On 15/08/2012 17:57, Daniel Rozenbaum wrote:
Dear list,
(Peter, many thanks for your prompt reply to my previous inquiry!)
We need to deal with extensive databases in Intelligenetics format with
multiple lines in annotation of each record. It appears however that EMBOSS
concatenates all annotation lines into a single line when building its internal
representation of the sequence description:
% cat /tmp/IGSEQ.ig
; Annotation line 1
; Annotation line 2
; Annotation line 3
IGSEQ
ACGCATCGCATCAGACTACGC1
% seqret /tmp/IGSEQ.ig -osformat2 ig -auto -osname IGSEQ.emboss_ig2ig
-osdirectory /tmp
% cat /tmp/IGSEQ.emboss_ig2ig.ig
;Annotation line 1 Annotation line 2 Annotation line 3, 21 bases
IGSEQ
ACGCATCGCATCAGACTACGC1
Are there any plans to support multi-line annotation in this format?
Interesting thought. We will take a look. It will need some care to
maintain compatibility with other formats that have single (FASTA) or
multiple (swissprot) descriptions.
Which package is using this IG format?
regards,
Peter Rice
EMBOSS Team
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