[EMBOSS] Cannot open division file

[Tim Troup]

Hi,

Thanks for replying so quickly.

I have installed emboss locally under /usr/local/emboss.

I uncommented the SET emboss_tempdata line within the emboss.default  
file stored at /usr/local/emboss/share/EMBOSS so it now reads:

SET emboss_tempdata /usr/local/emboss/share/EMBOSS/test/

I restarted my machine.

Unfortunately i still get the same error messages as before.

Any further suggestions would greatly appreciated.

Thanks, Tim

On 3 Nov 2005, at 16:21, pmr at ebi.ac.uk wrote:

> Hi Tim,
>
>> I have just installed emboss and was running a few programs over the
>> test databases to ensure everything was working properly. When I run
>> seqret for example i get the following error:
>>
>> wilkie226:~ troup$ seqret
>> Reads and writes (returns) sequences
>> Input sequence(s): tsw:hba_human
>> Warning: Cannot open division file '<null>' for database 'tsw'
>> Warning: seqCdQry failed
>> Error: Unable to read sequence 'tsw:hba_human'
>
> If you look in the emboss.defaults file you will see, near the top,  
> a line
> like this:
>
>
> # SET emboss_tempdata /homes/pmr/local/share/EMBOSS/test
>
>
> You need to uncomment this, and set the directory (the /homes/pmr/ 
> local
> part) to be wherever you installed EMBOSS.
>
> If you look further down to the database definition of tsw you will  
> see
> emboss_tempdata is used ... and also for the other test databases  
> we use
> for the progam manual examples and for our QA testing .... but you  
> can of
> course use the real databases (locally indexed, or pointing to - for
> example - the EBI's SRS server).
>
>
> # swissprot (Puffer fish entries)
> # =========
>
> DB tsw [ type: P dir: $emboss_tempdata/swiss
>    method: emblcd format: swiss release: 36
>    fields: "sv des org key"
>    comment: "Swissprot native format with EMBL CD-ROM index" ]
>
>
> Hope that clears things up
>
> Peter
>
>