537

Downloads

326

Downloads of v 4.10.0.20161116

11/16/2016

Last update

DeepView - Swiss PdbViewer

4.10.0.20161116

Private CDN cached downloads available for licensed customers. Never experience 404 breakages again! Learn more...

This package was approved by moderator flcdrg on 11/24/2016.

Swiss-PdbViewer (aka DeepView) is an application that provides a user friendly interface allowing to analyze several proteins at the same time. The proteins can be superimposed in order to deduce structural alignments and compare their active sites or any other relevant parts. Amino acid mutations, H-bonds, angles and distances between atoms are easy to obtain thanks to the intuitive graphic and menu interface.

Swiss-PdbViewer (aka DeepView) has been developped since 1994 by Nicolas Guex. Swiss-PdbViewer is tightly linked to SWISS-MODEL, an automated homology modeling server developed within the Swiss Institute of Bioinformatics (SIB) at the Structural Bioinformatics Group at the Biozentrum in Basel.

Working with these two programs greatly reduces the amount of work necessary to generate models, as it is possible to thread a protein primary sequence onto a 3D template and get an immediate feedback of how well the threaded protein will be accepted by the reference structure before submitting a request to build missing loops and refine sidechain packing.

Swiss-PdbViewer can also read electron density maps, and provides various tools to build into the density. In addition, various modeling tools are integrated and residues can be mutated.

Finally, as a special bonus, POV-Ray scenes can be generated from the current view in order to make stunning ray-traced quality images. An example can be found here.

To install DeepView - Swiss PdbViewer, run the following command from the command line or from PowerShell:

C:\> choco install deepview

To upgrade DeepView - Swiss PdbViewer, run the following command from the command line or from PowerShell:

C:\> choco upgrade deepview

Files

Hide

tools\chocolateyInstall.ps1 Show

$packageName = 'deepview'

$InstallDir = Split-path (Split-path $MyInvocation.MyCommand.Definition)

$InstallArgs = @{
   PackageName = $packageName
   Url = 'http://spdbv.vital-it.ch/download/binaries/SPDBV_4.10_PC.zip' 
   UnzipLocation = $InstallDir
   checkSum = '369C0C9B6E058BB67C86DC24D711D6A655E5E023D639FCDA13EC2FE272DE1858'
   checkSumType = 'sha256'
}
Install-ChocolateyZipPackage @InstallArgs

$target   = Join-Path $InstallDir 'SPDBV_4.10_PC\spdbv.exe'
$shortcut = Join-Path ([System.Environment]::GetFolderPath('Desktop')) 'Swiss-PdbViewer.lnk'

Install-ChocolateyShortcut -ShortcutFilePath $shortcut -TargetPath $target

tools\chocolateyUninstall.ps1 Show

$desktop = ([System.Environment]::GetFolderPath('Desktop'))
$shortcut = Join-Path $desktop 'Swiss-PdbViewer.lnk'
 
if ([System.IO.File]::Exists($shortcut)) {
    Write-Debug "Found the desktop shortcut. Deleting it..."
    [System.IO.File]::Delete($shortcut)
}

Virus Scan Results

libcurl.dll (43673252f611) - ## / 54 - Log in or click on link to see number of positives
spdbv.exe (f85ff6d662f8) - ## / 55 - Log in or click on link to see number of positives
SPDBV_4.10_PC.zip (369c0c9b6e05) - ## / 56 - Log in or click on link to see number of positives
deepview.4.10.0.20161116.nupkg (75494079ff5a) - ## / 56 - Log in or click on link to see number of positives

In cases where actual malware is found, the packages are subject to removal. Software sometimes has false positives. Moderators do not necessarily validate the safety of the underlying software, only that a package retrieves software from the official distribution point and/or validate embedded software against official distribution point (where distribution rights allow redistribution).

Chocolatey Pro provides runtime protection from possible malware.

Dependencies

This package has no dependencies.

Package Maintainer(s)

teknowledgist

Software Author(s)

Nicolas Guex
Alexandre Diemand
Manuel C. Peitsch
and Torsten Schwede

Copyright

Version History

Version	Downloads	Last updated	Status
DeepView - Swiss PdbViewer 4.10.0.20161116	326	Wednesday, November 16, 2016	approved
DeepView - Swiss PdbViewer 4.10	211	Wednesday, April 27, 2016	approved

Discussion for the DeepView - Swiss PdbViewer Package

Ground rules:

This discussion is only about DeepView - Swiss PdbViewer and the DeepView - Swiss PdbViewer package. If you have feedback for Chocolatey, please contact the google group.
This discussion will carry over multiple versions. If you have a comment about a particular version, please note that in your comments.
The maintainers of this Chocolatey Package will be notified about new comments that are posted to this Disqus thread, however, it is NOT a guarantee that you will get a response. If you do not hear back from the maintainers after posting a message below, please follow up by using the link on the left side of this page or follow this link to contact maintainers. If you still hear nothing back, please follow the package triage process.
Tell us what you love about the package or DeepView - Swiss PdbViewer, or tell us what needs improvement.
Share your experiences with the package, or extra configuration or gotchas that you've found.
If you use a url, the comment will be flagged for moderation until you've been whitelisted. Disqus moderated comments are approved on a weekly schedule if not sooner. It could take between 1-5 days for your comment to show up.