[EMBOSS] HELP! fdnapars fails with undefined symbol error - ajSeqdbInit

[Marvin Stodolsky]

There is a:
http://packages.ubuntu.com/maverick/libnucleus6

$ sudo apt-get update
$ sudo apt-get libnucleus6

should do all necessary.

MarvS

On Thu, Mar 10, 2011 at 1:27 PM, Henrikki Almusa
<henrikki.almusa at helsinki.fi> wrote:
> On 2011-03-10 17:26, Wolfgang Rumpf wrote:
>>
>> So as I understand it my options are:
>>
>> 1.  Boot with an older kernel - probably the latest one from 10.4, if it
>> works with 10.10;
>> 2.  Recompile EMBOSS myself;
>> 3.  Download and install the 11.04 (unreleased) Emboss/Embassy installs;
>> 4.  Wait for 11.04 to come out
>>
>> Of all of these the "simplest" (other than just waiting) would probably be
>> to try to boot with an older kernel - I don't want to bring the rest of the
>> EMBOSS system down for an extended time period, perhaps very extended if the
>> compilation/install doesn't go as planned.
>>
>> Sound about right?
>
> The error message complains about missing library file libnucleus.so.6 which
> was probably removed in update as there was no dependency on it (within the
> package lists). So here's a way to fix it:
>  - go to packages.ubuntu.com and search for a package with file called
> libnucleus.so.6
>  - get result which tells you that it is in package libnucleus6
>  - install that named package with your favourite tool (for example apt-get)
>
>
>> Wolfgang
>>
>> Dr. Wolfgang Rumpf
>> Product Specialist, Rescentris Inc.
>> --------------------------------------------------------
>> wolfgang.rumpf at rescentris.com
>>
>> Mobile - (614) 638-6797
>> Skype - wolfgang.rumpf
>>
>>
>>
>>
>> On Mar 9, 2011, at 8:37 PM, Charles Plessy wrote:
>>
>>> Le Wed, Mar 09, 2011 at 07:48:41PM -0500, Marvin Stodolsky a écrit :
>>>>
>>>> RE:  undefined symbol: ajSeqdbInit
>>>> While not an expert at all, on Emboss code,
>>>> this type of error is typically due to (Emboss) binaries Not Yet
>>>> being compiled with the newer linux-header resources.  Pending that
>>>> compilation by the Emboss maintenance team, if you run the compile
>>>> from Emboss source code on your own  Ubuntu 10.10 system, all will
>>>> likely be  OK.
>>>
>>> Dear Wolfgang,
>>>
>>> you can also give a try to the emboss and embassy-phylip from 11.04
>>> Ubuntu
>>> distribution. If you can install them on 10.10, they should work well,
>>> and
>>> they are up to date.
>>>
>>> http://packages.ubuntu.com/natty/emboss
>>> http://packages.ubuntu.com/natty/embassy-phylip
>>>
>>> Have a nice day,
>>>
>>> --
>>> Charles Plessy
>>> Debian Med packaging team
>>> http://www.debian.org/devel/debian-med
>>> Tsurumi, Kanagawa, Japan
>>> _______________________________________________
>>> EMBOSS mailing list
>>> EMBOSS at lists.open-bio.org
>>> http://lists.open-bio.org/mailman/listinfo/emboss
>>
>>
>> _______________________________________________
>> EMBOSS mailing list
>> EMBOSS at lists.open-bio.org
>> http://lists.open-bio.org/mailman/listinfo/emboss
>>
>
>
> --
> Henrikki Almusa
>
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