The output of this looks to be a multiple genbank entries in a single file.
Artemis therefore just opens the first contig in the genbank file.
Looking at the example you sent me, you can use EMBOSS to create a multiple
seqret RAST.gbk out.fa
and use union¹ to join the contigs together:
union -feat -osf RAST.gbk out.embl
If you load the multiple fasta sequence (out.fa) into Artemis and then read
the output from union (out.embl), File->Read An Entry, then you will see the
combined sequence. The advantage of using the multiple fasta is that Artemis
will show the separate sequences marked as fasta_record¹ features.
On 8/13/12 3:01 PM, "Sheila Patrick" <s.patr...@qub.ac.uk> wrote:
> When I try to open a genome .gbk file generated using RAST in Artemis I only
> get the first CDS to load and the following error messages-
> while reading from HW RAST.gbk: source can't have genome_md5 as a qualifier
> while reading from HW RAST.gbk: source can't have project as a qualifier
> while reading from HW RAST.gbk: source can't have genome_id as a qualifier
> 13 Aug 12:42:56 - BAM & VCF not visible
> Any advice would be welcome!
> Thanks and best wishes
> Chair Society for Anaerobic Microbiology
> http://www.clostridia.net/SAM/ <http://www.clostridia.net/SAM/>
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