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Posted to dev@commons.apache.org by Phil Steitz <ph...@gmail.com> on 2012/08/06 00:13:33 UTC

[math] spinning BOBYQAOptimizerTest

The site build just hung on me due to
BOBYQAOptimizerTest.testConstrainedRosenWithMoreInterpolationPoints
spinning.  A sample thread dump showing the spinning thread is show
below.  Above the reference to
BOBYQAOptimizer.doOptimize(BOBYQAOptimizer.java:246), successive
dumps change.  The code continues to run, but does not complete. 
The hang happened during the coberta instrumented test run.

    at
org.apache.commons.math3.optimization.direct.BOBYQAOptimizer.bobyqb(BOBYQAOptimizer.java:970)
    at
org.apache.commons.math3.optimization.direct.BOBYQAOptimizer.bobyqa(BOBYQAOptimizer.java:334)
    at
org.apache.commons.math3.optimization.direct.BOBYQAOptimizer.doOptimize(BOBYQAOptimizer.java:246)
    at
org.apache.commons.math3.optimization.direct.BaseAbstractMultivariateOptimizer.optimize(BaseAbstractMultivariateOptimizer.java:126)
    at
org.apache.commons.math3.optimization.direct.BaseAbstractMultivariateSimpleBoundsOptimizer.optimize(BaseAbstractMultivariateSimpleBoundsOptimizer.java:139)
    at
org.apache.commons.math3.optimization.direct.BOBYQAOptimizerTest.doTest(BOBYQAOptimizerTest.java:321)
    at
org.apache.commons.math3.optimization.direct.BOBYQAOptimizerTest.testConstrainedRosenWithMoreInterpolationPoints(BOBYQAOptimizerTest.java:249)

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Re: [math] workaround to get site reports to run WAS: Re: [math] spinning BOBYQAOptimizerTest

Posted by Thomas Neidhart <th...@gmail.com>.
On 09/08/2012 10:21 PM, Thomas Neidhart wrote:
> On 09/08/2012 07:05 PM, Phil Steitz wrote:
>> Per the thread below, "mvn site" now takes an very, very long time
>> to run on many (most?) platforms, so as a workaround until we figure
>> out how to fix the tests or plugins, here is a quick way to get the
>> basic site generated locally with static analysis reports.  Use "mvn
>> clean test" first to verify that tests are all good and then skip
>> the tests when generating the site:
>>
>> mvn -DskipTests=true site
> 
> another way as highlighted by sebb a few weeks ago is to run it like this:
> 
> mvn -Pfast clean site

oh, this is not by default in the pom.xml, you have to add the following
to it (I kept findbugs and pmd enabled):

<profiles>
   <profile>
     <id>fast</id>
     <properties>
       <skipTests>true</skipTests>
       <maven.javadoc.skip>true</maven.javadoc.skip>
       <maven.clover.skip>true</maven.clover.skip>
       <cobertura.skip>true</cobertura.skip>
<!--         <findbugs.skip>true</findbugs.skip> -->
<!--         <pmd.skip>true</pmd.skip> -->
     </properties>
  </profile>
</profiles>

Thomas

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Re: [math] workaround to get site reports to run WAS: Re: [math] spinning BOBYQAOptimizerTest

Posted by Thomas Neidhart <th...@gmail.com>.
On 09/08/2012 07:05 PM, Phil Steitz wrote:
> Per the thread below, "mvn site" now takes an very, very long time
> to run on many (most?) platforms, so as a workaround until we figure
> out how to fix the tests or plugins, here is a quick way to get the
> basic site generated locally with static analysis reports.  Use "mvn
> clean test" first to verify that tests are all good and then skip
> the tests when generating the site:
> 
> mvn -DskipTests=true site

another way as highlighted by sebb a few weeks ago is to run it like this:

mvn -Pfast clean site

Thomas

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[math] workaround to get site reports to run WAS: Re: [math] spinning BOBYQAOptimizerTest

Posted by Phil Steitz <ph...@gmail.com>.
Per the thread below, "mvn site" now takes an very, very long time
to run on many (most?) platforms, so as a workaround until we figure
out how to fix the tests or plugins, here is a quick way to get the
basic site generated locally with static analysis reports.  Use "mvn
clean test" first to verify that tests are all good and then skip
the tests when generating the site:

mvn -DskipTests=true site

Phil

On 8/7/12 12:21 PM, Phil Steitz wrote:
> On 8/7/12 11:29 AM, Luc Maisonobe
>> Le 07/08/2012 00:21, Phil Steitz a écrit :
>>> On 8/6/12 2:53 PM, Gilles Sadowski wrote:
>>>> On Sun, Aug 05, 2012 at 03:13:33PM -0700, Phil Steitz wrote:
>>>>> The site build just hung on me due to
>>>>> BOBYQAOptimizerTest.testConstrainedRosenWithMoreInterpolationPoints
>>>>> spinning.  A sample thread dump showing the spinning thread is show
>>>>> below.  Above the reference to
>>>>> BOBYQAOptimizer.doOptimize(BOBYQAOptimizer.java:246), successive
>>>>> dumps change.  The code continues to run, but does not complete. 
>>>>> The hang happened during the coberta instrumented test run.
>>>>>
>>>>>     at
>>>>> org.apache.commons.math3.optimization.direct.BOBYQAOptimizer.bobyqb(BOBYQAOptimizer.java:970)
>>>>>     at
>>>>> org.apache.commons.math3.optimization.direct.BOBYQAOptimizer.bobyqa(BOBYQAOptimizer.java:334)
>>>>>     at
>>>>> org.apache.commons.math3.optimization.direct.BOBYQAOptimizer.doOptimize(BOBYQAOptimizer.java:246)
>>>>>     at
>>>>> org.apache.commons.math3.optimization.direct.BaseAbstractMultivariateOptimizer.optimize(BaseAbstractMultivariateOptimizer.java:126)
>>>>>     at
>>>>> org.apache.commons.math3.optimization.direct.BaseAbstractMultivariateSimpleBoundsOptimizer.optimize(BaseAbstractMultivariateSimpleBoundsOptimizer.java:139)
>>>>>     at
>>>>> org.apache.commons.math3.optimization.direct.BOBYQAOptimizerTest.doTest(BOBYQAOptimizerTest.java:321)
>>>>>     at
>>>>> org.apache.commons.math3.optimization.direct.BOBYQAOptimizerTest.testConstrainedRosenWithMoreInterpolationPoints(BOBYQAOptimizerTest.java:249)
>>>> Runs fine here...
>>>> Excerpt from Cobertura report:
>>>> BOBYQAOptimizer   87%          1022/1162       84%         525/624      23
>>> Interesting.  Hangs every time for me on
>> Same here.
>> I wanted to use cobertura for testing the studff I am working on, and
>> could not succeed.
> What I don't get is why this happens only when running the
> coberta-instrumented code and why it is not actually hung, just not
> terminating.  Successive thread dumps show that processing is
> continuing.  Have we seen other situations where this test does not
> terminate?
>
> Phil
>> I'm running the following versions, on a Linux box with Debian squeeze
>> OS, a three years old AMD 64 processor and about 6 Gbytes RAM.
>>
>> (lehrin) luc% mvn -version
>> Apache Maven 2.2.1 (rdebian-8)
>> Java version: 1.6.0_24
>> Java home: /usr/lib/jvm/java-6-openjdk-amd64/jre
>> Default locale: fr_FR, platform encoding: UTF-8
>> OS name: "linux" version: "3.2.0-3-amd64" arch: "amd64" Family: "unix"
>> (lehrin) luc% java -version
>> java version "1.6.0_24"
>> OpenJDK Runtime Environment (IcedTea6 1.11.3) (6b24-1.11.3-2)
>> OpenJDK 64-Bit Server VM (build 20.0-b12, mixed mode)
>> (lehrin) luc%
>>
>> Luc
>>
>>> BOBYQAOptimizer.doOptimize(BOBYQAOptimizer.java:246)
>>>
>>> running
>>>
>>> Apache Maven 2.2.1 (r801777; 2009-08-06 12:16:01-0700)
>>> java version "1.6.0_33"
>>> Java(TM) SE Runtime Environment (build 1.6.0_33-b03-424-11M3720)
>>> Java HotSpot(TM) 64-Bit Server VM (build 20.8-b03-424, mixed mode)
>>>
>>> Phil
>>>
>>>> Gilles
>>>>
>>>> ---------------------------------------------------------------------
>>>> To unsubscribe, e-mail: dev-unsubscribe@commons.apache.org
>>>> For additional commands, e-mail: dev-help@commons.apache.org
>>>>
>>>>
>>> ---------------------------------------------------------------------
>>> To unsubscribe, e-mail: dev-unsubscribe@commons.apache.org
>>> For additional commands, e-mail: dev-help@commons.apache.org
>>>
>>>
>> ---------------------------------------------------------------------
>> To unsubscribe, e-mail: dev-unsubscribe@commons.apache.org
>> For additional commands, e-mail: dev-help@commons.apache.org
>>
>>


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Re: [math] spinning BOBYQAOptimizerTest

Posted by Phil Steitz <ph...@gmail.com>.
On 8/7/12 11:29 AM, Luc Maisonobe wrote:
> Le 07/08/2012 00:21, Phil Steitz a écrit :
>> On 8/6/12 2:53 PM, Gilles Sadowski wrote:
>>> On Sun, Aug 05, 2012 at 03:13:33PM -0700, Phil Steitz wrote:
>>>> The site build just hung on me due to
>>>> BOBYQAOptimizerTest.testConstrainedRosenWithMoreInterpolationPoints
>>>> spinning.  A sample thread dump showing the spinning thread is show
>>>> below.  Above the reference to
>>>> BOBYQAOptimizer.doOptimize(BOBYQAOptimizer.java:246), successive
>>>> dumps change.  The code continues to run, but does not complete. 
>>>> The hang happened during the coberta instrumented test run.
>>>>
>>>>     at
>>>> org.apache.commons.math3.optimization.direct.BOBYQAOptimizer.bobyqb(BOBYQAOptimizer.java:970)
>>>>     at
>>>> org.apache.commons.math3.optimization.direct.BOBYQAOptimizer.bobyqa(BOBYQAOptimizer.java:334)
>>>>     at
>>>> org.apache.commons.math3.optimization.direct.BOBYQAOptimizer.doOptimize(BOBYQAOptimizer.java:246)
>>>>     at
>>>> org.apache.commons.math3.optimization.direct.BaseAbstractMultivariateOptimizer.optimize(BaseAbstractMultivariateOptimizer.java:126)
>>>>     at
>>>> org.apache.commons.math3.optimization.direct.BaseAbstractMultivariateSimpleBoundsOptimizer.optimize(BaseAbstractMultivariateSimpleBoundsOptimizer.java:139)
>>>>     at
>>>> org.apache.commons.math3.optimization.direct.BOBYQAOptimizerTest.doTest(BOBYQAOptimizerTest.java:321)
>>>>     at
>>>> org.apache.commons.math3.optimization.direct.BOBYQAOptimizerTest.testConstrainedRosenWithMoreInterpolationPoints(BOBYQAOptimizerTest.java:249)
>>> Runs fine here...
>>> Excerpt from Cobertura report:
>>> BOBYQAOptimizer   87%          1022/1162       84%         525/624      23
>> Interesting.  Hangs every time for me on
> Same here.
> I wanted to use cobertura for testing the studff I am working on, and
> could not succeed.

What I don't get is why this happens only when running the
coberta-instrumented code and why it is not actually hung, just not
terminating.  Successive thread dumps show that processing is
continuing.  Have we seen other situations where this test does not
terminate?

Phil
>
> I'm running the following versions, on a Linux box with Debian squeeze
> OS, a three years old AMD 64 processor and about 6 Gbytes RAM.
>
> (lehrin) luc% mvn -version
> Apache Maven 2.2.1 (rdebian-8)
> Java version: 1.6.0_24
> Java home: /usr/lib/jvm/java-6-openjdk-amd64/jre
> Default locale: fr_FR, platform encoding: UTF-8
> OS name: "linux" version: "3.2.0-3-amd64" arch: "amd64" Family: "unix"
> (lehrin) luc% java -version
> java version "1.6.0_24"
> OpenJDK Runtime Environment (IcedTea6 1.11.3) (6b24-1.11.3-2)
> OpenJDK 64-Bit Server VM (build 20.0-b12, mixed mode)
> (lehrin) luc%
>
> Luc
>
>> BOBYQAOptimizer.doOptimize(BOBYQAOptimizer.java:246)
>>
>> running
>>
>> Apache Maven 2.2.1 (r801777; 2009-08-06 12:16:01-0700)
>> java version "1.6.0_33"
>> Java(TM) SE Runtime Environment (build 1.6.0_33-b03-424-11M3720)
>> Java HotSpot(TM) 64-Bit Server VM (build 20.8-b03-424, mixed mode)
>>
>> Phil
>>
>>>
>>> Gilles
>>>
>>> ---------------------------------------------------------------------
>>> To unsubscribe, e-mail: dev-unsubscribe@commons.apache.org
>>> For additional commands, e-mail: dev-help@commons.apache.org
>>>
>>>
>>
>> ---------------------------------------------------------------------
>> To unsubscribe, e-mail: dev-unsubscribe@commons.apache.org
>> For additional commands, e-mail: dev-help@commons.apache.org
>>
>>
>
> ---------------------------------------------------------------------
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> For additional commands, e-mail: dev-help@commons.apache.org
>
>


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Re: [math] spinning BOBYQAOptimizerTest

Posted by Luc Maisonobe <Lu...@free.fr>.
Le 07/08/2012 00:21, Phil Steitz a écrit :
> On 8/6/12 2:53 PM, Gilles Sadowski wrote:
>> On Sun, Aug 05, 2012 at 03:13:33PM -0700, Phil Steitz wrote:
>>> The site build just hung on me due to
>>> BOBYQAOptimizerTest.testConstrainedRosenWithMoreInterpolationPoints
>>> spinning.  A sample thread dump showing the spinning thread is show
>>> below.  Above the reference to
>>> BOBYQAOptimizer.doOptimize(BOBYQAOptimizer.java:246), successive
>>> dumps change.  The code continues to run, but does not complete. 
>>> The hang happened during the coberta instrumented test run.
>>>
>>>     at
>>> org.apache.commons.math3.optimization.direct.BOBYQAOptimizer.bobyqb(BOBYQAOptimizer.java:970)
>>>     at
>>> org.apache.commons.math3.optimization.direct.BOBYQAOptimizer.bobyqa(BOBYQAOptimizer.java:334)
>>>     at
>>> org.apache.commons.math3.optimization.direct.BOBYQAOptimizer.doOptimize(BOBYQAOptimizer.java:246)
>>>     at
>>> org.apache.commons.math3.optimization.direct.BaseAbstractMultivariateOptimizer.optimize(BaseAbstractMultivariateOptimizer.java:126)
>>>     at
>>> org.apache.commons.math3.optimization.direct.BaseAbstractMultivariateSimpleBoundsOptimizer.optimize(BaseAbstractMultivariateSimpleBoundsOptimizer.java:139)
>>>     at
>>> org.apache.commons.math3.optimization.direct.BOBYQAOptimizerTest.doTest(BOBYQAOptimizerTest.java:321)
>>>     at
>>> org.apache.commons.math3.optimization.direct.BOBYQAOptimizerTest.testConstrainedRosenWithMoreInterpolationPoints(BOBYQAOptimizerTest.java:249)
>> Runs fine here...
>> Excerpt from Cobertura report:
>> BOBYQAOptimizer   87%          1022/1162       84%         525/624      23
> 
> Interesting.  Hangs every time for me on

Same here.
I wanted to use cobertura for testing the studff I am working on, and
could not succeed.

I'm running the following versions, on a Linux box with Debian squeeze
OS, a three years old AMD 64 processor and about 6 Gbytes RAM.

(lehrin) luc% mvn -version
Apache Maven 2.2.1 (rdebian-8)
Java version: 1.6.0_24
Java home: /usr/lib/jvm/java-6-openjdk-amd64/jre
Default locale: fr_FR, platform encoding: UTF-8
OS name: "linux" version: "3.2.0-3-amd64" arch: "amd64" Family: "unix"
(lehrin) luc% java -version
java version "1.6.0_24"
OpenJDK Runtime Environment (IcedTea6 1.11.3) (6b24-1.11.3-2)
OpenJDK 64-Bit Server VM (build 20.0-b12, mixed mode)
(lehrin) luc%

Luc

> 
> BOBYQAOptimizer.doOptimize(BOBYQAOptimizer.java:246)
> 
> running
> 
> Apache Maven 2.2.1 (r801777; 2009-08-06 12:16:01-0700)
> java version "1.6.0_33"
> Java(TM) SE Runtime Environment (build 1.6.0_33-b03-424-11M3720)
> Java HotSpot(TM) 64-Bit Server VM (build 20.8-b03-424, mixed mode)
> 
> Phil
> 
>>
>>
>> Gilles
>>
>> ---------------------------------------------------------------------
>> To unsubscribe, e-mail: dev-unsubscribe@commons.apache.org
>> For additional commands, e-mail: dev-help@commons.apache.org
>>
>>
> 
> 
> ---------------------------------------------------------------------
> To unsubscribe, e-mail: dev-unsubscribe@commons.apache.org
> For additional commands, e-mail: dev-help@commons.apache.org
> 
> 


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Re: [math] spinning BOBYQAOptimizerTest

Posted by Gilles Sadowski <gi...@harfang.homelinux.org>.
On Mon, Aug 06, 2012 at 03:21:04PM -0700, Phil Steitz wrote:
> On 8/6/12 2:53 PM, Gilles Sadowski wrote:
> > On Sun, Aug 05, 2012 at 03:13:33PM -0700, Phil Steitz wrote:
> >> The site build just hung on me due to
> >> BOBYQAOptimizerTest.testConstrainedRosenWithMoreInterpolationPoints
> >> spinning.  A sample thread dump showing the spinning thread is show
> >> below.  Above the reference to
> >> BOBYQAOptimizer.doOptimize(BOBYQAOptimizer.java:246), successive
> >> dumps change.  The code continues to run, but does not complete. 
> >> The hang happened during the coberta instrumented test run.
> >>
> >>     at
> >> org.apache.commons.math3.optimization.direct.BOBYQAOptimizer.bobyqb(BOBYQAOptimizer.java:970)
> >>     at
> >> org.apache.commons.math3.optimization.direct.BOBYQAOptimizer.bobyqa(BOBYQAOptimizer.java:334)
> >>     at
> >> org.apache.commons.math3.optimization.direct.BOBYQAOptimizer.doOptimize(BOBYQAOptimizer.java:246)
> >>     at
> >> org.apache.commons.math3.optimization.direct.BaseAbstractMultivariateOptimizer.optimize(BaseAbstractMultivariateOptimizer.java:126)
> >>     at
> >> org.apache.commons.math3.optimization.direct.BaseAbstractMultivariateSimpleBoundsOptimizer.optimize(BaseAbstractMultivariateSimpleBoundsOptimizer.java:139)
> >>     at
> >> org.apache.commons.math3.optimization.direct.BOBYQAOptimizerTest.doTest(BOBYQAOptimizerTest.java:321)
> >>     at
> >> org.apache.commons.math3.optimization.direct.BOBYQAOptimizerTest.testConstrainedRosenWithMoreInterpolationPoints(BOBYQAOptimizerTest.java:249)
> > Runs fine here...
> > Excerpt from Cobertura report:
> > BOBYQAOptimizer   87%          1022/1162       84%         525/624      23
> 
> Interesting.  Hangs every time for me on
> 
> BOBYQAOptimizer.doOptimize(BOBYQAOptimizer.java:246)
> 
> running
> 
> Apache Maven 2.2.1 (r801777; 2009-08-06 12:16:01-0700)
> java version "1.6.0_33"
> Java(TM) SE Runtime Environment (build 1.6.0_33-b03-424-11M3720)
> Java HotSpot(TM) 64-Bit Server VM (build 20.8-b03-424, mixed mode)
> 

$ mvn -version
Apache Maven 3.0.4
Maven home: /usr/share/maven
Java version: 1.7.0_03-icedtea, vendor: Oracle Corporation
Java home: /usr/lib/jvm/java-7-openjdk-amd64/jre
Default locale: en_US, platform encoding: UTF-8
OS name: "linux", version: "2.6.32-5-vserver-amd64", arch: "amd64", family: "unix"


Gilles

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Re: [math] spinning BOBYQAOptimizerTest

Posted by Phil Steitz <ph...@gmail.com>.
On 8/6/12 2:53 PM, Gilles Sadowski wrote:
> On Sun, Aug 05, 2012 at 03:13:33PM -0700, Phil Steitz wrote:
>> The site build just hung on me due to
>> BOBYQAOptimizerTest.testConstrainedRosenWithMoreInterpolationPoints
>> spinning.  A sample thread dump showing the spinning thread is show
>> below.  Above the reference to
>> BOBYQAOptimizer.doOptimize(BOBYQAOptimizer.java:246), successive
>> dumps change.  The code continues to run, but does not complete. 
>> The hang happened during the coberta instrumented test run.
>>
>>     at
>> org.apache.commons.math3.optimization.direct.BOBYQAOptimizer.bobyqb(BOBYQAOptimizer.java:970)
>>     at
>> org.apache.commons.math3.optimization.direct.BOBYQAOptimizer.bobyqa(BOBYQAOptimizer.java:334)
>>     at
>> org.apache.commons.math3.optimization.direct.BOBYQAOptimizer.doOptimize(BOBYQAOptimizer.java:246)
>>     at
>> org.apache.commons.math3.optimization.direct.BaseAbstractMultivariateOptimizer.optimize(BaseAbstractMultivariateOptimizer.java:126)
>>     at
>> org.apache.commons.math3.optimization.direct.BaseAbstractMultivariateSimpleBoundsOptimizer.optimize(BaseAbstractMultivariateSimpleBoundsOptimizer.java:139)
>>     at
>> org.apache.commons.math3.optimization.direct.BOBYQAOptimizerTest.doTest(BOBYQAOptimizerTest.java:321)
>>     at
>> org.apache.commons.math3.optimization.direct.BOBYQAOptimizerTest.testConstrainedRosenWithMoreInterpolationPoints(BOBYQAOptimizerTest.java:249)
> Runs fine here...
> Excerpt from Cobertura report:
> BOBYQAOptimizer   87%          1022/1162       84%         525/624      23

Interesting.  Hangs every time for me on

BOBYQAOptimizer.doOptimize(BOBYQAOptimizer.java:246)

running

Apache Maven 2.2.1 (r801777; 2009-08-06 12:16:01-0700)
java version "1.6.0_33"
Java(TM) SE Runtime Environment (build 1.6.0_33-b03-424-11M3720)
Java HotSpot(TM) 64-Bit Server VM (build 20.8-b03-424, mixed mode)

Phil

>
>
> Gilles
>
> ---------------------------------------------------------------------
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>


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Re: [math] spinning BOBYQAOptimizerTest

Posted by Gilles Sadowski <gi...@harfang.homelinux.org>.
On Sun, Aug 05, 2012 at 03:13:33PM -0700, Phil Steitz wrote:
> The site build just hung on me due to
> BOBYQAOptimizerTest.testConstrainedRosenWithMoreInterpolationPoints
> spinning.  A sample thread dump showing the spinning thread is show
> below.  Above the reference to
> BOBYQAOptimizer.doOptimize(BOBYQAOptimizer.java:246), successive
> dumps change.  The code continues to run, but does not complete. 
> The hang happened during the coberta instrumented test run.
> 
>     at
> org.apache.commons.math3.optimization.direct.BOBYQAOptimizer.bobyqb(BOBYQAOptimizer.java:970)
>     at
> org.apache.commons.math3.optimization.direct.BOBYQAOptimizer.bobyqa(BOBYQAOptimizer.java:334)
>     at
> org.apache.commons.math3.optimization.direct.BOBYQAOptimizer.doOptimize(BOBYQAOptimizer.java:246)
>     at
> org.apache.commons.math3.optimization.direct.BaseAbstractMultivariateOptimizer.optimize(BaseAbstractMultivariateOptimizer.java:126)
>     at
> org.apache.commons.math3.optimization.direct.BaseAbstractMultivariateSimpleBoundsOptimizer.optimize(BaseAbstractMultivariateSimpleBoundsOptimizer.java:139)
>     at
> org.apache.commons.math3.optimization.direct.BOBYQAOptimizerTest.doTest(BOBYQAOptimizerTest.java:321)
>     at
> org.apache.commons.math3.optimization.direct.BOBYQAOptimizerTest.testConstrainedRosenWithMoreInterpolationPoints(BOBYQAOptimizerTest.java:249)

Runs fine here...
Excerpt from Cobertura report:
BOBYQAOptimizer   87%          1022/1162       84%         525/624      23


Gilles

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