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  • How can I superimpose modified loess lines on a ggplot2 qplot?

    - by briandk
    Background Right now, I'm creating a multiple-predictor linear model and generating diagnostic plots to assess regression assumptions. (It's for a multiple regression analysis stats class that I'm loving at the moment :-) My textbook (Cohen, Cohen, West, and Aiken 2003) recommends plotting each predictor against the residuals to make sure that: The residuals don't systematically covary with the predictor The residuals are homoscedastic with respect to each predictor in the model On point (2), my textbook has this to say: Some statistical packages allow the analyst to plot lowess fit lines at the mean of the residuals (0-line), 1 standard deviation above the mean, and 1 standard deviation below the mean of the residuals....In the present case {their example}, the two lines {mean + 1sd and mean - 1sd} remain roughly parallel to the lowess {0} line, consistent with the interpretation that the variance of the residuals does not change as a function of X. (p. 131) How can I modify loess lines? I know how to generate a scatterplot with a "0-line,": # First, I'll make a simple linear model and get its diagnostic stats library(ggplot2) data(cars) mod <- fortify(lm(speed ~ dist, data = cars)) attach(mod) str(mod) # Now I want to make sure the residuals are homoscedastic qplot (x = dist, y = .resid, data = mod) + geom_smooth(se = FALSE) # "se = FALSE" Removes the standard error bands But does anyone know how I can use ggplot2 and qplot to generate plots where the 0-line, "mean + 1sd" AND "mean - 1sd" lines would be superimposed? Is that a weird/complex question to be asking?

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  • Why it's can be compiled in GNU/C++, can't compiled in VC++2010 RTM?

    - by volnet
    #include #include #include #include "copy_of_auto_ptr.h" #ifdef _MSC_VER #pragma message("#include ") #include // http://gcc.gnu.org/onlinedocs/gcc/Diagnostic-Pragmas.html#Diagnostic-Pragmas #endif /* case 1-4 is the requirement of the auto_ptr. which form http://ptgmedia.pearsoncmg.com/images/020163371X/autoptrupdate/auto_ptr_update.html */ /* case 1. (1) Direct-initialization, same type, e.g. */ std::auto_ptr source_int() { // return std::auto_ptr(new int(3)); std::auto_ptr tmp(new int(3)); return tmp; } /* case 2. (2) Copy-initialization, same type, e.g. */ void sink_int(std::auto_ptr p) { std::cout source_derived() { // return std::auto_ptr(new Derived()); std::auto_ptr tmp(new Derived()); return tmp; } /* case 4. (4) Copy-initialization, base-from-derived, e.g. */ void sink_base( std::auto_ptr p) { p-go(); } int main(void) { /* // auto_ptr */ // case 1. // auto_ptr std::auto_ptr p_int(source_int()); std::cout p_derived(source_derived()); p_derived-go(); // case 4. // auto_ptr sink_base(source_derived()); return 0; } In Eclipse(GNU C++.exe -v gcc version 3.4.5 (mingw-vista special r3)) it's two compile error: Description Resource Path Location Type initializing argument 1 of void sink_base(std::auto_ptr<Base>)' from result ofstd::auto_ptr<_Tp::operator std::auto_ptr<_Tp1() [with _Tp1 = Base, _Tp = Derived]' auto_ptr_ref_research.cpp auto_ptr_ref_research/auto_ptr_ref_research 190 C/C++ Problem Description Resource Path Location Type no matching function for call to `std::auto_ptr::auto_ptr(std::auto_ptr)' auto_ptr_ref_research.cpp auto_ptr_ref_research/auto_ptr_ref_research 190 C/C++ Problem But it's right in VS2010 RTM. Questions: Which compiler stand for the ISO C++ standard? The content of case 4 is the problem "auto_ptr & auto_ptr_ref want to resolve?"

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  • Novell eDirectory—How can I aggregate account lockout events?

    - by bshacklett
    I'm seeing an account become locked out pretty frequently and I wanted to pull an aggregated log together of all of the lockout events so I could get a better idea of what times it's occurring. Normally I'd do this with EventCombMT.exe, but I'm in a Novell environment at the moment. Is there a Novell equivalent to Microsoft's ALTools or another diagnostic utility I could use to help aggregate lockout events into an easy to read log file?

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  • Email delivery error

    - by Tim
    I sent an email, but immediately got a reply saying: Final-Recipient: rfc822;[email protected] Action: failed Status: 5.0.0 (permanent failure) Diagnostic-Code: smtp; 5.1.2 - Bad destination host 'DNS Hard Error looking up smtpint.xxx.edu (MX): NXDomain' (delivery attempts: 0) I was wondering what this error report means, where in the delivery route the error happened, who should be contacted to solve this issue and how to solve it? Thanks and regards! I also appreciate if someone can explain a bit more about the mechanism behind the email delivery.

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  • Why does ical keep spinning on google?

    - by bmargulies
    I have connected to a google calendar in iCal (4.0.1). All was well until recently. For about a week, the google calendar shows the little rotating throbber constantly. Nothing stops it. No errors, no log that I can find out how to read. Any diagnostic suggestions?

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  • exchange user receive Undeliverable: form postmaster after every sended message

    - by Alexander Pavluchenko
    this happens after users mailbox moved from one exchange to other (in one organization, but differend domains) details: From: postmaster Sent: Saturday, April 03, 2010 8:43 AM To: USER1 Subject: Undeliverable: subject of message Delivery has failed to these recipients or distribution lists: IMCEAex-_O=DOMAIN_OU=First+20Administrative+20Group_cn=Recipients_cn=USER1@domain A problem occurred during the delivery of this message. Microsoft Exchange will not try to redeliver this message for you. Please try resending this message later, or provide the following diagnostic text to your system administrator.

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  • ComboBox item reader

    - by Homer
    I have an app that reads the contacts on my phone but I can't export them. I'd like to use another app to read the contents of the controls on the other app. Can someone recommend a good app for this or recommend another method? I know I saw something for this last year on lifehacker.com in a collection of diagnostic tools, but I can't find it now.

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  • Linux IO monitoring per file?

    - by MattK
    I am interested in a utility or process for monitoring disk IO per file on CentOS. On Win2008, the resmon utility allows this type of drilldown, but none of the Linux utilities I have found do this (iostat, iotop, dstat, nmon). My interest in monitoring IO bottlenecks on database servers. With MSSQL, I have found it an informative diagnostic to know which files / filespaces are getting hit the hardest.

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  • git post-receive hook never executes

    - by Zimno
    For some reason my post-received hook never executes. It's a simple two liner diagnostic script: echo "test" && touch /tmp/test. When I do git push origin master nothing happens. Does any-one know what am I doing wrong?

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  • how to broadcast a PXE server like Trinity Rescue Kit

    - by Larry G. Wapnitsky
    I would like to set up a portable PXE server for diagnostic purposes. The issue is that I won't always have access to the DHCP server, or the router itself (sometimes a home router) doesn't have an easily accessible place to set the servername/file for broadcast. I know that Trinity Rescue Kit is able to broadcast its PXE server without its own DHCP server. Can anyone point me in the direction to set this up on my own (without Trinity)? Thanks.

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  • Exchange 2010 email spoofing prevention

    - by holian
    Masters, Unfortunately we got some spam mail which seems to be coming from our own domain. I found some article which all says to remove Anonymous login from internet receive connector (http://exchangepedia.com/2008/09/how-to-prevent-annoying-spam-from-your-own-domain.html) I think i something misunderstood about those articles, because if i remove the Anonymous connection e-mails did not receive from external address (like gmail - Diagnostic-Code: SMTP; 530 5.7.1 Client was not authenticated) Some pictures about our configuration:

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  • "The connection to the server was reset while the page was loading"

    - by andygeers
    I've just taken over managing the network for a small charity, and am finding internet access very flaky - we keep getting "The connection to the server was reset while the page was loading." errors (HTTP Error 12031 according to the Windows network diagnostic tool). It doesn't seem to be anything to do with our ISP since it also affects internal traffic (even requests to an Apache instance on my localhost!) Adjusting the MTU setting in the Windows XP registry sometimes seems to help for a few minutes after rebooting, but the problem always returns.

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  • Power management on Android -- is app CPU correlated to power usage? [closed]

    - by foampile
    2 questions: Is application CPU usage on Android correlated and how highly to battery usage? In other words, are apps that suck a lot of CPU also draining the battery or not necessarily? Is there a way to itemize and display the phone's power use by application, at any given point in time as well as within defined time buckets and maybe view charts and such? Sort of like a diagnostic monitor for power usage by application or system component? Thanks

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  • Windows XP keeps bluescreening during install

    - by Fishcake
    As is typical I got roped in to re-installing Windows XP (because I'm a developer and so good with computers etc) on my mother-in-laws in PC. I thought it might be a memory problem but no errors are apparent using Microsoft memory diagnostic Any idea's what the problem might be? Windows was running before I formatted, albeit very badly.

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  • No WiFi networks - Fujitsu Lifebook on Windows 7

    - by Sergey Osypchuk
    I lost ability to see WiFi networks on my laptop. I already tryied: reinstall wifi driver reboot disable/enable from windows and from bios check for latest driver both by Windows and Fukitsu driver update When i Use windows Network Diagnostic, I am getting recomendation "Turn on Wireless capability". There is no switch or keyboard combination for this laptop model (or I do not know any one). Any ideas?

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  • Explorer is missing half tray icons in XP

    - by Ither
    Hi, lately and with no explanation half of the tray icons disappear every time I start up XP SP3. I use Process Explorer (procexp.exe) to look for the missing processes and they still there. When i kill and restart explorer.exe, the tray is complete again. I don't know how to diagnostic or repair the problem. Any suggestions? Thanks in advance.

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  • How can I detect hard drive failures?

    - by Francis
    I am in charge of a large number of Windows servers. Recently, many have been reporting hard drive errors with event codes 11 and 55. CHKDSK indicates that the drives are fine most of the time. What other diagnostic tools could I use to more accurately detect hard drive failures? Could these Windows events be false positives? I have already evaluated S.M.A.R.T., and it seems to have significant sensitivity and specificity issues.

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  • Don’t miss the Procurement Webcast for AME on October 30th, 2012

    - by user793553
    Procurement support is pleased to announce a new webcast covering the topic ‘Approval Management Engine (AME) Setup, Use and Troubleshooting’.  This one hour session will include the topics: · Basic Setup: Setup and how the default approval list is built in AME · Diagnostic Steps: Running the Test Workbench and accessing and review of Log Files, approval workflow and debug ·  Example of an AME setup to include defining attributes, conditions, action types and rules A short, live demonstration and question and answer period will be included. October 30, 2012 at 3:00 pm Cario / 1:00 pm London / 06:00 am Pacific / 7:00 am Mountain / 9:00 am Eastern From MyOracleSupport see Doc ID  1456150.1 for further details and sign up.

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  • Understanding G1 GC Logs

    - by poonam
    The purpose of this post is to explain the meaning of GC logs generated with some tracing and diagnostic options for G1 GC. We will take a look at the output generated with PrintGCDetails which is a product flag and provides the most detailed level of information. Along with that, we will also look at the output of two diagnostic flags that get enabled with -XX:+UnlockDiagnosticVMOptions option - G1PrintRegionLivenessInfo that prints the occupancy and the amount of space used by live objects in each region at the end of the marking cycle and G1PrintHeapRegions that provides detailed information on the heap regions being allocated and reclaimed. We will be looking at the logs generated with JDK 1.7.0_04 using these options. Option -XX:+PrintGCDetails Here's a sample log of G1 collection generated with PrintGCDetails. 0.522: [GC pause (young), 0.15877971 secs] [Parallel Time: 157.1 ms] [GC Worker Start (ms): 522.1 522.2 522.2 522.2 Avg: 522.2, Min: 522.1, Max: 522.2, Diff: 0.1] [Ext Root Scanning (ms): 1.6 1.5 1.6 1.9 Avg: 1.7, Min: 1.5, Max: 1.9, Diff: 0.4] [Update RS (ms): 38.7 38.8 50.6 37.3 Avg: 41.3, Min: 37.3, Max: 50.6, Diff: 13.3] [Processed Buffers : 2 2 3 2 Sum: 9, Avg: 2, Min: 2, Max: 3, Diff: 1] [Scan RS (ms): 9.9 9.7 0.0 9.7 Avg: 7.3, Min: 0.0, Max: 9.9, Diff: 9.9] [Object Copy (ms): 106.7 106.8 104.6 107.9 Avg: 106.5, Min: 104.6, Max: 107.9, Diff: 3.3] [Termination (ms): 0.0 0.0 0.0 0.0 Avg: 0.0, Min: 0.0, Max: 0.0, Diff: 0.0] [Termination Attempts : 1 4 4 6 Sum: 15, Avg: 3, Min: 1, Max: 6, Diff: 5] [GC Worker End (ms): 679.1 679.1 679.1 679.1 Avg: 679.1, Min: 679.1, Max: 679.1, Diff: 0.1] [GC Worker (ms): 156.9 157.0 156.9 156.9 Avg: 156.9, Min: 156.9, Max: 157.0, Diff: 0.1] [GC Worker Other (ms): 0.3 0.3 0.3 0.3 Avg: 0.3, Min: 0.3, Max: 0.3, Diff: 0.0] [Clear CT: 0.1 ms] [Other: 1.5 ms] [Choose CSet: 0.0 ms] [Ref Proc: 0.3 ms] [Ref Enq: 0.0 ms] [Free CSet: 0.3 ms] [Eden: 12M(12M)->0B(10M) Survivors: 0B->2048K Heap: 13M(64M)->9739K(64M)] [Times: user=0.59 sys=0.02, real=0.16 secs] This is the typical log of an Evacuation Pause (G1 collection) in which live objects are copied from one set of regions (young OR young+old) to another set. It is a stop-the-world activity and all the application threads are stopped at a safepoint during this time. This pause is made up of several sub-tasks indicated by the indentation in the log entries. Here's is the top most line that gets printed for the Evacuation Pause. 0.522: [GC pause (young), 0.15877971 secs] This is the highest level information telling us that it is an Evacuation Pause that started at 0.522 secs from the start of the process, in which all the regions being evacuated are Young i.e. Eden and Survivor regions. This collection took 0.15877971 secs to finish. Evacuation Pauses can be mixed as well. In which case the set of regions selected include all of the young regions as well as some old regions. 1.730: [GC pause (mixed), 0.32714353 secs] Let's take a look at all the sub-tasks performed in this Evacuation Pause. [Parallel Time: 157.1 ms] Parallel Time is the total elapsed time spent by all the parallel GC worker threads. The following lines correspond to the parallel tasks performed by these worker threads in this total parallel time, which in this case is 157.1 ms. [GC Worker Start (ms): 522.1 522.2 522.2 522.2Avg: 522.2, Min: 522.1, Max: 522.2, Diff: 0.1] The first line tells us the start time of each of the worker thread in milliseconds. The start times are ordered with respect to the worker thread ids – thread 0 started at 522.1ms and thread 1 started at 522.2ms from the start of the process. The second line tells the Avg, Min, Max and Diff of the start times of all of the worker threads. [Ext Root Scanning (ms): 1.6 1.5 1.6 1.9 Avg: 1.7, Min: 1.5, Max: 1.9, Diff: 0.4] This gives us the time spent by each worker thread scanning the roots (globals, registers, thread stacks and VM data structures). Here, thread 0 took 1.6ms to perform the root scanning task and thread 1 took 1.5 ms. The second line clearly shows the Avg, Min, Max and Diff of the times spent by all the worker threads. [Update RS (ms): 38.7 38.8 50.6 37.3 Avg: 41.3, Min: 37.3, Max: 50.6, Diff: 13.3] Update RS gives us the time each thread spent in updating the Remembered Sets. Remembered Sets are the data structures that keep track of the references that point into a heap region. Mutator threads keep changing the object graph and thus the references that point into a particular region. We keep track of these changes in buffers called Update Buffers. The Update RS sub-task processes the update buffers that were not able to be processed concurrently, and updates the corresponding remembered sets of all regions. [Processed Buffers : 2 2 3 2Sum: 9, Avg: 2, Min: 2, Max: 3, Diff: 1] This tells us the number of Update Buffers (mentioned above) processed by each worker thread. [Scan RS (ms): 9.9 9.7 0.0 9.7 Avg: 7.3, Min: 0.0, Max: 9.9, Diff: 9.9] These are the times each worker thread had spent in scanning the Remembered Sets. Remembered Set of a region contains cards that correspond to the references pointing into that region. This phase scans those cards looking for the references pointing into all the regions of the collection set. [Object Copy (ms): 106.7 106.8 104.6 107.9 Avg: 106.5, Min: 104.6, Max: 107.9, Diff: 3.3] These are the times spent by each worker thread copying live objects from the regions in the Collection Set to the other regions. [Termination (ms): 0.0 0.0 0.0 0.0 Avg: 0.0, Min: 0.0, Max: 0.0, Diff: 0.0] Termination time is the time spent by the worker thread offering to terminate. But before terminating, it checks the work queues of other threads and if there are still object references in other work queues, it tries to steal object references, and if it succeeds in stealing a reference, it processes that and offers to terminate again. [Termination Attempts : 1 4 4 6 Sum: 15, Avg: 3, Min: 1, Max: 6, Diff: 5] This gives the number of times each thread has offered to terminate. [GC Worker End (ms): 679.1 679.1 679.1 679.1 Avg: 679.1, Min: 679.1, Max: 679.1, Diff: 0.1] These are the times in milliseconds at which each worker thread stopped. [GC Worker (ms): 156.9 157.0 156.9 156.9 Avg: 156.9, Min: 156.9, Max: 157.0, Diff: 0.1] These are the total lifetimes of each worker thread. [GC Worker Other (ms): 0.3 0.3 0.3 0.3Avg: 0.3, Min: 0.3, Max: 0.3, Diff: 0.0] These are the times that each worker thread spent in performing some other tasks that we have not accounted above for the total Parallel Time. [Clear CT: 0.1 ms] This is the time spent in clearing the Card Table. This task is performed in serial mode. [Other: 1.5 ms] Time spent in the some other tasks listed below. The following sub-tasks (which individually may be parallelized) are performed serially. [Choose CSet: 0.0 ms] Time spent in selecting the regions for the Collection Set. [Ref Proc: 0.3 ms] Total time spent in processing Reference objects. [Ref Enq: 0.0 ms] Time spent in enqueuing references to the ReferenceQueues. [Free CSet: 0.3 ms] Time spent in freeing the collection set data structure. [Eden: 12M(12M)->0B(13M) Survivors: 0B->2048K Heap: 14M(64M)->9739K(64M)] This line gives the details on the heap size changes with the Evacuation Pause. This shows that Eden had the occupancy of 12M and its capacity was also 12M before the collection. After the collection, its occupancy got reduced to 0 since everything is evacuated/promoted from Eden during a collection, and its target size grew to 13M. The new Eden capacity of 13M is not reserved at this point. This value is the target size of the Eden. Regions are added to Eden as the demand is made and when the added regions reach to the target size, we start the next collection. Similarly, Survivors had the occupancy of 0 bytes and it grew to 2048K after the collection. The total heap occupancy and capacity was 14M and 64M receptively before the collection and it became 9739K and 64M after the collection. Apart from the evacuation pauses, G1 also performs concurrent-marking to build the live data information of regions. 1.416: [GC pause (young) (initial-mark), 0.62417980 secs] ….... 2.042: [GC concurrent-root-region-scan-start] 2.067: [GC concurrent-root-region-scan-end, 0.0251507] 2.068: [GC concurrent-mark-start] 3.198: [GC concurrent-mark-reset-for-overflow] 4.053: [GC concurrent-mark-end, 1.9849672 sec] 4.055: [GC remark 4.055: [GC ref-proc, 0.0000254 secs], 0.0030184 secs] [Times: user=0.00 sys=0.00, real=0.00 secs] 4.088: [GC cleanup 117M->106M(138M), 0.0015198 secs] [Times: user=0.00 sys=0.00, real=0.00 secs] 4.090: [GC concurrent-cleanup-start] 4.091: [GC concurrent-cleanup-end, 0.0002721] The first phase of a marking cycle is Initial Marking where all the objects directly reachable from the roots are marked and this phase is piggy-backed on a fully young Evacuation Pause. 2.042: [GC concurrent-root-region-scan-start] This marks the start of a concurrent phase that scans the set of root-regions which are directly reachable from the survivors of the initial marking phase. 2.067: [GC concurrent-root-region-scan-end, 0.0251507] End of the concurrent root region scan phase and it lasted for 0.0251507 seconds. 2.068: [GC concurrent-mark-start] Start of the concurrent marking at 2.068 secs from the start of the process. 3.198: [GC concurrent-mark-reset-for-overflow] This indicates that the global marking stack had became full and there was an overflow of the stack. Concurrent marking detected this overflow and had to reset the data structures to start the marking again. 4.053: [GC concurrent-mark-end, 1.9849672 sec] End of the concurrent marking phase and it lasted for 1.9849672 seconds. 4.055: [GC remark 4.055: [GC ref-proc, 0.0000254 secs], 0.0030184 secs] This corresponds to the remark phase which is a stop-the-world phase. It completes the left over marking work (SATB buffers processing) from the previous phase. In this case, this phase took 0.0030184 secs and out of which 0.0000254 secs were spent on Reference processing. 4.088: [GC cleanup 117M->106M(138M), 0.0015198 secs] Cleanup phase which is again a stop-the-world phase. It goes through the marking information of all the regions, computes the live data information of each region, resets the marking data structures and sorts the regions according to their gc-efficiency. In this example, the total heap size is 138M and after the live data counting it was found that the total live data size dropped down from 117M to 106M. 4.090: [GC concurrent-cleanup-start] This concurrent cleanup phase frees up the regions that were found to be empty (didn't contain any live data) during the previous stop-the-world phase. 4.091: [GC concurrent-cleanup-end, 0.0002721] Concurrent cleanup phase took 0.0002721 secs to free up the empty regions. Option -XX:G1PrintRegionLivenessInfo Now, let's look at the output generated with the flag G1PrintRegionLivenessInfo. This is a diagnostic option and gets enabled with -XX:+UnlockDiagnosticVMOptions. G1PrintRegionLivenessInfo prints the live data information of each region during the Cleanup phase of the concurrent-marking cycle. 26.896: [GC cleanup ### PHASE Post-Marking @ 26.896### HEAP committed: 0x02e00000-0x0fe00000 reserved: 0x02e00000-0x12e00000 region-size: 1048576 Cleanup phase of the concurrent-marking cycle started at 26.896 secs from the start of the process and this live data information is being printed after the marking phase. Committed G1 heap ranges from 0x02e00000 to 0x0fe00000 and the total G1 heap reserved by JVM is from 0x02e00000 to 0x12e00000. Each region in the G1 heap is of size 1048576 bytes. ### type address-range used prev-live next-live gc-eff### (bytes) (bytes) (bytes) (bytes/ms) This is the header of the output that tells us about the type of the region, address-range of the region, used space in the region, live bytes in the region with respect to the previous marking cycle, live bytes in the region with respect to the current marking cycle and the GC efficiency of that region. ### FREE 0x02e00000-0x02f00000 0 0 0 0.0 This is a Free region. ### OLD 0x02f00000-0x03000000 1048576 1038592 1038592 0.0 Old region with address-range from 0x02f00000 to 0x03000000. Total used space in the region is 1048576 bytes, live bytes as per the previous marking cycle are 1038592 and live bytes with respect to the current marking cycle are also 1038592. The GC efficiency has been computed as 0. ### EDEN 0x03400000-0x03500000 20992 20992 20992 0.0 This is an Eden region. ### HUMS 0x0ae00000-0x0af00000 1048576 1048576 1048576 0.0### HUMC 0x0af00000-0x0b000000 1048576 1048576 1048576 0.0### HUMC 0x0b000000-0x0b100000 1048576 1048576 1048576 0.0### HUMC 0x0b100000-0x0b200000 1048576 1048576 1048576 0.0### HUMC 0x0b200000-0x0b300000 1048576 1048576 1048576 0.0### HUMC 0x0b300000-0x0b400000 1048576 1048576 1048576 0.0### HUMC 0x0b400000-0x0b500000 1001480 1001480 1001480 0.0 These are the continuous set of regions called Humongous regions for storing a large object. HUMS (Humongous starts) marks the start of the set of humongous regions and HUMC (Humongous continues) tags the subsequent regions of the humongous regions set. ### SURV 0x09300000-0x09400000 16384 16384 16384 0.0 This is a Survivor region. ### SUMMARY capacity: 208.00 MB used: 150.16 MB / 72.19 % prev-live: 149.78 MB / 72.01 % next-live: 142.82 MB / 68.66 % At the end, a summary is printed listing the capacity, the used space and the change in the liveness after the completion of concurrent marking. In this case, G1 heap capacity is 208MB, total used space is 150.16MB which is 72.19% of the total heap size, live data in the previous marking was 149.78MB which was 72.01% of the total heap size and the live data as per the current marking is 142.82MB which is 68.66% of the total heap size. Option -XX:+G1PrintHeapRegions G1PrintHeapRegions option logs the regions related events when regions are committed, allocated into or are reclaimed. COMMIT/UNCOMMIT events G1HR COMMIT [0x6e900000,0x6ea00000]G1HR COMMIT [0x6ea00000,0x6eb00000] Here, the heap is being initialized or expanded and the region (with bottom: 0x6eb00000 and end: 0x6ec00000) is being freshly committed. COMMIT events are always generated in order i.e. the next COMMIT event will always be for the uncommitted region with the lowest address. G1HR UNCOMMIT [0x72700000,0x72800000]G1HR UNCOMMIT [0x72600000,0x72700000] Opposite to COMMIT. The heap got shrunk at the end of a Full GC and the regions are being uncommitted. Like COMMIT, UNCOMMIT events are also generated in order i.e. the next UNCOMMIT event will always be for the committed region with the highest address. GC Cycle events G1HR #StartGC 7G1HR CSET 0x6e900000G1HR REUSE 0x70500000G1HR ALLOC(Old) 0x6f800000G1HR RETIRE 0x6f800000 0x6f821b20G1HR #EndGC 7 This shows start and end of an Evacuation pause. This event is followed by a GC counter tracking both evacuation pauses and Full GCs. Here, this is the 7th GC since the start of the process. G1HR #StartFullGC 17G1HR UNCOMMIT [0x6ed00000,0x6ee00000]G1HR POST-COMPACTION(Old) 0x6e800000 0x6e854f58G1HR #EndFullGC 17 Shows start and end of a Full GC. This event is also followed by the same GC counter as above. This is the 17th GC since the start of the process. ALLOC events G1HR ALLOC(Eden) 0x6e800000 The region with bottom 0x6e800000 just started being used for allocation. In this case it is an Eden region and allocated into by a mutator thread. G1HR ALLOC(StartsH) 0x6ec00000 0x6ed00000G1HR ALLOC(ContinuesH) 0x6ed00000 0x6e000000 Regions being used for the allocation of Humongous object. The object spans over two regions. G1HR ALLOC(SingleH) 0x6f900000 0x6f9eb010 Single region being used for the allocation of Humongous object. G1HR COMMIT [0x6ee00000,0x6ef00000]G1HR COMMIT [0x6ef00000,0x6f000000]G1HR COMMIT [0x6f000000,0x6f100000]G1HR COMMIT [0x6f100000,0x6f200000]G1HR ALLOC(StartsH) 0x6ee00000 0x6ef00000G1HR ALLOC(ContinuesH) 0x6ef00000 0x6f000000G1HR ALLOC(ContinuesH) 0x6f000000 0x6f100000G1HR ALLOC(ContinuesH) 0x6f100000 0x6f102010 Here, Humongous object allocation request could not be satisfied by the free committed regions that existed in the heap, so the heap needed to be expanded. Thus new regions are committed and then allocated into for the Humongous object. G1HR ALLOC(Old) 0x6f800000 Old region started being used for allocation during GC. G1HR ALLOC(Survivor) 0x6fa00000 Region being used for copying old objects into during a GC. Note that Eden and Humongous ALLOC events are generated outside the GC boundaries and Old and Survivor ALLOC events are generated inside the GC boundaries. Other Events G1HR RETIRE 0x6e800000 0x6e87bd98 Retire and stop using the region having bottom 0x6e800000 and top 0x6e87bd98 for allocation. Note that most regions are full when they are retired and we omit those events to reduce the output volume. A region is retired when another region of the same type is allocated or we reach the start or end of a GC(depending on the region). So for Eden regions: For example: 1. ALLOC(Eden) Foo2. ALLOC(Eden) Bar3. StartGC At point 2, Foo has just been retired and it was full. At point 3, Bar was retired and it was full. If they were not full when they were retired, we will have a RETIRE event: 1. ALLOC(Eden) Foo2. RETIRE Foo top3. ALLOC(Eden) Bar4. StartGC G1HR CSET 0x6e900000 Region (bottom: 0x6e900000) is selected for the Collection Set. The region might have been selected for the collection set earlier (i.e. when it was allocated). However, we generate the CSET events for all regions in the CSet at the start of a GC to make sure there's no confusion about which regions are part of the CSet. G1HR POST-COMPACTION(Old) 0x6e800000 0x6e839858 POST-COMPACTION event is generated for each non-empty region in the heap after a full compaction. A full compaction moves objects around, so we don't know what the resulting shape of the heap is (which regions were written to, which were emptied, etc.). To deal with this, we generate a POST-COMPACTION event for each non-empty region with its type (old/humongous) and the heap boundaries. At this point we should only have Old and Humongous regions, as we have collapsed the young generation, so we should not have eden and survivors. POST-COMPACTION events are generated within the Full GC boundary. G1HR CLEANUP 0x6f400000G1HR CLEANUP 0x6f300000G1HR CLEANUP 0x6f200000 These regions were found empty after remark phase of Concurrent Marking and are reclaimed shortly afterwards. G1HR #StartGC 5G1HR CSET 0x6f400000G1HR CSET 0x6e900000G1HR REUSE 0x6f800000 At the end of a GC we retire the old region we are allocating into. Given that its not full, we will carry on allocating into it during the next GC. This is what REUSE means. In the above case 0x6f800000 should have been the last region with an ALLOC(Old) event during the previous GC and should have been retired before the end of the previous GC. G1HR ALLOC-FORCE(Eden) 0x6f800000 A specialization of ALLOC which indicates that we have reached the max desired number of the particular region type (in this case: Eden), but we decided to allocate one more. Currently it's only used for Eden regions when we extend the young generation because we cannot do a GC as the GC-Locker is active. G1HR EVAC-FAILURE 0x6f800000 During a GC, we have failed to evacuate an object from the given region as the heap is full and there is no space left to copy the object. This event is generated within GC boundaries and exactly once for each region from which we failed to evacuate objects. When Heap Regions are reclaimed ? It is also worth mentioning when the heap regions in the G1 heap are reclaimed. All regions that are in the CSet (the ones that appear in CSET events) are reclaimed at the end of a GC. The exception to that are regions with EVAC-FAILURE events. All regions with CLEANUP events are reclaimed. After a Full GC some regions get reclaimed (the ones from which we moved the objects out). But that is not shown explicitly, instead the non-empty regions that are left in the heap are printed out with the POST-COMPACTION events.

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  • What I&rsquo;m Up To: November 2012

    - by Brian T. Jackett
    This is a short personal post to let any regular readers know what I’m up to (and why I’ll be in reduced blogging mode for a bit). Writing 2 chapters for a SharePoint 2013 book (more to announce closer to publish date) Doing research, proof of concepts, and testing for above said writing Developing a SharePoint PowerShell diagnostic script to clean up issues found by the Health Analyzer Prepping for teaching SharePoint 2013 content to customers    There are some other community and personal commitments taking up my time (in addition to normal work responsibilities).  Since the number of hours in a day is limited to 24 hours I’m making a late addition to my goals for 2012 for the year of learning and adopting more personal productivity practices.  Before the end of this year I’ll be posting a couple that I’ve already adopted that are working well for me.  Scott Hanselman posted a great video recently that sparked me down this path.  I highly recommend you watch.   “It’s not what you read it’s what you ignore” video – Scott Hanselman http://www.hanselman.com/blog/ItsNotWhatYouReadItsWhatYouIgnoreVideoOfScottHanselmansPersonalProductivityTips.aspx         -Frog Out

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  • How to Use RDA to Generate WLS Thread Dumps At Specified Intervals?

    - by Daniel Mortimer
    Introduction There are many ways to generate a thread dump of a WebLogic Managed Server. For example, take a look at: Taking Thread Dumps - [an excellent blog post on the Middleware Magic site]or  Different ways to take thread dumps in WebLogic Server (Document 1098691.1) There is another method - use Remote Diagnostic Agent! The solution described below is not documented, but it is relatively straightforward to execute. One advantage of using RDA to collect the thread dumps is RDA will also collect configuration, log files, network, system, performance information at the same time. Instructions 1. Not familiar with Remote Diagnostic Agent? Take a look at my previous blog "Resolve SRs Faster Using RDA - Find the Right Profile" 2. Choose a profile, which includes the WebLogic Server data collection modules (for example the profile "WebLogicServer"). At RDA setup time you should see the prompt below: ------------------------------------------------------------------------------- S301WLS: Collects Oracle WebLogic Server Information ------------------------------------------------------------------------------- Enter the location of the directory where the domains to analyze are located (For example in UNIX, <BEA Home>/user_projects/domains or <Middleware Home>/user_projects/domains) Hit 'Return' to accept the default (/oracle/11AS/Middleware/user_projects/domains) > For a successful WLS connection, ensure that the domain Admin Server is up and running. Data Collection Type:   1  Collect for a single server (offline mode)   2  Collect for a single server (using WLS connection)   3  Collect for multiple servers (using WLS connection) Enter the item number Hit 'Return' to accept the default (1) > 2 Choose option 2 or 3. Note: Collect for a single server or multiple servers using WLS connection means that RDA will attempt to connect to execute online WLST commands against the targeted server(s). The thread dumps are collected using the WLST function - "threadDumps()". If WLST cannot connect to the managed server, RDA will proceed to collect other data and ignore the request to collect thread dumps. If in the final output you see no Thread Dump menu item, then it's likely that the managed server is in a state which prevents new connections to it. If faced with this scenario, you would have to employ alternative methods for collecting thread dumps. 3. The RDA setup will create a setup.cfg file in the RDA_HOME directory. Open this file in an editor. You will find the following parameters which govern the number of thread dumps and thread dump interval. #N.Number of thread dumps to capture WREQ_THREAD_DUMP=10 #N.Thread dump interval WREQ_THREAD_DUMP_INTERVAL=5000 The example lines above show the default settings. In other words, RDA will collect 10 thread dumps at 5000 millisecond (5 second) intervals. You may want to change this to something like: #N.Number of thread dumps to capture WREQ_THREAD_DUMP=10 #N.Thread dump interval WREQ_THREAD_DUMP_INTERVAL=30000 However, bear in mind, that such change will increase the total amount of time it takes for RDA to complete its run. 4. Once you are happy with the setup.cfg, run RDA. RDA will collect, render, generate and package all files in the output directory. 5. For ease of viewing, open up the RDA Start html file - "xxxx__start.htm". The thread dumps can be found under the WLST Collections for the target managed server(s). See screenshots belowScreenshot 1:RDA Start Page - Main Index Screenshot 2: Managed Server Sub Index Screenshot 3: WLST Collections Screenshot 4: Thread Dump Page - List of dump file links Screenshot 5: Thread Dump Dat File Link Additional Comment: A) You can view the thread dump files within the RDA Start Page framework, but most likely you will want to download the dat files for in-depth analysis via thread dump analysis tools such as: Thread Dump Analyzer -  Samurai - a GUI based tail , thread dump analysis tool If you are new to thread dump analysis - take a look at this recorded Support Advisor Webcast  Oracle WebLogic Server: Diagnosing Performance Issues through Java Thread Dumps[Slidedeck from webcast in PDF format]B) I have logged a couple of enhancement requests for the RDA Development Team to consider: Add timestamp to dump file links, dat filename and at the top of the body of the dat file Package the individual thread dumps in a zip so all dump files can be conveniently downloaded in one go.

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  • Oracle ACEs / ACE Directors in the OTN Lounge - JavaOne Latin America 2012

    - by Bob Rhubart
    What's an Oracle ACE? Oracle ACEs and Oracle ACE Directors are community members who have demonstrated both community leadership and expertise with Oracle technologies. You'll get a chance to interact with several Oracle ACEs and Oracle ACE Directors in the mini theater in the OTN Lounge this week during JavaOne Latin America 2012 in São Paulo, Brazil. Tuesday, 4 December 2012 Presentation Presenter Presenter title and company 4:30 – 4:50 Co-existence between Applications' Unlimited and Fusion Applications Gustavo Gonzales, Oracle ACE Director CTO, IT Convergence 4:50 – 5:10 Pipeline Table Functions Marcelo Ochoa, Oracle ACE CTO, Scotas.com 5:10 - 5:30 Automatic Diagnostic Repository (ADR) Day-to-Day Rodrigo Almeida, Oracle ACE CDS - Condomínio de Soluções Corporativas Wednesday, 5 December 2012 Presentation Presenter Presenter title and company 4:30 – 4:50 TBA 4:50 – 5:10 Oracle VM Template - Facilitating the Construction Environment. David Siqueira, Oracle ACE CDS Condominio de Soluções 5:10 – 5:30 Database Migration with Minimal Downtime Marcus Vinicius Miguel Pedro, Oracle ACE Discover

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  • The August '14 Oracle Linux Newsletter is Now Available

    - by Chris Kawalek
    The August 2014 edition of the Oracle Linux Newsletter is now available! Chock full of fantastic information, it's your one-stop-shop for catching up on all things Oracle Linux. In this edition: Oracle Linux 7 Now Available Oracle Linux and Oracle Virtualization at Oracle OpenWorld 2014 Technology Preview of OpenStack Icehouse with Oracle Linux and Oracle VM Now Available Using Ksplice as a Diagnostic Tool with Oracle Support Hands-on Lab: How to Migrate from VMware and Red Hat to Oracle Linux and Oracle VM Emirates Nuclear Energy Corporation Boosts Performance—Is Set to Cut Technology Ownership Costs by US$500,000 in Five Years And much more! You can read the latest edition online right now or sign up to get it automatically delivered to your inbox. 

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