From markw at illuminae.com  Tue Nov 23 16:01:39 2010
From: markw at illuminae.com (Mark)
Date: Tue, 23 Nov 2010 13:01:39 -0800
Subject: [MOBY-l] Fwd: JMoby checkout
In-Reply-To: <fbe9d22811346.4cebb662@mpiz-koeln.mpg.de>
References: <fbe9d22811346.4cebb662@mpiz-koeln.mpg.de>
Message-ID: <op.vmm501pqdeqt07@mainhome>


Any Java developers know what's happening?

M


------- Forwarded message -------
From: "Song Haili" <haili at mpipz.mpg.de>
To: markw at illuminae.com
Cc:
Subject: JMoby checkout
Date: Tue, 23 Nov 2010 12:41:06 -0800

Dear Mark,

I found your email address from the biomoby website and I think you might  
be possible to help me solve my problem with JMoby checkout. If you are  
not responsible for this problem, I am very sorry for the interruption and  
I sincerely ask you to direct me to the person who responsible for this if  
you know anybody.

OK, my problem is the error message "can't create temporary directory  
/tmp/cvs-serv#(# is some random number)" appears when I checked out JMoby  
 from eclipse. And it is not possible to access cvs.open-bio.org using web  
browser. I guess those problems are from the server.

Could you please kindly tell me what is the problem indeed and how to  
solve it?

Looking forward to hear from you.

Thanks a lot in advance.

Best regards,

Haili Song

No virus found in this message.
  Checked by AVG - www.avg.com
  Version: 10.0.1153 / Virus Database: 424/3274 - Release Date: 11/23/10
--Boundary_(ID_07bPXnEnXhyOrnAjtm4Jfg)--

From martin.senger at gmail.com  Tue Nov 23 16:42:27 2010
From: martin.senger at gmail.com (Martin Senger)
Date: Wed, 24 Nov 2010 00:42:27 +0300
Subject: [MOBY-l] Fwd: JMoby checkout
In-Reply-To: <op.vmm501pqdeqt07@mainhome>
References: <fbe9d22811346.4cebb662@mpiz-koeln.mpg.de>
	<op.vmm501pqdeqt07@mainhome>
Message-ID: <AANLkTikfcRxw7GZPfLZPM-ifAubdaXxQ6hpkjbLJq2wE@mail.gmail.com>

> Any Java developers know what's happening?
>

I think that this is an re-occurring problem - and it was always Chris who
fixed it. I am sending this to him with a hope that he can fix it again.
thanks, Chris.

Martin



>
> M
>
>
> ------- Forwarded message -------
> From: "Song Haili" <haili at mpipz.mpg.de>
> To: markw at illuminae.com
> Cc:
> Subject: JMoby checkout
> Date: Tue, 23 Nov 2010 12:41:06 -0800
>
> Dear Mark,
>
> I found your email address from the biomoby website and I think you might
> be possible to help me solve my problem with JMoby checkout. If you are not
> responsible for this problem, I am very sorry for the interruption and I
> sincerely ask you to direct me to the person who responsible for this if you
> know anybody.
>
> OK, my problem is the error message "can't create temporary directory
> /tmp/cvs-serv#(# is some random number)" appears when I checked out JMoby
> from eclipse. And it is not possible to access cvs.open-bio.org using web
> browser. I guess those problems are from the server.
>
> Could you please kindly tell me what is the problem indeed and how to solve
> it?
>
> Looking forward to hear from you.
>
> Thanks a lot in advance.
>
> Best regards,
>
> Haili Song
>
> No virus found in this message.
>  Checked by AVG - www.avg.com
>  Version: 10.0.1153 / Virus Database: 424/3274 - Release Date: 11/23/10
> --Boundary_(ID_07bPXnEnXhyOrnAjtm4Jfg)--
> _______________________________________________
> moby-l mailing list
> moby-l at lists.open-bio.org
> http://lists.open-bio.org/mailman/listinfo/moby-l
>
>


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

From dag at sonsorol.org  Tue Nov 23 18:05:55 2010
From: dag at sonsorol.org (Chris Dagdigian)
Date: Tue, 23 Nov 2010 18:05:55 -0500
Subject: [MOBY-l] Fwd: JMoby checkout
In-Reply-To: <AANLkTikfcRxw7GZPfLZPM-ifAubdaXxQ6hpkjbLJq2wE@mail.gmail.com>
References: <fbe9d22811346.4cebb662@mpiz-koeln.mpg.de>	<op.vmm501pqdeqt07@mainhome>
	<AANLkTikfcRxw7GZPfLZPM-ifAubdaXxQ6hpkjbLJq2wE@mail.gmail.com>
Message-ID: <4CEC48D3.7080308@sonsorol.org>


code.open-bio.org trashed itself again, doing things I've never seen in 
a virtual server environment.  This time filesystem corruption seems to 
have wiped out the /var/ filesystem.

Don't have time to do another hand-rebuild of this VM. Either this VM 
has really bad luck or some part of our anon code access (possibly the 
CGIs that offer browser access to CVS and SVN repos) is to blame.

I'm making some snapshot clones and backups that will make life easier 
when I do have time to rebuild the VM and after that I'll do the 
barebones stuff inside /var/ required to get the server online.

{ time passes }

Ok server is up now

-Chris




Martin Senger wrote:
>
>     Any Java developers know what's happening?
>
>
> I think that this is an re-occurring problem - and it was always Chris
> who fixed it. I am sending this to him with a hope that he can fix it
> again. thanks, Chris.
>
> Martin
>
>
>     M
>
>
>     ------- Forwarded message -------
>     From: "Song Haili" <haili at mpipz.mpg.de <mailto:haili at mpipz.mpg.de>>
>     To: markw at illuminae.com <mailto:markw at illuminae.com>
>     Cc:
>     Subject: JMoby checkout
>     Date: Tue, 23 Nov 2010 12:41:06 -0800
>
>     Dear Mark,
>
>     I found your email address from the biomoby website and I think you
>     might be possible to help me solve my problem with JMoby checkout.
>     If you are not responsible for this problem, I am very sorry for the
>     interruption and I sincerely ask you to direct me to the person who
>     responsible for this if you know anybody.
>
>     OK, my problem is the error message "can't create temporary
>     directory /tmp/cvs-serv#(# is some random number)" appears when I
>     checked out JMoby from eclipse. And it is not possible to access
>     cvs.open-bio.org <http://cvs.open-bio.org> using web browser. I
>     guess those problems are from the server.
>
>     Could you please kindly tell me what is the problem indeed and how
>     to solve it?
>
>     Looking forward to hear from you.
>
>     Thanks a lot in advance.
>
>     Best regards,
>
>     Haili Song
>
>     No virus found in this message.
>       Checked by AVG - www.avg.com <http://www.avg.com>
>       Version: 10.0.1153 / Virus Database: 424/3274 - Release Date: 11/23/10
>     --Boundary_(ID_07bPXnEnXhyOrnAjtm4Jfg)--
>     _______________________________________________
>     moby-l mailing list
>     moby-l at lists.open-bio.org <mailto:moby-l at lists.open-bio.org>
>     http://lists.open-bio.org/mailman/listinfo/moby-l
>
>
>
>
> --
> Martin Senger
> email: martin.senger at gmail.com
> <mailto:martin.senger at gmail.com>,martin.senger at kaust.edu.sa
> <mailto:martin.senger at kaust.edu.sa>
> skype: martinsenger

From markw at illuminae.com  Tue Nov 23 18:07:38 2010
From: markw at illuminae.com (Mark)
Date: Tue, 23 Nov 2010 15:07:38 -0800
Subject: [MOBY-l] Fwd: JMoby checkout
In-Reply-To: <4CEC48D3.7080308@sonsorol.org>
References: <fbe9d22811346.4cebb662@mpiz-koeln.mpg.de>
	<op.vmm501pqdeqt07@mainhome>
	<AANLkTikfcRxw7GZPfLZPM-ifAubdaXxQ6hpkjbLJq2wE@mail.gmail.com>
	<4CEC48D3.7080308@sonsorol.org>
Message-ID: <op.vmnbu0pddeqt07@mainhome>

Thanks for all your efforts, Chris!  Greatly appreciated, and I'm sorry  
that it's causing you so many headaches!!

Mark



On Tue, 23 Nov 2010 15:05:55 -0800, Chris Dagdigian <dag at sonsorol.org>  
wrote:

>
> code.open-bio.org trashed itself again, doing things I've never seen in  
> a virtual server environment.  This time filesystem corruption seems to  
> have wiped out the /var/ filesystem.
>
> Don't have time to do another hand-rebuild of this VM. Either this VM  
> has really bad luck or some part of our anon code access (possibly the  
> CGIs that offer browser access to CVS and SVN repos) is to blame.
>
> I'm making some snapshot clones and backups that will make life easier  
> when I do have time to rebuild the VM and after that I'll do the  
> barebones stuff inside /var/ required to get the server online.
>
> { time passes }
>
> Ok server is up now
>
> -Chris
>
>
>
>
> Martin Senger wrote:
>>
>>     Any Java developers know what's happening?
>>
>>
>> I think that this is an re-occurring problem - and it was always Chris
>> who fixed it. I am sending this to him with a hope that he can fix it
>> again. thanks, Chris.
>>
>> Martin
>>
>>
>>     M
>>
>>
>>     ------- Forwarded message -------
>>     From: "Song Haili" <haili at mpipz.mpg.de <mailto:haili at mpipz.mpg.de>>
>>     To: markw at illuminae.com <mailto:markw at illuminae.com>
>>     Cc:
>>     Subject: JMoby checkout
>>     Date: Tue, 23 Nov 2010 12:41:06 -0800
>>
>>     Dear Mark,
>>
>>     I found your email address from the biomoby website and I think you
>>     might be possible to help me solve my problem with JMoby checkout.
>>     If you are not responsible for this problem, I am very sorry for the
>>     interruption and I sincerely ask you to direct me to the person who
>>     responsible for this if you know anybody.
>>
>>     OK, my problem is the error message "can't create temporary
>>     directory /tmp/cvs-serv#(# is some random number)" appears when I
>>     checked out JMoby from eclipse. And it is not possible to access
>>     cvs.open-bio.org <http://cvs.open-bio.org> using web browser. I
>>     guess those problems are from the server.
>>
>>     Could you please kindly tell me what is the problem indeed and how
>>     to solve it?
>>
>>     Looking forward to hear from you.
>>
>>     Thanks a lot in advance.
>>
>>     Best regards,
>>
>>     Haili Song
>>
>>     No virus found in this message.
>>       Checked by AVG - www.avg.com <http://www.avg.com>
>>       Version: 10.0.1153 / Virus Database: 424/3274 - Release Date:  
>> 11/23/10
>>     --Boundary_(ID_07bPXnEnXhyOrnAjtm4Jfg)--
>>     _______________________________________________
>>     moby-l mailing list
>>     moby-l at lists.open-bio.org <mailto:moby-l at lists.open-bio.org>
>>     http://lists.open-bio.org/mailman/listinfo/moby-l
>>
>>
>>
>>
>> --
>> Martin Senger
>> email: martin.senger at gmail.com
>> <mailto:martin.senger at gmail.com>,martin.senger at kaust.edu.sa
>> <mailto:martin.senger at kaust.edu.sa>
>> skype: martinsenger
> _______________________________________________
> moby-l mailing list
> moby-l at lists.open-bio.org
> http://lists.open-bio.org/mailman/listinfo/moby-l
>
>
> -----
> No virus found in this message.
> Checked by AVG - www.avg.com
> Version: 10.0.1153 / Virus Database: 424/3274 - Release Date: 11/23/10

From martin.senger at gmail.com  Tue Nov 23 18:08:09 2010
From: martin.senger at gmail.com (Martin Senger)
Date: Wed, 24 Nov 2010 02:08:09 +0300
Subject: [MOBY-l] Fwd: JMoby checkout
In-Reply-To: <4CEC48D3.7080308@sonsorol.org>
References: <fbe9d22811346.4cebb662@mpiz-koeln.mpg.de>
	<op.vmm501pqdeqt07@mainhome>
	<AANLkTikfcRxw7GZPfLZPM-ifAubdaXxQ6hpkjbLJq2wE@mail.gmail.com>
	<4CEC48D3.7080308@sonsorol.org>
Message-ID: <AANLkTin2PQ_7s=gtYThBc5=8pysgZiYpXkhvnNRCH_Mu@mail.gmail.com>

Many thanks, Mr. Wizard!
Martin

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

From martin.senger at gmail.com  Wed Nov 24 14:04:12 2010
From: martin.senger at gmail.com (Martin Senger)
Date: Wed, 24 Nov 2010 22:04:12 +0300
Subject: [MOBY-l] Fwd: JMoby checkout
In-Reply-To: <fbfabd05129fa.4cecf006@mpiz-koeln.mpg.de>
References: <fbe9d22811346.4cebb662@mpiz-koeln.mpg.de>
	<op.vmm501pqdeqt07@mainhome>
	<AANLkTikfcRxw7GZPfLZPM-ifAubdaXxQ6hpkjbLJq2wE@mail.gmail.com>
	<4CEC48D3.7080308@sonsorol.org>
	<fbfabd05129fa.4cecf006@mpiz-koeln.mpg.de>
Message-ID: <AANLkTimcF_eNxVibA4TKXafTOZcOPoSeqQZhaYSSapFV@mail.gmail.com>

> However, I got another problem. When I install it using ant, it stuck at
> some stage. It is still downloading over a night! Does any of you got any
> idea what's going on?
>

If it is stuck I suggest to interrupt and call the same ant's task again and
again. It should get all libraries at the end.

Martin

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

From hailissong at googlemail.com  Wed Nov 24 14:20:25 2010
From: hailissong at googlemail.com (haili)
Date: Wed, 24 Nov 2010 11:20:25 -0800
Subject: [MOBY-l] Fwd: JMoby checkout
In-Reply-To: <AANLkTimcF_eNxVibA4TKXafTOZcOPoSeqQZhaYSSapFV@mail.gmail.com>
References: <fbe9d22811346.4cebb662@mpiz-koeln.mpg.de>
	<op.vmm501pqdeqt07@mainhome>
	<AANLkTikfcRxw7GZPfLZPM-ifAubdaXxQ6hpkjbLJq2wE@mail.gmail.com>
	<4CEC48D3.7080308@sonsorol.org>
	<fbfabd05129fa.4cecf006@mpiz-koeln.mpg.de>
	<AANLkTimcF_eNxVibA4TKXafTOZcOPoSeqQZhaYSSapFV@mail.gmail.com>
Message-ID: <46004BDC-2545-4B0A-9E3B-B8BFC70522A7@gmail.com>

Thanks Martin, I will try as you suggested.

Haili
On Nov 24, 2010, at 11:04 AM, Martin Senger wrote:

> 
> However, I got another problem. When I install it using ant, it stuck at some stage. It is still downloading over a night! Does any of you got any idea what's going on?
> 
> If it is stuck I suggest to interrupt and call the same ant's task again and again. It should get all libraries at the end.
>  
> Martin
> 
> -- 
> Martin Senger
> email: martin.senger at gmail.com,martin.senger at kaust.edu.sa
> skype: martinsenger