Index in Berkeley DB XML - Problems with time

I have some querys that not show a better time after have been indexed.
I saw that this query that show problems with index realize : ordering , substring and empty values or tag.
This query was extracted from benchmark xbench x toxgene
I will post the queryPlan and results before and after add index.
computer configuration : pentim RAM : 2Gb HD : 160
Results
Query 1
dbxml> query 'for $a in collection("container_db_xbench_250Mb.dbxml")/article w
here every $b in $a/body/abstract/p satisfies contains($b, "hockey") return $a
/prolog/title'
Query - Starting query execution
Query - container_db_xbench_250Mb.dbxml - U : [405] 2 3 4 5 6 7 8 9 10 11 1
2 13 14 15 16 17 18 19 20 21 ...
Query - Finished query execution, time taken = 168.522ms
102 objects returned for eager expression 'for $a in collection("container_db_xb
ench_250Mb.dbxml")/article where every $b in $a/body/abstract/p satisfies cont
ains($b, "hockey") return $a/prolog/title'
dbxml> queryPlan 'for $a in collection("container_db_xbench_250Mb.dbxml")/articl
e
where every $b in $a/body/abstract/p satisfies contains($b, "hockey")
return $a/prolog/title'
<XQuery>
<FLWOR>
<ForBinding name="a">
<Navigation>
<QueryPlanFunction result="collection" container="container_db_xbench_25
0Mb.dbxml">
<OQPlan>U</OQPlan>
</QueryPlanFunction>
<Step axis="child" name="article" nodeType="element"/>
</Navigation>
<Where>
<EveryFLWOR>
<ForBinding name="b">
<Navigation>
<Variable name="a"/>
<Step axis="child" name="body" nodeType="element"/>
<Step axis="child" name="abstract" nodeType="element"/>
<Step axis="child" name="p" nodeType="element"/>
</Navigation>
</ForBinding>
<Navigation>
<Variable name="b"/>
<DbXmlContains>
<Sequence>
<AnyAtomicTypeConstructor value="hockey" typeuri="http://www.w3.
org/2001/XMLSchema" typename="string"/>
</Sequence>
</DbXmlContains>
</Navigation>
</EveryFLWOR>
</Where>
</ForBinding>
<Navigation>
<Variable name="a"/>
<Step axis="child" name="prolog" nodeType="element"/>
<Step axis="child" name="title" nodeType="element">
<OQPlan>P(node-element-equality-string,prefix,title)</OQPlan>
</Step>
</Navigation>
</FLWOR>
</XQuery>
dbxml>
dbxml> query 'for $a in collection("container_db_xbench_250Mb.dbxml")/article w
here every $b in $a/body/abstract/p satisfies contains($b, "hockey") return $a
/prolog/title'
Query - Starting query execution
Query - container_db_xbench_250Mb.dbxml - U : [405] 2 3 4 5 6 7 8 9 10 11 1
2 13 14 15 16 17 18 19 20 21 ...
Query - container_db_xbench_250Mb.dbxml - P(title) : [405] 2(0x04020204) 3(
0x04020204) 4(0x04020204) 5(0x04020204) 6(0x04020204) 7(0x04020204) 8(0x04020204
) 9(0x04020204) 10(0x04020204) 11(0x04020204) ...
Query - Finished query execution, time taken = 710.093ms
102 objects returned for eager expression 'for $a in collection("container_db_xb
ench_250Mb.dbxml")/article where every $b in $a/body/abstract/p satisfies cont
ains($b, "hockey") return $a/prolog/title'
Query 2
dbxml> query 'for $a in collection("container_db_xbench_250Mb.dbxml")/article/pr
olog order by $a/dateline/country return <Output> {$a/title} {$a/dateline/
country} </Output>'
Query - Starting query execution
Query - container_db_xbench_250Mb.dbxml - U : [405] 2 3 4 5 6 7 8 9 10 11 1
2 13 14 15 16 17 18 19 20 21 ...
Query - Finished query execution, time taken = 248.939ms
405 objects returned for eager expression 'for $a in collection("container_db_xb
ench_250Mb.dbxml")/article/prolog order by $a/dateline/country return <Outpu
t> {$a/title} {$a/dateline/country} </Output>'
dbxml> queryPlan 'for $a in collection("container_db_xbench_250Mb.dbxml")/articl
e/prolog order by $a/dateline/country return <Output> {$a/title} {$a/datel
ine/country} </Output>'
<XQuery>
<FLWOR>
<ForBinding name="a">
<Navigation>
<QueryPlanFunction result="collection" container="container_db_xbench_25
0Mb.dbxml">
<OQPlan>U</OQPlan>
</QueryPlanFunction>
<Step axis="child" name="article" nodeType="element"/>
<Step axis="child" name="prolog" nodeType="element"/>
</Navigation>
</ForBinding>
<Sort>
<Specification modifier="ascending|empty_least">
<Navigation>
<Variable name="a"/>
<Step axis="child" name="dateline" nodeType="element"/>
<Step axis="child" name="country" nodeType="element">
<OQPlan>P(node-element-equality-string,prefix,country)</OQPlan>
</Step>
</Navigation>
</Specification>
</Sort>
<DOMConstructor type="element">
<Name>
<Sequence>
<AnyAtomicTypeConstructor value="Output" typeuri="http://www.w3.org/20
01/XMLSchema" typename="string"/>
</Sequence>
</Name>
<Children>
<Navigation>
<Variable name="a"/>
<Step axis="child" name="title" nodeType="element"/>
</Navigation>
<Navigation>
<Variable name="a"/>
<Step axis="child" name="dateline" nodeType="element"/>
<Step axis="child" name="country" nodeType="element">
<OQPlan>P(node-element-equality-string,prefix,country)</OQPlan>
</Step>
</Navigation>
</Children>
</DOMConstructor>
</FLWOR>
</XQuery>
dbxml>
Query - container_db_xbench_250Mb.dbxml - P(country) : NONE
Query - container_db_xbench_250Mb.dbxml - P(country) : NONE
Query - Finished query execution, time taken = 1573.17ms
405 objects returned for eager expression 'for $a in collection("container_db_xb
ench_250Mb.dbxml")/article/prolog order by $a/dateline/country return <Outpu
t> {$a/title} {$a/dateline/country} </Output>'
Query 3
dbxml> query 'for $a in collection("container_db_xbench_250Mb.dbxml")/article/pr
olog where empty ($a/genre) return <NoGenre> {$a/title} </N
oGenre>'
Query - Starting query execution
Query - container_db_xbench_250Mb.dbxml - U : [405] 2 3 4 5 6 7 8 9 10 11 1
2 13 14 15 16 17 18 19 20 21 ...
Query - Finished query execution, time taken = 207.782ms
170 objects returned for eager expression 'for $a in collection("container_db_xb
ench_250Mb.dbxml")/article/prolog where empty ($a/genre) return <NoGenre>
{$a/title} </NoGenre>'
dbxml> queryPlan 'for $a in collection("container_db_xbench_250Mb.dbxml")/articl
e/prolog where empty ($a/genre) return <NoGenre> {$a/title}
</NoGenre>'
<XQuery>
<FLWOR>
<ForBinding name="a">
<Navigation>
<QueryPlanFunction result="collection" container="container_db_xbench_25
0Mb.dbxml">
<OQPlan>U</OQPlan>
</QueryPlanFunction>
<Step axis="child" name="article" nodeType="element"/>
<Step axis="child" name="prolog" nodeType="element"/>
</Navigation>
<Where>
<Function name="{http://www.w3.org/2005/04/xpath-functions}:empty">
<Navigation>
<Variable name="a"/>
<Step axis="child" name="genre" nodeType="element">
<OQPlan>P(node-element-presence-none,=,genre)</OQPlan>
</Step>
</Navigation>
</Function>
</Where>
</ForBinding>
<DOMConstructor type="element">
<Name>
<Sequence>
<AnyAtomicTypeConstructor value="NoGenre" typeuri="http://www.w3.org/2
001/XMLSchema" typename="string"/>
</Sequence>
</Name>
<Children>
<Navigation>
<Variable name="a"/>
<Step axis="child" name="title" nodeType="element"/>
</Navigation>
</Children>
</DOMConstructor>
</FLWOR>
</XQuery>
dbxml>
0x0402025E) 9(0x040202D0) 10(0x0402023F) 11(0x0402020F) 14(0x0402020F) 15(0x0402
0253) 17(0x0402025E) 20(0x040202EE) 23(0x040202C0) ...
Query - container_db_xbench_250Mb.dbxml - P(genre) : [235] 4(0x0402024G) 5(
0x0402025E) 9(0x040202D0) 10(0x0402023F) 11(0x0402020F) 14(0x0402020F) 15(0x0402
0253) 17(0x0402025E) 20(0x040202EE) 23(0x040202C0) ...
Query - Finished query execution, time taken = 2362.08ms
170 objects returned for eager expression 'for $a in collection("container_db_xb
ench_250Mb.dbxml")/article/prolog where empty ($a/genre) return <NoGenre>
{$a/title} </NoGenre>'
Query 4
dbxml> query 'for $a in collection("container_db_xbench_250Mb.dbxml")/article/pr
olog/authors/author where empty($a/contact/text()) return <NoContact> {
$a/name} </NoContact>'
Query - Starting query execution
Query - container_db_xbench_250Mb.dbxml - U : [405] 2 3 4 5 6 7 8 9 10 11 1
2 13 14 15 16 17 18 19 20 21 ...
Query - Finished query execution, time taken = 680.503ms
212 objects returned for eager expression 'for $a in collection("container_db_xb
ench_250Mb.dbxml")/article/prolog/authors/author where empty($a/contact/text())
return <NoContact> {$a/name} </NoContact>'
dbxml> queryPlan 'for $a in collection("container_db_xbench_250Mb.dbxml")/articl
e/prolog/authors/author where empty($a/contact/text()) return <NoContact>
{$a/name} </NoContact>'
<XQuery>
<FLWOR>
<ForBinding name="a">
<Navigation>
<QueryPlanFunction result="collection" container="container_db_xbench_25
0Mb.dbxml">
<OQPlan>U</OQPlan>
</QueryPlanFunction>
<Step axis="child" name="article" nodeType="element"/>
<Step axis="child" name="prolog" nodeType="element"/>
<Step axis="child" name="authors" nodeType="element"/>
<Step axis="child" name="author" nodeType="element"/>
</Navigation>
<Where>
<Function name="{http://www.w3.org/2005/04/xpath-functions}:empty">
<Navigation>
<Variable name="a"/>
<Step axis="child" name="contact" nodeType="element">
<OQPlan>P(node-element-presence-none,=,contact)</OQPlan>
</Step>
<Step axis="child">
<ItemType testType="text"/>
</Step>
</Navigation>
</Function>
</Where>
</ForBinding>
<DOMConstructor type="element">
<Name>
<Sequence>
<AnyAtomicTypeConstructor value="NoContact" typeuri="http://www.w3.org
/2001/XMLSchema" typename="string"/>
</Sequence>
</Name>
<Children>
<Navigation>
<Variable name="a"/>
<Step axis="child" name="name" nodeType="element">
<OQPlan>P(node-element-equality-string,prefix,name)</OQPlan>
</Step>
</Navigation>
</Children>
</DOMConstructor>
</FLWOR>
</XQuery>
2(0x0402020E) 2(0x04020212) 2(0x04020216) 2(0x0402021B) 2(0x0402021F) 2(0x04020
223) 2(0x04020227) 2(0x0402022C) 2(0x0402022G) ...
Query - Finished query execution, time taken = 48724.8ms
212 objects returned for eager expression 'for $a in collection("container_db_xb
ench_250Mb.dbxml")/article/prolog/authors/author where empty($a/contact/text())
return <NoContact> {$a/name} </NoContact>'
Query 5
dbxml> query 'for $a in collection("container_db_xbench_250Mb.dbxml")/article w
here contains ($a//p, "the hockey") return <Output> {$a/prolog/ti
tle} {$a/body/abstract} </Output>'
Query - Starting query execution
Query - container_db_xbench_250Mb.dbxml - U : [405] 2 3 4 5 6 7 8 9 10 11 1
2 13 14 15 16 17 18 19 20 21 ...
Query - Finished query execution, time taken = 3605.86ms
383 objects returned for eager expression 'for $a in collection("container_db_xb
ench_250Mb.dbxml")/article where contains ($a//p, "the hockey") return <O
utput> {$a/prolog/title} {$a/body/abstract} </Output>'
dbxml> queryPlan 'for $a in collection("container_db_xbench_250Mb.dbxml")/articl
e where contains ($a//p, "the hockey") return <Output> {$a/prolo
g/title} {$a/body/abstract} </Output>'
<XQuery>
<FLWOR>
<ForBinding name="a">
<Navigation>
<QueryPlanFunction result="collection" container="container_db_xbench_25
0Mb.dbxml">
<OQPlan>U</OQPlan>
</QueryPlanFunction>
<Step axis="child" name="article" nodeType="element"/>
<DbXmlFilter>
<Navigation>
<Step axis="descendant" name="p" nodeType="element"/>
<DbXmlContains>
<Sequence>
<AnyAtomicTypeConstructor value="the hockey" typeuri="http://www
.w3.org/2001/XMLSchema" typename="string"/>
</Sequence>
</DbXmlContains>
</Navigation>
</DbXmlFilter>
</Navigation>
</ForBinding>
<DOMConstructor type="element">
<Name>
<Sequence>
<AnyAtomicTypeConstructor value="Output" typeuri="http://www.w3.org/20
01/XMLSchema" typename="string"/>
</Sequence>
</Name>
<Children>
<Navigation>
<Variable name="a"/>
<Step axis="child" name="prolog" nodeType="element"/>
<Step axis="child" name="title" nodeType="element">
<OQPlan>P(node-element-equality-string,prefix,title)</OQPlan>
</Step>
</Navigation>
<Navigation>
<Variable name="a"/>
<Step axis="child" name="body" nodeType="element"/>
<Step axis="child" name="abstract" nodeType="element"/>
</Navigation>
</Children>
</DOMConstructor>
</FLWOR>
</XQuery>
dbxml>
time taken = 6038.12ms

Hi Miriam,
What storage model are you using, and are you using DBXML_INDEX_NODES? What indexes did you try to add to make these queries faster?
John

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  • I am having problems with Time Machine and having enough space to finish my last back up.

    I am having problems with Time Machine and having enough space to finish my last back up.

    Take a look at this link, http://support.apple.com/kb/HT1427

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    The TimerEvent target is a flash.utils.Timer object and does
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  • Berkeley DB XML crash with multiple readers (dbxml-2.5.16 and db-4.8.26)

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    [lcd-ds283:27730] [ 3] 5   libc++abi.dylib                     0x00007fff83aff141 __cxa_bad_cast + 0
    [lcd-ds283:27730] [ 4] 6   libc++abi.dylib                     0x00007fff83b24aa4 _ZL25default_terminate_handlerv + 240
    [lcd-ds283:27730] [ 5] 7   libobjc.A.dylib                     0x00007fff89ac0322 _ZL15_objc_terminatev + 124
    [lcd-ds283:27730] [ 6] 8   libc++abi.dylib                     0x00007fff83b223e1 _ZSt11__terminatePFvvE + 8
    [lcd-ds283:27730] [ 7] 9   libc++abi.dylib                     0x00007fff83b21e6b _ZN10__cxxabiv1L22exception_cleanup_funcE19_Unwind_Reason_CodeP17_Unwind_Exception + 0
    [lcd-ds283:27730] [ 8] 10  libdbxml-2.5.dylib                  0x000000010f30e4de _ZN5DbXml18DictionaryDatabaseC2EP8__db_envPNS_11TransactionERKNSt3__112basic_stringIcNS5_11char_traitsIcEENS5_9allocatorIcEEEERKNS_15ContainerConfigEb + 1038
    [lcd-ds283:27730] [ 9] 11  libdbxml-2.5.dylib                  0x000000010f2f348c _ZN5DbXml9Container12openInternalEPNS_11TransactionERKNS_15ContainerConfigEb + 1068
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    [lcd-ds283:27730] [11] 13  libdbxml-2.5.dylib                  0x000000010f32a0af _ZN5DbXml7Manager14ContainerStore13findContainerERS0_RKNSt3__112basic_stringIcNS3_11char_traitsIcEENS3_9allocatorIcEEEEPNS_11TransactionERKNS_15ContainerConfigEb + 175
    [lcd-ds283:27730] [12] 14  libdbxml-2.5.dylib                  0x000000010f329f75 _ZN5DbXml7Manager13openContainerERKNSt3__112basic_stringIcNS1_11char_traitsIcEENS1_9allocatorIcEEEEPNS_11TransactionERKNS_15ContainerConfigEb + 101
    [lcd-ds283:27730] [13] 15  libdbxml-2.5.dylib                  0x000000010f34cd46 _ZN5DbXml10XmlManager13openContainerERKNSt3__112basic_stringIcNS1_11char_traitsIcEENS1_9allocatorIcEEEERKNS_18XmlContainerConfigE + 102
    Can I ask if it's clear to anyone what I am doing wrong?

    Is it possible that the root problem to this is in the MPI code or usage?  Because if the writer process crashes while holding an active transaction or open database handles, it could leave the environment in an inconsistent state that would result in the readers throwing a PANIC error when they notice the inconsistent environment.
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    It looks like there was a small typo in the code I quoted, and I think it was this which caused the segmentation fault or memory corruption. Although I checked a few times that the code snippet produced expected results before posting it, I must have been unlucky that it just happened not to cause a segfault on those attempts.
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    #include <iostream>
    #include <vector>
    #include "dbxml/db.h"
    #include "dbxml/dbxml/DbXml.hpp"
    #include "boost/mpi.hpp"
    static std::string envname = std::string("test");
    static std::string pkgname = std::string("packages.dbxml");
    static std::string intname = std::string("integrations.dbxml");
    int main(int argc, char *argv[])
        boost::mpi::environment  mpi_env;
        boost::mpi::communicator mpi_world;
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            std::cerr << "-- Writer creating environment" << std::endl;
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            std::cerr << "**   creation response = " << dberr << std::endl;
            if(dberr > 0) std::cerr << "**   " << ::db_strerror(dberr) << std::endl;
            std::cerr << "-- Writer opening environment" << std::endl;
            u_int32_t env_flags = DB_INIT_LOCK | DB_INIT_LOG | DB_INIT_MPOOL | DB_REGISTER | DB_RECOVER | DB_INIT_TXN | DB_CREATE;
            dberr = env->open(env, envname.c_str(), env_flags, 0);
            std::cerr << "**   opening response = " << dberr << std::endl;
            if(dberr > 0) std::cerr << "**   " << ::db_strerror(dberr) << std::endl;
            // set up XmlManager object
            DbXml::XmlManager *mgr = new DbXml::XmlManager(env, DbXml::DBXML_ADOPT_DBENV | DbXml::DBXML_ALLOW_EXTERNAL_ACCESS);
            // create containers - these will be used by the workers
            DbXml::XmlContainerConfig pkg_config;
            DbXml::XmlContainerConfig int_config;
            pkg_config.setTransactional(true);
            int_config.setTransactional(true);
            std::cerr << "-- Writer creating containers" << std::endl;
            DbXml::XmlContainer packages       = mgr->createContainer(pkgname.c_str(), pkg_config);
            DbXml::XmlContainer integrations   = mgr->createContainer(intname.c_str(), int_config);
            std::cerr << "-- Writer instructing workers" << std::endl;
            std::vector<boost::mpi::request> reqs(mpi_world.size() - 1);
            for(unsigned int                 i = 1; i < mpi_world.size(); i++)
                reqs[i - 1] = mpi_world.isend(i, 0); // instruct workers to open the environment
            // wait for all messages to be received
            boost::mpi::wait_all(reqs.begin(), reqs.end());
            std::cerr << "-- Writer waiting for termination responses" << std::endl;
            // wait for workers to advise successful termination
            unsigned int outstanding_workers = mpi_world.size() - 1;
            while(outstanding_workers > 0)
                boost::mpi::status stat = mpi_world.probe();
                switch(stat.tag())
                    case 1:
                        mpi_world.recv(stat.source(), 1);
                        outstanding_workers--;
                        break;
            delete mgr; // exit, closing database and environment
        else
            mpi_world.recv(0, 0);
            std::cerr << "++ Reader " << mpi_world.rank() << " beginning work" << std::endl;
            DB_ENV *env;
            ::db_env_create(&env, 0);
            u_int32_t env_flags = DB_INIT_LOCK | DB_INIT_LOG | DB_INIT_MPOOL | DB_REGISTER | DB_RECOVER | DB_INIT_TXN | DB_CREATE;
            env->open(env, envname.c_str(), env_flags, 0);
            // set up XmlManager object
            DbXml::XmlManager *mgr = new DbXml::XmlManager(env, DbXml::DBXML_ADOPT_DBENV | DbXml::DBXML_ALLOW_EXTERNAL_ACCESS);
            // open containers which were set up by the master
            DbXml::XmlContainerConfig pkg_config;
            DbXml::XmlContainerConfig int_config;
            pkg_config.setTransactional(true);
            pkg_config.setReadOnly(true);
            int_config.setTransactional(true);
            int_config.setReadOnly(true);
            DbXml::XmlContainer packages     = mgr->openContainer(pkgname.c_str(), pkg_config);
            DbXml::XmlContainer integrations = mgr->openContainer(intname.c_str(), int_config);
            mpi_world.isend(0, 1);
            delete mgr; // exit, closing database and environment
        return (EXIT_SUCCESS);
    This repeatably causes the crash on OS X Mavericks 10.9.1. Also, I have checked that it repeatably causes the crash on a virtualized OS X Mountain Lion 10.8.5. But I do not see any crashes on a virtualized Ubuntu 13.10. My full code likewise works as expected with a large number of readers under the virtualized Ubuntu. I am compiling with clang and libc++ on OS X, and gcc 4.8.1 and libstdc++ on Ubuntu, but using openmpi in both cases. Edit: I have also compiled with clang and libc++ on Ubuntu, and it works equally well.
    Because the virtualized OS X experiences the crash, I hope the fact that it works on Ubuntu is not just an artefact of virtualization. (Unfortunately I don't currently have a physical Linux machine with which to check.) In that case the implication would seem to be that it's an OS X-specific problem. 2nd edit (14 Feb 2014): I have now managed to test on a physical Linux cluster, and it appears to work as expected. Therefore it does appear to be an OS X-specific issue.
    In either OS X 10.8 or 10.9, the crash produces this result:
    -- Writer creating environment
    **   creation response = 0
    -- Writer opening environment
    **   opening response = 0
    -- Writer creating containers
    ++ Reader 7 beginning work
    -- Writer instructing workers
    -- Writer waiting for termination responses
    ++ Reader 1 beginning work
    ++ Reader 2 beginning work
    ++ Reader 3 beginning work
    ++ Reader 4 beginning work
    ++ Reader 5 beginning work
    ++ Reader 6 beginning work
    pthread lock failed: Invalid argument
    PANIC: Invalid argument
    PANIC: fatal region error detected; run recovery
    PANIC: fatal region error detected; run recovery
    PANIC: fatal region error detected; run recovery
    PANIC: fatal region error detected; run recovery
    PANIC: fatal region error detected; run recovery
    PANIC: fatal region error detected; run recovery
    PANIC: fatal region error detected; run recovery
    libc++abi.dylib: terminate called throwing an exception
    [mountainlion-test-rig:00319] *** Process received signal ***
    [mountainlion-test-rig:00319] Signal: Abort trap: 6 (6)
    [mountainlion-test-rig:00319] Signal code:  (0)
    David
    Message was edited by: ds283

  • Problems with Time machine caused by removing PKCS11.log?

    I haven't yet found a solution to my Time Machine no longer backing up: "while an error occurred while copying files to the backup disk"
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    Copy stage failed with error:11
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  • Problem with Time Machine back up

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    Copied 9 files (774 KB) from volume Macintosh HD.
    Copy stage failed with error:11
    Backup failed with error: 11
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    Backing up to: /Volumes/Mike/Backups.backupdb
    Backup content size: 136.3 GB excluded items size: 8.3 GB for volume Macintosh HD
    153.62 GB required (including padding), 465.32 GB available
    Waiting for index to be ready (101)
    Stopping backup.
    Error: (-47) SrcErr:NO Copying /Applications/adidas miCoach Manager.app/Contents/Frameworks/QtCore.framework/Versions/4/QtCore to /Volumes/Mike/Backups.backupdb/Mike surname removed’s MacBook/2012-12-26-120325.inProgress/65EE1FE8-D548-4CAD-AEC7-9B6A4C12FAD9/Macin tosh HD/Applications/adidas miCoach Manager.app/Contents/Frameworks/QtCore.framework/Versions/4
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    Backup failed with error: 11
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    Copy stage failed with error:11
    Backup failed with error: 11
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    Merry Christmas

    miketangokilo wrote:
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  • VAT declaration in XML - Problem with report RFASLDPC

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  • Problem with Time Machine Backup or Maybe Not Time Machine

    The problem manifests after a Time Machine backup.
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    I have the same problem using Time Machine with the 2T G-Drive and my MacBook Pro. G-Tech emailed me a Firmware Update Utility app and, when that didn't solve the error message problem, they sent me a replacement drive and new cables, twice. The problem persisted; I get one or two backups each day and then the error message. I also can't copy anything to the drive and have to force eject it, so G-Tech suggested I see how well it worked with the USB cable.
    Time Machine works flawlessly with the USB cable and the G-Drive, so G-Tech suggested it is a problem with my Firewire 800 port. I worked with Apple Care over the phone, doing all the tests suggested in Eric's post - testing with Disk Utility, Time Machines interface with my User Accounts, the Operating System, then resetting Time Machine, etc. and then I took it to the Genius Bar so they could run the tests themselves. All looked like it should be fine (but they were using a 1T G-Drive and all testing was done within 30 minutes)...when I got home, after two good backups, I got the error message again.
    Apple Care finally suggested I make a Genius Bar appointment and sit at the store working with my MacBook, the G-Drive and Time Machine running until I got the error message, to prove the only thing left that could possibly be the cause of the problem, is the port.  I did this last Wednesday.
    It is 9 days later and I got my computer back this afternoon...the logic board was replaced because the Firewire 800 port is attached to it...I got my first Time Machine back up at 5:34pm...and the error message again at 7:34pm.
    The only solution, it seems, is to use the USB cable instead of Firewire. USB and Thunderbolt seem to be the direction Apple is taking, which is why so many people have been posting about this problem, here and elsewhere, with no real solutions from Apple. See this article:  http://www.infoworld.com/t/mac-laptop/how-cope-the-end-of-firewire-205957
    I hope the USB works for you too.

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