Plugin can not be initialized - list of CSS addresses is not set.
    (2) Warning for SharePoint Server Search
    A database error occurred. Source: .Net SqlClient Data Provider Code: 8169 occurred 0 time(s) Description:  Error ordinal: 1 Message: Conversion failed when converting from a character string to uniqueidentifier., Class: 16, Number: 8169, State: 2   
    at System.Data.SqlClient.SqlConnection.OnError(SqlException exception, Boolean breakConnection, Action`1 wrapCloseInAction)
    (3) Error for SharePoint Server Search
    Could not access the Search database. A generic error occurred while trying to access the database to obtain the schema version info.
    Context: Application 'cbc5a055-996b-44a7-9cbc-404322f9cfdf'
    (4) Error for SharePoint Server
    Application Server Administration job failed for service instance Microsoft.Office.Server.Search.Administration.SearchServiceInstance (b7c72eb8-cbaf-435e-b4c9-963cb6e4e745).
    Reason: The gatherer application could not be mounted because the search administration database schema version does not match the expected backwards compatibility schema version. The database might not have been upgraded. 
    (5) Error Shared Services for SharePoint Server Search 
    Application Server Administration job failed for service instance Microsoft.Office.Server.Search.Administration.SearchServiceInstance (b7c72eb8-cbaf-435e-b4c9-963cb6e4e745).
    Reason: The object you are trying to create already exists. Try again using a different name. 
    Technical Support Details:
    System.Runtime.InteropServices.COMException (0x80040D02): The object you are trying to create already exists. Try again using a different name. 
       at Microsoft.Office.Server.Search.Administration.SearchServiceInstance.Synchronize()
       at Microsoft.Office.Server.Administration.ApplicationServerJob.ProvisionLocalSharedServiceInstances(Boolean isAdministrationServiceJob
    Above errors keep being generated. Last step for SSA creation stay there forever.  Any clue what is really going on?  Thanks.

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    I have about 20 users at my facility and recently upgraded our server from one running server 2003 to one running server 2012. Since that occurred, I have had numerous issues that I did not encounter on the old server.
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    I made this change to the registry on the server and am waiting to see if I have any more drops.
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    Steven Lee Please remember to mark the replies as answers if they help and unmark them if they provide no help. If you have feedback for TechNet Support, contact [email protected]

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