BioHPC Site Logo

CBSU Web Computing Resources
Microsoft High-Performance Computing Institute
(compute nodes status)

User: guest: | Only registered users can use the resource below. | Login | Apps Home | FAQ |

Please help us keep this site free - take a survey

APPLICATIONS
(click on a category below
to access programs)

   


MISCELLANEOUS
Subscribe
Apps Home
Clusters Status
Applications Statistics
BioHPC Home
CBSU Home
CBSU ftp server
CBSU SeqDB
CTC Windows Bioinformatics Applications
DISTRUCT
T-REX (T-RFLP manager)
CBSU Survey
Read Survey (adm)
F A Q
Contact Us

Version 1 Rev 186
(2009/07/02 16:36:55)

P-InterProScan @ BioHPC

Calculations will be carried out on the BioHPC compute cluster at CBSU. You will receive e-mail notifications when the job is submitted, when it starts, and when it is finished. Output will be available via links embedded in the notification e-mails. For more information about this program and BioHPC interface in general, please visit our Frequently Asked Questions page.

Version of InterProScan currently installed is 4.3.1 with the following databases: iprscan_DATA_16.2 and iprscan_PTHR_DATA_14.0.

It may take on average about 8-10 minutes to process one sequence on a node, what means that 10 nodes may be able to process no more than 1,400 - 1,800 sequences per day. The jobs are limited to 24hrs execution time, so if your job takes longer than that it will require restarting. You may want to split very big fasta files and submit them separately. Please contact us at biohpc@cac.cornell.edu if you need any help.

For more information about the original program please check the program's documentation at EMBL.

Please acknowledge us in all publications and presentation of work that used our resources using the following text.


Job name (please, no spaces, special characters etc., uderscore is OK)


Query  file (Required):   uploadcopypaste


Input sequences:   Output format:  

Codon Table:      (for DNA sequences only)

Minimum AA sequence length:

Applications (check all you want to run):

blastprodom coils gene3d hmmpanther hmmpir
hmmpfam hmmsmart hmmtigr fprintscan
scanregexp profilescan superfamily seg

Advanced InterProScan options

iprlookup goterms nocrc

Job options:

Run:   nodes:    Cluster:     ( Show timeout info )

NOTE: P-IPRSCAN currently uses nodes in exclusive mode so you select full nodes, not CPUs above.

 Initial timeout for one sequence (sec)
keep timeout always equal initial timeout
if "average" checked, keep timeout greater or equal to initial timeout

Regular timeout for one sequence is  times
 or  IPRSCAN execution time


   

 

 

Messages:
Cluster Athena operating normally
Cluster biosim operating normally
Cluster cbsum1 operating normally
Cluster cbsum1c1b012 operating normally
Cluster biosim2K8 under maintenance:
Cluster cbsum2k8 operating normally
Cluster cbsusrv05 operating normally
Cluster cbsum2 operating normally

All applications active