MacPro running slow

Hi
out of the blue my MacPro 2.66 dc starts crawling. Every mouse click gives me a spinning wheel. Permission repair estimates 15 hours. Any ideas? New apple update glitch in 10.7.5
Thanks

Back up all data immediately as your boot drive may be failing.
If you have more than one user account, these instructions must be carried out as an administrator.
Triple-click anywhere in the line below on this page to select it:
syslog -k Sender kernel -k Message CReq 'Chann|GPU D|I/O' | tail | open -ef
Copy the selected text to the Clipboard (command-C).
Launch the Terminal application in any of the following ways:
☞ Enter the first few letters of its name into a Spotlight search. Select it in the results (it should be at the top.)
☞ In the Finder, select Go ▹ Utilities from the menu bar, or press the key combination shift-command-U. The application is in the folder that opens.
☞ Open LaunchPad. Click Utilities, then Terminal in the icon grid.
Paste into the Terminal window (command-V).
The command may take a noticeable amount of time to run. Wait for a new line ending in a dollar sign (“$”) to appear.
A TextEdit window will open with the output of the command. Normally the window will be empty. If you get output like this:
kernel[0] <Debug>: disk0s2: I/O error
the boot drive is failing, or there's some other hardware fault in the storage subsystem.
If you get output like any of this:
kernel[0] <Debug>: ** GPU Debug Info Start **
kernel[0] <Debug>: ** GPU Debug Info End **
kernel[0] <Debug>: NVDA(Private): Channel timeout!
kernel[0] <Debug>: NVDA(OpenGL): Channel timeout!
there's a fault in the graphics processor or logic board. The two kinds of output are not mutually exclusive, but if you get both, a logic-board fault is likely.

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              1 GB RAM
    Video Information:
              NVIDIA GeForce 7300 GT - VRAM: 32768 MB
    System Software:
              Mac OS X 10.6.8 (10K549) - Uptime: 0 days 0:3:40
    Disk Information:
              WDC WD2500JS-41SGB0 disk0 : (232.89 GB)
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            13%    WindowServer
             5%    Safari
             4%    SpotifyWebHelper
             3%    NotificationCenter
    Top Processes by Memory: ℹ️
        318 MB    java
        163 MB    com.apple.WebKit.WebContent
        137 MB    mds_stores
        137 MB    Google Chrome
        129 MB    Mail
    Virtual Memory Information: ℹ️
        484 MB    Free RAM
        3.83 GB    Active RAM
        3.24 GB    Inactive RAM
        1.03 GB    Wired RAM
        2.45 GB    Page-ins
        213 KB    Page-outs
    Diagnostics Information: ℹ️
        Apr 14, 2015, 07:42:25 AM    Self test - passed
        Apr 13, 2015, 03:18:21 PM    /Library/Logs/DiagnosticReports/CleanMyMac 2_2015-04-13-151821_[redacted].cpu_resource.diag [Click for details]

    Hi
    Need some help, my MacBook Pro is running slow it takes like 10 - 13 minutes to start, most of the times when I'm going to type something, it doesn't matter which app do I use (Facebook, messages, search on google, it get stuck once in a while and the beach ball appears for a few seconds and then works again, or when I navigate between apps and tried to click on something it takes a while and beach ball comes up I just  reinstalled OS X Yosemite again and ran CleanMyMAc and got almost 2 gb deleted, but still the same problem, I use this computer for work on java apps. I ran the EtreCheck and this is the result. Any help on how to kill spotlight? or any suggestions??
    EtreCheck version: 2.1.8 (121)
    Report generated April 14, 2015 at 10:26:47 AM CST
    Download EtreCheck from http://etresoft.com/etrecheck
    Click the [Click for support] links for help with non-Apple products.
    Click the [Click for details] links for more information about that line.
    Hardware Information: ℹ️
        MacBook Pro (13-inch, Mid 2012) (Technical Specifications)
        MacBook Pro - model: MacBookPro9,2
        1 2.9 GHz Intel Core i7 CPU: 2-core
        8 GB RAM Upgradeable
            BANK 0/DIMM0
                4 GB DDR3 1600 MHz ok
            BANK 1/DIMM0
                4 GB DDR3 1600 MHz ok
        Bluetooth: Good - Handoff/Airdrop2 supported
        Wireless:  en1: 802.11 a/b/g/n
        Battery Health: Normal - Cycle count 52
    Video Information: ℹ️
        Intel HD Graphics 4000
            Color LCD 1280 x 800
    System Software: ℹ️
        OS X 10.10.3 (14D131) - Time since boot: 2:43:28
    Disk Information: ℹ️
        APPLE HDD TOSHIBA MK7559GSXF disk0 : (750.16 GB)
            EFI (disk0s1) <not mounted> : 210 MB
            Recovery HD (disk0s3) <not mounted>  [Recovery]: 650 MB
            Macintosh HD (disk1) / : 748.93 GB (725.60 GB free)
                Encrypted AES-XTS Unlocked Converting
                Core Storage: disk0s2 749.30 GB Online
        HL-DT-ST DVDRW  GS31N 
    USB Information: ℹ️
        Microsoft Microsoft Nano Transceiver 1.1
        Apple Inc. FaceTime HD Camera (Built-in)
        Apple Inc. Apple Internal Keyboard / Trackpad
        Apple Inc. BRCM20702 Hub
            Apple Inc. Bluetooth USB Host Controller
        Apple Computer, Inc. IR Receiver
    Thunderbolt Information: ℹ️
        Apple Inc. thunderbolt_bus
    Gatekeeper: ℹ️
        Anywhere
    Problem System Launch Daemons: ℹ️
        [failed]    com.apple.mtrecorder.plist
    Launch Agents: ℹ️
        [loaded]    com.oracle.java.Java-Updater.plist [Click for support]
    Launch Daemons: ℹ️
        [loaded]    com.adobe.fpsaud.plist [Click for support]
        [failed]    com.apple.spirecorder.plist
        [loaded]    com.macpaw.CleanMyMac2.Agent.plist [Click for support]
        [loaded]    com.macpaw.CleanMyMac3.Agent.plist [Click for support]
        [loaded]    com.oracle.java.Helper-Tool.plist [Click for support]
    User Launch Agents: ℹ️
        [loaded]    com.google.keystone.agent.plist [Click for support]
        [loaded]    com.macpaw.CleanMyMac2Helper.diskSpaceWatcher.plist [Click for support]
        [loaded]    com.macpaw.CleanMyMac2Helper.scheduledScan.plist [Click for support]
        [loaded]    com.macpaw.CleanMyMac2Helper.trashWatcher.plist [Click for support]
        [loaded]    com.macpaw.CleanMyMac3.Scheduler.plist [Click for support]
        [running]    com.spotify.webhelper.plist [Click for support]
    User Login Items: ℹ️
        iTunesHelper    Application  (/Applications/iTunes.app/Contents/MacOS/iTunesHelper.app)
        Spotify    Application Hidden (/Applications/Spotify.app)
    Internet Plug-ins: ℹ️
        FlashPlayer-10.6: Version: 17.0.0.134 - SDK 10.6 [Click for support]
        Flash Player: Version: 17.0.0.134 - SDK 10.6 Outdated! Update
        QuickTime Plugin: Version: 7.7.3
        JavaAppletPlugin: Version: Java 7 Update 75 Check version
        Default Browser: Version: 600 - SDK 10.10
    3rd Party Preference Panes: ℹ️
        Flash Player  [Click for support]
        Java  [Click for support]
    Time Machine: ℹ️
        Time Machine not configured!
    Top Processes by CPU: ℹ️
           136%    Spotlight
            13%    WindowServer
             5%    Safari
             4%    SpotifyWebHelper
             3%    NotificationCenter
    Top Processes by Memory: ℹ️
        318 MB    java
        163 MB    com.apple.WebKit.WebContent
        137 MB    mds_stores
        137 MB    Google Chrome
        129 MB    Mail
    Virtual Memory Information: ℹ️
        484 MB    Free RAM
        3.83 GB    Active RAM
        3.24 GB    Inactive RAM
        1.03 GB    Wired RAM
        2.45 GB    Page-ins
        213 KB    Page-outs
    Diagnostics Information: ℹ️
        Apr 14, 2015, 07:42:25 AM    Self test - passed
        Apr 13, 2015, 03:18:21 PM    /Library/Logs/DiagnosticReports/CleanMyMac 2_2015-04-13-151821_[redacted].cpu_resource.diag [Click for details]

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