VIKING news

Maintenance on the 24.04.

Fri, 19 Apr 2024 12:04:41 +0000

Next Wednesday, on the 24.04., we will perform maintenance on the viking servers from 12:00 to 15:00. Viking will be unavailable during this time. We apologize for the possible inconvenience.

Maintenance on the 25.03.

Fri, 22 Mar 2024 08:59:26 +0000

Next Monday, on the 25.03., we will perform maintenance on the viking servers from 10:00 to 15:00. Viking will be unavailable during this time. We apologize for the possible inconvenience. EDIT: The maintenance already starts at 10:00

System update and new features

Bacic — Wed, 13 Sep 2023 10:17:52 +0000

New tools and features have been added to VIKING, including a system update. These include (among others) new MD potentials, PSFGen update, Automated Ligand Searcher enhancement etc.

Due to these updates, older MD tasks might not be able to run properly, if restarted or cloned. If you wish to re-run them, they will need to be set up from scratch.

VIKING now supports HLRN

Teusch — Mon, 26 Jul 2021 13:02:39 +0000

VIKING now supports the HLRN as an external ressource. HLRN is one of the largest HPC ressources (68th place in the TOP500) and allows many simulations to be run simultaneously. To use it, you need to have an account on HLRN.

New internal computational resource

Vasili Korol (VK) — Wed, 02 Dec 2020 12:56:36 +0000

The VIKING infrastructure has been expanded with a new internal computational resource, which will be used for testing and development. The new cluster, maintained by the QuantBio group at the Carl von Ossietzky University of Oldenburg, will offer the group members and the development team the possibility to test new features in VIKING more efficiently and independent on external supercomputers. Full access to the resource also provides opportunities for experimenting freely with modern hardware and supercomputer software.

The VIKING logo is copyright of PerpeVit ApS

Support for ABI 3730xl in ProfileIt

Vasili Korol (VK) — Tue, 01 Dec 2020 15:28:56 +0000

The latest update adds support for Applied Biosystems 3730xl files to ProfileIt. The new functionality is available for those users who have purchased the license for ProfileIt from COBO Technologies.

The ProfileIt logo is copyright of COBO Technologies.

Maintenance on December, 1st

Vasili Korol (VK) — Mon, 30 Nov 2020 11:18:08 +0000

Tomorrow, on Tuesday, 1st of December, there will be maintenance works starting at around 14:30 and until around 17:00. VIKING will be unavailable during this time. We apologize for the possible inconvenience.

ProfileIt in a new article

Vasili Korol (VK) — Mon, 16 Nov 2020 14:04:14 +0000

A recent article in Nucleic Acids Research mentions ProfileIt™ as an application of the INDEL Detection by Amplicon Analysis (IDAA) method. IDAA is a fast, accurate and cost-efficient INDEL detection technique which is used for practical genome editing.

ProfileIt, a tool used as part of the IDAA analysis, can be employed for analyzing data produced by genetic analyzer devices. It is implemented fully as part of the VIKING platform and is owned by COBO Technologies ApS.

The ProfileIt logo is copyright of COBO Technologies.

Unstable connection to Abacus 2.0

Vasili Korol (VK) — Tue, 01 Sep 2020 07:58:03 +0000

We are experiencing network problems with accessing the Abacus 2.0 supercomputer in VIKING. The resource may be currently inaccessible or the connection may be unstable. We are working on the problem together with the Abacus 2.0 IT service.

New tool to construct polypeptide chains.

Fabian Schuhmann — Mon, 31 Aug 2020 11:46:15 +0000

A new tool named "Pep McConst" has been added to VIKING. The new task is designed for constructing polypeptide chains, allowing appending existing protein structures or just constructing a chain by itself.

In the nature of VIKING, Pep McConst is designed to achieve results without the need to indulge in extensive coding. One just needs to supply a standard amino acid sequence and, possibly, a structure file in a commonly used format (PDB/XYZ), and Pep McConst will start working. It is also possible to specify the secondary structure, a chain and the number of runs.

PepMcConst also allows choosing between the Monte-Carlo or the Las-Vegas algorithms, depending on the computational limitations.