[EMBOSS] Questions about emboss bugfixses, rpm installations and dbxflat

[Tõnu Margus]

Hi, 

How to repair/update rpm installation?  I fetched and installed version
3.0.0.2 from http://serine.umdnj.edu/~golharam/biorpms/    

Now there is version 3.0.0.3 
I don't know are there dbxflat bugs are fixed or not?

When I tried to index 16S rRNA sequences (genbank format  v9.38 ) fetched
from RDP I got an error after ~2h indexing:

Database b+tree indexing for flat file databases
Processing file ./release9_38_unaligned.gb

   EMBOSS An error in ajindex.c at line 526:
Seek error in ajBtreeCachefetch
 

Command line was 
dbxflat -dbresource GB  -idformat Genbank -directory . -filenames *.gb 
-dbname SSU9 -release 9.38  -date 11.05.06 -fields id,acc,sv,des,key,org


Any help is welcome

Tõnu Margus




-----Original Message-----
From: emboss-bounces at lists.open-bio.org
[mailto:emboss-bounces at lists.open-bio.org] On Behalf Of ajb at ebi.ac.uk
Sent: Tuesday, May 09, 2006 10:10 AM
To: Emily Wong
Cc: emboss at lists.open-bio.org
Subject: Re: [EMBOSS] emboss on intel macs

Hello,

As long as you apply all the fixes from:

  ftp://emboss.open-bio.org/pub/EMBOSS/fixes/

then you should be OK. Check the README there for details.

HTH

Alan


> Hi,
>
> I'm trying to get emboss running on my intel macbook pro. Will there be
> a release soon that will allow this? Are there any known workarounds to
> this problem?
>
> Thanks in advance
>
> --
> Emily Wong
> Application Support Specialist (Bioinformatics)
> Computational Research Support Unit
> University of Technology, Sydney, Australia
> PO Box 123 Broadway NSW 2007
> phone:	+61 9514 1723
> http://crsu.science.uts.edu.au
>
> _______________________________________________
> EMBOSS mailing list
> EMBOSS at lists.open-bio.org
> http://lists.open-bio.org/mailman/listinfo/emboss
>


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