From amorimlb at gmail.com  Sat Oct 23 20:32:05 2010
From: amorimlb at gmail.com (Lucas Amorim)
Date: Sat, 23 Oct 2010 21:32:05 -0300
Subject: [MOBY-dev] Help with the featureClient
Message-ID: <AANLkTimMY-VgvgVkNUrJb8hum+TFLtOtOSKBNJafLRX9@mail.gmail.com>

Hello,

I don't know if this is the appropriate mailing list, if not, please
point me to the right one. Or just answer me :D
I am trying to use jmoby for a datamining project I am in, but, before
diving into the real task, I would like to run the FeatureClient
example they have, but when I try to run it like this:  java -jar
FeatureClient.jar SimpleSingleCall, i get a lot of java related errors
I can't understand (C++ programmer), such as:

neutron:featureClient lucas$ java -jar FeatureClient.jar SimpleSingleCall
Exception in thread "main" java.lang.NoClassDefFoundError:
org/apache/axis/AxisFault
        at de.mpg.mpiz_koeln.pcb.featureClient.FeatureClient.<init>(FeatureClient.java:93)
        at de.mpg.mpiz_koeln.pcb.featureClient.test.SimpleSingleCall.main(SimpleSingleCall.java:18)
        at de.mpg.mpiz_koeln.pcb.featureClient.test.FeatureClientFactory.main(FeatureClientFactory.java:40)
Caused by: java.lang.ClassNotFoundException: org.apache.axis.AxisFault
        at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
        at java.security.AccessController.doPrivileged(Native Method)
        at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
        at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
        at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:301)
        at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
        ... 3 more
neutron:featureClient lucas$

Can you please help me? I have tried it with different sun java
versions and also on mac (above) and on linux.

Thanks in advance!

Lucas Amorim

Instituto de Computa??o
Universidade Federal de Alagoas
Curriculum Lattes: http://lattes.cnpq.br/2470781099632240

Linux User #425305


From martin.senger at gmail.com  Sat Oct 23 20:40:49 2010
From: martin.senger at gmail.com (Martin Senger)
Date: Sun, 24 Oct 2010 03:40:49 +0300
Subject: [MOBY-dev] Help with the featureClient
In-Reply-To: <AANLkTimMY-VgvgVkNUrJb8hum+TFLtOtOSKBNJafLRX9@mail.gmail.com>
References: <AANLkTimMY-VgvgVkNUrJb8hum+TFLtOtOSKBNJafLRX9@mail.gmail.com>
Message-ID: <AANLkTinEu7JD4YmGHsgD=1ojG6EiMU5F8wjfZbZXQSbs@mail.gmail.com>

Hi,

example they have, but when I try to run it like this:  java -jar
>
FeatureClient.jar SimpleSingleCall, i get a lot of java related errors
> I can't understand (C++ programmer)


Being a C++ programmer you definitely understand how important is to have
all header files when compiling a source. In Java, it is similar: you need
to have not one but usually many jar files - and all of them must be defined
by an environment variable CLASSPATH (or directly on the java command-line).
In your case:

Exception in thread "main" java.lang.NoClassDefFoundError:
>
org/apache/axis/AxisFault
>

...tha AxisFault class is missing. But I assume that perhaps more classes
may be missing.

Sorry for only a vague answer; I guess somebody will give you more details.
Martin

-- 
Martin Senger
email: martin.senger at gmail.com,martin.senger at kaust.edu.sa
skype: martinsenger

From guilhem.sempere at cirad.fr  Mon Oct 25 03:31:06 2010
From: guilhem.sempere at cirad.fr (Guilhem Sempere)
Date: Mon, 25 Oct 2010 09:31:06 +0200
Subject: [MOBY-dev] Help with the featureClient
In-Reply-To: <AANLkTinEu7JD4YmGHsgD=1ojG6EiMU5F8wjfZbZXQSbs@mail.gmail.com>
References: <AANLkTimMY-VgvgVkNUrJb8hum+TFLtOtOSKBNJafLRX9@mail.gmail.com>
	<AANLkTinEu7JD4YmGHsgD=1ojG6EiMU5F8wjfZbZXQSbs@mail.gmail.com>
Message-ID: <4CC5323A.5080507@cirad.fr>

Maybe I can give you this little tip : http://www.findjar.com is useful 
when you know which class is missing but don't know which jar it can be 
found in (it happens a lot).



Le 24/10/2010 02:40, Martin Senger a ?crit :
> Hi,
>
> example they have, but when I try to run it like this:  java -jar
> FeatureClient.jar SimpleSingleCall, i get a lot of java related errors
>> I can't understand (C++ programmer)
>
> Being a C++ programmer you definitely understand how important is to have
> all header files when compiling a source. In Java, it is similar: you need
> to have not one but usually many jar files - and all of them must be defined
> by an environment variable CLASSPATH (or directly on the java command-line).
> In your case:
>
> Exception in thread "main" java.lang.NoClassDefFoundError:
> org/apache/axis/AxisFault
> ...tha AxisFault class is missing. But I assume that perhaps more classes
> may be missing.
>
> Sorry for only a vague answer; I guess somebody will give you more details.
> Martin
>

From edward.kawas at gmail.com  Mon Oct 25 09:22:12 2010
From: edward.kawas at gmail.com (Edward Kawas)
Date: Mon, 25 Oct 2010 06:22:12 -0700
Subject: [MOBY-dev] Help with the featureClient
In-Reply-To: <AANLkTimMY-VgvgVkNUrJb8hum+TFLtOtOSKBNJafLRX9@mail.gmail.com>
References: <AANLkTimMY-VgvgVkNUrJb8hum+TFLtOtOSKBNJafLRX9@mail.gmail.com>
Message-ID: <014d01cb7447$a3459ee0$e9d0dca0$@gmail.com>

Hi Lucas,

Look at the following page:

http://biomoby.open-bio.org/CVS_CONTENT/moby-live/Java/docs/FeatureClient.ht
ml

Unfortunately, like Martin said, there are many dependencies required for
most of the biomoby functionality and so you cannot simply run most clients
using java -jar.

Eddie

-----Original Message-----
From: moby-dev-bounces at lists.open-bio.org
[mailto:moby-dev-bounces at lists.open-bio.org] On Behalf Of Lucas Amorim
Sent: Saturday, October 23, 2010 5:32 PM
To: moby-dev at lists.open-bio.org
Subject: [MOBY-dev] Help with the featureClient

Hello,

I don't know if this is the appropriate mailing list, if not, please point
me to the right one. Or just answer me :D I am trying to use jmoby for a
datamining project I am in, but, before diving into the real task, I would
like to run the FeatureClient example they have, but when I try to run it
like this:  java -jar FeatureClient.jar SimpleSingleCall, i get a lot of
java related errors I can't understand (C++ programmer), such as:

neutron:featureClient lucas$ java -jar FeatureClient.jar SimpleSingleCall
Exception in thread "main" java.lang.NoClassDefFoundError:
org/apache/axis/AxisFault
        at
de.mpg.mpiz_koeln.pcb.featureClient.FeatureClient.<init>(FeatureClient.java:
93)
        at
de.mpg.mpiz_koeln.pcb.featureClient.test.SimpleSingleCall.main(SimpleSingleC
all.java:18)
        at
de.mpg.mpiz_koeln.pcb.featureClient.test.FeatureClientFactory.main(FeatureCl
ientFactory.java:40)
Caused by: java.lang.ClassNotFoundException: org.apache.axis.AxisFault
        at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
        at java.security.AccessController.doPrivileged(Native Method)
        at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
        at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
        at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:301)
        at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
        ... 3 more
neutron:featureClient lucas$

Can you please help me? I have tried it with different sun java versions and
also on mac (above) and on linux.

Thanks in advance!

Lucas Amorim

Instituto de Computa??o
Universidade Federal de Alagoas
Curriculum Lattes: http://lattes.cnpq.br/2470781099632240

Linux User #425305

_______________________________________________
MOBY-dev mailing list
MOBY-dev at lists.open-bio.org
http://lists.open-bio.org/mailman/listinfo/moby-dev



From amorimlb at gmail.com  Mon Oct 25 09:50:12 2010
From: amorimlb at gmail.com (Lucas Amorim)
Date: Mon, 25 Oct 2010 10:50:12 -0300
Subject: [MOBY-dev] Help with the featureClient
In-Reply-To: <014d01cb7447$a3459ee0$e9d0dca0$@gmail.com>
References: <AANLkTimMY-VgvgVkNUrJb8hum+TFLtOtOSKBNJafLRX9@mail.gmail.com>
	<014d01cb7447$a3459ee0$e9d0dca0$@gmail.com>
Message-ID: <AANLkTinydi08inUpj5_Y5ZDxFJSVFkXxRoKPx9rSVVJy@mail.gmail.com>

Yes, I think I'll have some trouble setting it up yet. Thank you!


Lucas Amorim

Instituto de Computa??o
Universidade Federal de Alagoas
Curriculum Lattes: http://lattes.cnpq.br/2470781099632240

Linux User #425305



On 25 October 2010 10:22, Edward Kawas <edward.kawas at gmail.com> wrote:
> Hi Lucas,
>
> Look at the following page:
>
> http://biomoby.open-bio.org/CVS_CONTENT/moby-live/Java/docs/FeatureClient.ht
> ml
>
> Unfortunately, like Martin said, there are many dependencies required for
> most of the biomoby functionality and so you cannot simply run most clients
> using java -jar.
>
> Eddie
>
> -----Original Message-----
> From: moby-dev-bounces at lists.open-bio.org
> [mailto:moby-dev-bounces at lists.open-bio.org] On Behalf Of Lucas Amorim
> Sent: Saturday, October 23, 2010 5:32 PM
> To: moby-dev at lists.open-bio.org
> Subject: [MOBY-dev] Help with the featureClient
>
> Hello,
>
> I don't know if this is the appropriate mailing list, if not, please point
> me to the right one. Or just answer me :D I am trying to use jmoby for a
> datamining project I am in, but, before diving into the real task, I would
> like to run the FeatureClient example they have, but when I try to run it
> like this: ?java -jar FeatureClient.jar SimpleSingleCall, i get a lot of
> java related errors I can't understand (C++ programmer), such as:
>
> neutron:featureClient lucas$ java -jar FeatureClient.jar SimpleSingleCall
> Exception in thread "main" java.lang.NoClassDefFoundError:
> org/apache/axis/AxisFault
> ? ? ? ?at
> de.mpg.mpiz_koeln.pcb.featureClient.FeatureClient.<init>(FeatureClient.java:
> 93)
> ? ? ? ?at
> de.mpg.mpiz_koeln.pcb.featureClient.test.SimpleSingleCall.main(SimpleSingleC
> all.java:18)
> ? ? ? ?at
> de.mpg.mpiz_koeln.pcb.featureClient.test.FeatureClientFactory.main(FeatureCl
> ientFactory.java:40)
> Caused by: java.lang.ClassNotFoundException: org.apache.axis.AxisFault
> ? ? ? ?at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
> ? ? ? ?at java.security.AccessController.doPrivileged(Native Method)
> ? ? ? ?at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
> ? ? ? ?at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
> ? ? ? ?at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:301)
> ? ? ? ?at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
> ? ? ? ?... 3 more
> neutron:featureClient lucas$
>
> Can you please help me? I have tried it with different sun java versions and
> also on mac (above) and on linux.
>
> Thanks in advance!
>
> Lucas Amorim
>
> Instituto de Computa??o
> Universidade Federal de Alagoas
> Curriculum Lattes: http://lattes.cnpq.br/2470781099632240
>
> Linux User #425305
>
> _______________________________________________
> MOBY-dev mailing list
> MOBY-dev at lists.open-bio.org
> http://lists.open-bio.org/mailman/listinfo/moby-dev
>
>
> _______________________________________________
> MOBY-dev mailing list
> MOBY-dev at lists.open-bio.org
> http://lists.open-bio.org/mailman/listinfo/moby-dev
>


From amorimlb at gmail.com  Mon Oct 25 09:50:31 2010
From: amorimlb at gmail.com (Lucas Amorim)
Date: Mon, 25 Oct 2010 10:50:31 -0300
Subject: [MOBY-dev] Help with the featureClient
In-Reply-To: <4CC5323A.5080507@cirad.fr>
References: <AANLkTimMY-VgvgVkNUrJb8hum+TFLtOtOSKBNJafLRX9@mail.gmail.com>
	<AANLkTinEu7JD4YmGHsgD=1ojG6EiMU5F8wjfZbZXQSbs@mail.gmail.com>
	<4CC5323A.5080507@cirad.fr>
Message-ID: <AANLkTikmG1Y+y8H00=zRzt3Nxqc_tqkWw5-b386g+Jkw@mail.gmail.com>

Thank you Guilhem, I am going to look at this!!

Lucas Amorim

Instituto de Computa??o
Universidade Federal de Alagoas
Curriculum Lattes: http://lattes.cnpq.br/2470781099632240

Linux User #425305



On 25 October 2010 04:31, Guilhem Sempere <guilhem.sempere at cirad.fr> wrote:
> Maybe I can give you this little tip : http://www.findjar.com is useful when
> you know which class is missing but don't know which jar it can be found in
> (it happens a lot).
>
>
>
> Le 24/10/2010 02:40, Martin Senger a ?crit :
>>
>> Hi,
>>
>> example they have, but when I try to run it like this: ?java -jar
>> FeatureClient.jar SimpleSingleCall, i get a lot of java related errors
>>>
>>> I can't understand (C++ programmer)
>>
>> Being a C++ programmer you definitely understand how important is to have
>> all header files when compiling a source. In Java, it is similar: you need
>> to have not one but usually many jar files - and all of them must be
>> defined
>> by an environment variable CLASSPATH (or directly on the java
>> command-line).
>> In your case:
>>
>> Exception in thread "main" java.lang.NoClassDefFoundError:
>> org/apache/axis/AxisFault
>> ...tha AxisFault class is missing. But I assume that perhaps more classes
>> may be missing.
>>
>> Sorry for only a vague answer; I guess somebody will give you more
>> details.
>> Martin
>>
> _______________________________________________
> MOBY-dev mailing list
> MOBY-dev at lists.open-bio.org
> http://lists.open-bio.org/mailman/listinfo/moby-dev
>


From amorimlb at gmail.com  Sun Oct 24 00:32:05 2010
From: amorimlb at gmail.com (Lucas Amorim)
Date: Sat, 23 Oct 2010 21:32:05 -0300
Subject: [MOBY-dev] Help with the featureClient
Message-ID: <AANLkTimMY-VgvgVkNUrJb8hum+TFLtOtOSKBNJafLRX9@mail.gmail.com>

Hello,

I don't know if this is the appropriate mailing list, if not, please
point me to the right one. Or just answer me :D
I am trying to use jmoby for a datamining project I am in, but, before
diving into the real task, I would like to run the FeatureClient
example they have, but when I try to run it like this:  java -jar
FeatureClient.jar SimpleSingleCall, i get a lot of java related errors
I can't understand (C++ programmer), such as:

neutron:featureClient lucas$ java -jar FeatureClient.jar SimpleSingleCall
Exception in thread "main" java.lang.NoClassDefFoundError:
org/apache/axis/AxisFault
        at de.mpg.mpiz_koeln.pcb.featureClient.FeatureClient.<init>(FeatureClient.java:93)
        at de.mpg.mpiz_koeln.pcb.featureClient.test.SimpleSingleCall.main(SimpleSingleCall.java:18)
        at de.mpg.mpiz_koeln.pcb.featureClient.test.FeatureClientFactory.main(FeatureClientFactory.java:40)
Caused by: java.lang.ClassNotFoundException: org.apache.axis.AxisFault
        at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
        at java.security.AccessController.doPrivileged(Native Method)
        at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
        at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
        at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:301)
        at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
        ... 3 more
neutron:featureClient lucas$

Can you please help me? I have tried it with different sun java
versions and also on mac (above) and on linux.

Thanks in advance!

Lucas Amorim

Instituto de Computa??o
Universidade Federal de Alagoas
Curriculum Lattes: http://lattes.cnpq.br/2470781099632240

Linux User #425305



From martin.senger at gmail.com  Sun Oct 24 00:40:49 2010
From: martin.senger at gmail.com (Martin Senger)
Date: Sun, 24 Oct 2010 03:40:49 +0300
Subject: [MOBY-dev] Help with the featureClient
In-Reply-To: <AANLkTimMY-VgvgVkNUrJb8hum+TFLtOtOSKBNJafLRX9@mail.gmail.com>
References: <AANLkTimMY-VgvgVkNUrJb8hum+TFLtOtOSKBNJafLRX9@mail.gmail.com>
Message-ID: <AANLkTinEu7JD4YmGHsgD=1ojG6EiMU5F8wjfZbZXQSbs@mail.gmail.com>

Hi,

example they have, but when I try to run it like this:  java -jar
>
FeatureClient.jar SimpleSingleCall, i get a lot of java related errors
> I can't understand (C++ programmer)


Being a C++ programmer you definitely understand how important is to have
all header files when compiling a source. In Java, it is similar: you need
to have not one but usually many jar files - and all of them must be defined
by an environment variable CLASSPATH (or directly on the java command-line).
In your case:

Exception in thread "main" java.lang.NoClassDefFoundError:
>
org/apache/axis/AxisFault
>

...tha AxisFault class is missing. But I assume that perhaps more classes
may be missing.

Sorry for only a vague answer; I guess somebody will give you more details.
Martin

-- 
Martin Senger
email: martin.senger at gmail.com,martin.senger at kaust.edu.sa
skype: martinsenger


From guilhem.sempere at cirad.fr  Mon Oct 25 07:31:06 2010
From: guilhem.sempere at cirad.fr (Guilhem Sempere)
Date: Mon, 25 Oct 2010 09:31:06 +0200
Subject: [MOBY-dev] Help with the featureClient
In-Reply-To: <AANLkTinEu7JD4YmGHsgD=1ojG6EiMU5F8wjfZbZXQSbs@mail.gmail.com>
References: <AANLkTimMY-VgvgVkNUrJb8hum+TFLtOtOSKBNJafLRX9@mail.gmail.com>
	<AANLkTinEu7JD4YmGHsgD=1ojG6EiMU5F8wjfZbZXQSbs@mail.gmail.com>
Message-ID: <4CC5323A.5080507@cirad.fr>

Maybe I can give you this little tip : http://www.findjar.com is useful 
when you know which class is missing but don't know which jar it can be 
found in (it happens a lot).



Le 24/10/2010 02:40, Martin Senger a ?crit :
> Hi,
>
> example they have, but when I try to run it like this:  java -jar
> FeatureClient.jar SimpleSingleCall, i get a lot of java related errors
>> I can't understand (C++ programmer)
>
> Being a C++ programmer you definitely understand how important is to have
> all header files when compiling a source. In Java, it is similar: you need
> to have not one but usually many jar files - and all of them must be defined
> by an environment variable CLASSPATH (or directly on the java command-line).
> In your case:
>
> Exception in thread "main" java.lang.NoClassDefFoundError:
> org/apache/axis/AxisFault
> ...tha AxisFault class is missing. But I assume that perhaps more classes
> may be missing.
>
> Sorry for only a vague answer; I guess somebody will give you more details.
> Martin
>


From edward.kawas at gmail.com  Mon Oct 25 13:22:12 2010
From: edward.kawas at gmail.com (Edward Kawas)
Date: Mon, 25 Oct 2010 06:22:12 -0700
Subject: [MOBY-dev] Help with the featureClient
In-Reply-To: <AANLkTimMY-VgvgVkNUrJb8hum+TFLtOtOSKBNJafLRX9@mail.gmail.com>
References: <AANLkTimMY-VgvgVkNUrJb8hum+TFLtOtOSKBNJafLRX9@mail.gmail.com>
Message-ID: <014d01cb7447$a3459ee0$e9d0dca0$@gmail.com>

Hi Lucas,

Look at the following page:

http://biomoby.open-bio.org/CVS_CONTENT/moby-live/Java/docs/FeatureClient.ht
ml

Unfortunately, like Martin said, there are many dependencies required for
most of the biomoby functionality and so you cannot simply run most clients
using java -jar.

Eddie

-----Original Message-----
From: moby-dev-bounces at lists.open-bio.org
[mailto:moby-dev-bounces at lists.open-bio.org] On Behalf Of Lucas Amorim
Sent: Saturday, October 23, 2010 5:32 PM
To: moby-dev at lists.open-bio.org
Subject: [MOBY-dev] Help with the featureClient

Hello,

I don't know if this is the appropriate mailing list, if not, please point
me to the right one. Or just answer me :D I am trying to use jmoby for a
datamining project I am in, but, before diving into the real task, I would
like to run the FeatureClient example they have, but when I try to run it
like this:  java -jar FeatureClient.jar SimpleSingleCall, i get a lot of
java related errors I can't understand (C++ programmer), such as:

neutron:featureClient lucas$ java -jar FeatureClient.jar SimpleSingleCall
Exception in thread "main" java.lang.NoClassDefFoundError:
org/apache/axis/AxisFault
        at
de.mpg.mpiz_koeln.pcb.featureClient.FeatureClient.<init>(FeatureClient.java:
93)
        at
de.mpg.mpiz_koeln.pcb.featureClient.test.SimpleSingleCall.main(SimpleSingleC
all.java:18)
        at
de.mpg.mpiz_koeln.pcb.featureClient.test.FeatureClientFactory.main(FeatureCl
ientFactory.java:40)
Caused by: java.lang.ClassNotFoundException: org.apache.axis.AxisFault
        at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
        at java.security.AccessController.doPrivileged(Native Method)
        at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
        at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
        at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:301)
        at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
        ... 3 more
neutron:featureClient lucas$

Can you please help me? I have tried it with different sun java versions and
also on mac (above) and on linux.

Thanks in advance!

Lucas Amorim

Instituto de Computa??o
Universidade Federal de Alagoas
Curriculum Lattes: http://lattes.cnpq.br/2470781099632240

Linux User #425305

_______________________________________________
MOBY-dev mailing list
MOBY-dev at lists.open-bio.org
http://lists.open-bio.org/mailman/listinfo/moby-dev




From amorimlb at gmail.com  Mon Oct 25 13:50:12 2010
From: amorimlb at gmail.com (Lucas Amorim)
Date: Mon, 25 Oct 2010 10:50:12 -0300
Subject: [MOBY-dev] Help with the featureClient
In-Reply-To: <014d01cb7447$a3459ee0$e9d0dca0$@gmail.com>
References: <AANLkTimMY-VgvgVkNUrJb8hum+TFLtOtOSKBNJafLRX9@mail.gmail.com>
	<014d01cb7447$a3459ee0$e9d0dca0$@gmail.com>
Message-ID: <AANLkTinydi08inUpj5_Y5ZDxFJSVFkXxRoKPx9rSVVJy@mail.gmail.com>

Yes, I think I'll have some trouble setting it up yet. Thank you!


Lucas Amorim

Instituto de Computa??o
Universidade Federal de Alagoas
Curriculum Lattes: http://lattes.cnpq.br/2470781099632240

Linux User #425305



On 25 October 2010 10:22, Edward Kawas <edward.kawas at gmail.com> wrote:
> Hi Lucas,
>
> Look at the following page:
>
> http://biomoby.open-bio.org/CVS_CONTENT/moby-live/Java/docs/FeatureClient.ht
> ml
>
> Unfortunately, like Martin said, there are many dependencies required for
> most of the biomoby functionality and so you cannot simply run most clients
> using java -jar.
>
> Eddie
>
> -----Original Message-----
> From: moby-dev-bounces at lists.open-bio.org
> [mailto:moby-dev-bounces at lists.open-bio.org] On Behalf Of Lucas Amorim
> Sent: Saturday, October 23, 2010 5:32 PM
> To: moby-dev at lists.open-bio.org
> Subject: [MOBY-dev] Help with the featureClient
>
> Hello,
>
> I don't know if this is the appropriate mailing list, if not, please point
> me to the right one. Or just answer me :D I am trying to use jmoby for a
> datamining project I am in, but, before diving into the real task, I would
> like to run the FeatureClient example they have, but when I try to run it
> like this: ?java -jar FeatureClient.jar SimpleSingleCall, i get a lot of
> java related errors I can't understand (C++ programmer), such as:
>
> neutron:featureClient lucas$ java -jar FeatureClient.jar SimpleSingleCall
> Exception in thread "main" java.lang.NoClassDefFoundError:
> org/apache/axis/AxisFault
> ? ? ? ?at
> de.mpg.mpiz_koeln.pcb.featureClient.FeatureClient.<init>(FeatureClient.java:
> 93)
> ? ? ? ?at
> de.mpg.mpiz_koeln.pcb.featureClient.test.SimpleSingleCall.main(SimpleSingleC
> all.java:18)
> ? ? ? ?at
> de.mpg.mpiz_koeln.pcb.featureClient.test.FeatureClientFactory.main(FeatureCl
> ientFactory.java:40)
> Caused by: java.lang.ClassNotFoundException: org.apache.axis.AxisFault
> ? ? ? ?at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
> ? ? ? ?at java.security.AccessController.doPrivileged(Native Method)
> ? ? ? ?at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
> ? ? ? ?at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
> ? ? ? ?at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:301)
> ? ? ? ?at java.lang.ClassLoader.loadClass(ClassLoader.java:248)
> ? ? ? ?... 3 more
> neutron:featureClient lucas$
>
> Can you please help me? I have tried it with different sun java versions and
> also on mac (above) and on linux.
>
> Thanks in advance!
>
> Lucas Amorim
>
> Instituto de Computa??o
> Universidade Federal de Alagoas
> Curriculum Lattes: http://lattes.cnpq.br/2470781099632240
>
> Linux User #425305
>
> _______________________________________________
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> MOBY-dev at lists.open-bio.org
> http://lists.open-bio.org/mailman/listinfo/moby-dev
>
>
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> http://lists.open-bio.org/mailman/listinfo/moby-dev
>



From amorimlb at gmail.com  Mon Oct 25 13:50:31 2010
From: amorimlb at gmail.com (Lucas Amorim)
Date: Mon, 25 Oct 2010 10:50:31 -0300
Subject: [MOBY-dev] Help with the featureClient
In-Reply-To: <4CC5323A.5080507@cirad.fr>
References: <AANLkTimMY-VgvgVkNUrJb8hum+TFLtOtOSKBNJafLRX9@mail.gmail.com>
	<AANLkTinEu7JD4YmGHsgD=1ojG6EiMU5F8wjfZbZXQSbs@mail.gmail.com>
	<4CC5323A.5080507@cirad.fr>
Message-ID: <AANLkTikmG1Y+y8H00=zRzt3Nxqc_tqkWw5-b386g+Jkw@mail.gmail.com>

Thank you Guilhem, I am going to look at this!!

Lucas Amorim

Instituto de Computa??o
Universidade Federal de Alagoas
Curriculum Lattes: http://lattes.cnpq.br/2470781099632240

Linux User #425305



On 25 October 2010 04:31, Guilhem Sempere <guilhem.sempere at cirad.fr> wrote:
> Maybe I can give you this little tip : http://www.findjar.com is useful when
> you know which class is missing but don't know which jar it can be found in
> (it happens a lot).
>
>
>
> Le 24/10/2010 02:40, Martin Senger a ?crit :
>>
>> Hi,
>>
>> example they have, but when I try to run it like this: ?java -jar
>> FeatureClient.jar SimpleSingleCall, i get a lot of java related errors
>>>
>>> I can't understand (C++ programmer)
>>
>> Being a C++ programmer you definitely understand how important is to have
>> all header files when compiling a source. In Java, it is similar: you need
>> to have not one but usually many jar files - and all of them must be
>> defined
>> by an environment variable CLASSPATH (or directly on the java
>> command-line).
>> In your case:
>>
>> Exception in thread "main" java.lang.NoClassDefFoundError:
>> org/apache/axis/AxisFault
>> ...tha AxisFault class is missing. But I assume that perhaps more classes
>> may be missing.
>>
>> Sorry for only a vague answer; I guess somebody will give you more
>> details.
>> Martin
>>
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> MOBY-dev at lists.open-bio.org
> http://lists.open-bio.org/mailman/listinfo/moby-dev
>