Jolyon Holdstock | 8 May 17:34 2014

remoteblast

Hi,

I have a script that runs blast jobs against the databases at the NCBI.

I use the  Bio::Tools::Run::RemoteBlast module for the blasting.

It was working but is not now.

The following is an example of the response I now get:

--------------------- WARNING ---------------------
MSG: req was POST http://www.ncbi.nlm.nih.gov/blast/Blast.cgi
User-Agent: bioperl-Bio_Tools_Run_RemoteBlast/1.006901
Content-Length: 788
Content-Type: application/x-www-form-urlencoded

DATABASE=nr&QUERY=%3EHCV-54_contig_15+%0D%0ATCATAACAACCTTTTATGGTAAATACTAACAGCATGCCCATTTTACATGTGAGGAAACTGAGGCTTAGATCAGGTAAGTAGCTTATTCAGTGTTGCTCAAGTAAATACGTTTTAAGAACCCTCAGCCTCGCTCTCCTCTTCCTCAGGGCACACTTTTTTTTTTTTCCTTCCTACTGTGTGAGCTGTGGTGGGAATGTTAATCGGGATGCCTGTCTTTCCCTAGTCTTGGGGTCAGGCAAGTGCTCAAAGTCAGGATAAGCAAACTCTCCTTCCTGGGACTCTGAGGAAAGGCTCATTGATGGGGGAAATGGAGGGAGTGGATTCACTCCAGCTCAGCTCCGGGACAAGATGGCCATGGAGCTCCTGCTACATAAATGTCAGGGACTATCCTGGCTCCATCCTGCCTGCTTCCCTAGCTGCTGCCCAGCACTCACCTTATAAACATCCTTCGAGCTGGAGTTAGCCCGAATTGGTTTCTGTCCCTTGTGACCACTGAGCCCTGGCTGACACAATCACAGGCTGGCGAGCAGAGGTACCAGAC&COMPOSITION_BASED_STATISTICS=off&EXPECT=1e-10&SERVICE=plain&ALIGNMENTS=50&FORMAT_OBJECT=Alignment&CMD=Put&FILTER=L&HITLIST_SIZE=5&DESCRIPTIONS=100&FORMAT_TYPE=Text&ALIGNMENT_VIEW=Pairwise&PROGRAM=blastn

<html>
<head><title>An Error Occurred</title></head>
<body>
<h1>An Error Occurred</h1>
<p>301 Moved Permanently</p>
</body>
</html>

---------------------------------------------------

Can anyone suggest a fix?

Thanks,

Jolyon

Dr. Jolyon Holdstock,
Oxford Gene Technology
Begbroke Science Park
Begbroke Hill, Woodstock Road
Begbroke, Oxfordshire
OX5 1PF, UK

T: +44 (0)1865 856852
F: +44 (0)1865 848684
E: jolyon.holdstock <at> ogt.com<mailto:jolyon.holdstock <at> ogt.com>
W: www.ogt.com

[cid:image001.png <at> 01CB24EA.6FBDAD80]

Oxford Gene Technology - The Molecular Genetics Company(tm)

  *   CytoSure(tm) arrays<http://www.ogt.com/clinical_genetics> - Class-leading products and services
offering the complete array solution for clinical genetics research
  *   Cytocell(r) FISH probes<http://www.cytocell.com> - High-quality products for the detection of gene
rearrangements related to inherited genetic disease and cancer
  *   Genefficiency(tm) genomic services<http://www.ogt.com/genomic_services>  - A tailored microarray
and sequencing service enabling high-throughput, high-quality genomic studies for a variety of applications

Oxford Gene Technology (Operations) Ltd.  Registered in England No: 03845432 Begbroke Science Park,
Begbroke Hill, Woodstock Road, Begbroke, Oxfordshire, OX5 1PF, UK
Confidentiality Notice: The contents of this email from the Oxford Gene Technology Group of Companies are
confidential and intended solely for the person to whom it is addressed.  It may contain privileged and
confidential information.  If you are not the intended recipient you must not read, copy, distribute,
discuss or take any action in reliance on it. If you have received this email in error please advise the
sender so that we can arrange for proper delivery.  Then please delete the message from your inbox.  Thank you.
CytoSure(tm) and Genefficiency(tm) NGS browser: For Research Use Only; Not for Use in Diagnostic Procedures<http://www.ogt.co.uk/terms_conditions/trademarks_and_disclaimers>

_______________________________________________
Bioperl-l mailing list
Bioperl-l <at> lists.open-bio.org
http://lists.open-bio.org/mailman/listinfo/bioperl-l

Gmane