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mauede@alice.it
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870
@mauedealiceit-3511
Last seen 10.2 years ago
I am getting the following error upon execution of the following
instruction during the first loop iteration:
> for(j in 1:nrow(gene.map)) {
+ seq <- ""
+ seq = getSequence(id=gene.map[j,"ensembl_gene_id"],type="ensembl_gen
e_id",seqType="3utr",mart=hmart)
+ print(seq)
+ }
Error in getBM(c(seqType, type), filters = type, values = id, mart =
mart, :
Query ERROR: caught BioMart::Exception: non-BioMart die():
DBD::mysql::st execute failed: File
'./sequence_mart_54/hsapiens_genomic_sequence__dna_chunks__main.MYD'
not found (Errcode: 27) at /srv/biomart_server/biomart.org/biomart-
perl/lib/BioMart/Dataset/GenomicSequence/DNAAdaptor.pm line 209.
I have attached the script that triggers the error.
Can anyone help me understand the cause of such a message so that I
can try and find a work-around ?
I will emcompass the exception with a "try" instruction so that the
script won't die ....
Why am I coming across such an exception ?
Thank you very much in advance.
Maura
e tutti i telefonini TIM!
Vai su
e tutti i telefonini TIM!
Vai su
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