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Every version of each package undergoes a rigorous moderation process before it goes live that typically includes:
- Security, consistency, and quality checking
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- Human moderators who give final review and sign off
More detail at Security and Moderation.
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If you are an organization using Chocolatey, we want your experience to be fully reliable. Due to the nature of this publicly offered repository, reliability cannot be guaranteed. Packages offered here are subject to distribution rights, which means they may need to reach out further to the internet to the official locations to download files at runtime.
Fortunately, distribution rights do not apply for internal use. With any edition of Chocolatey (including the free open source edition), you can host your own packages and cache or internalize existing community packages.
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Your use of the packages on this site means you understand they are not supported or guaranteed in any way. Learn more...

Downloads:
1,007
Downloads of v 4.10.0.20161116:
694
Last Update:
16 Nov 2016
Package Maintainer(s):
Software Author(s):
- Nicolas Guex
- Alexandre Diemand
- Manuel C. Peitsch
- and Torsten Schwede
Tags:
deepview pdbviewer chemistry protein modeling
DeepView - Swiss PdbViewer
Downloads:
1,007
Downloads of v 4.10.0.20161116:
694
Maintainer(s):
Software Author(s):
- Nicolas Guex
- Alexandre Diemand
- Manuel C. Peitsch
- and Torsten Schwede
Edit Package
To edit the metadata for a package, please upload an updated version of the package.
Chocolatey's Community Package Repository currently does not allow updating package metadata on the website. This helps ensure that the package itself (and the source used to build the package) remains the one true source of package metadata.
This does require that you increment the package version.
Some Checks Have Failed or Are Not Yet Complete
1 Test Passing and 1 Failing Test
To install DeepView - Swiss PdbViewer, run the following command from the command line or from PowerShell:
To upgrade DeepView - Swiss PdbViewer, run the following command from the command line or from PowerShell:
To uninstall DeepView - Swiss PdbViewer, run the following command from the command line or from PowerShell:
NOTE: This applies to both open source and commercial editions of Chocolatey.
1. Ensure you are set for organizational deployment
Please see the organizational deployment guide
2. Get the package into your environment-
Open Source or Commercial:
- Proxy Repository - Create a proxy nuget repository on Nexus, Artifactory Pro, or a proxy Chocolatey repository on ProGet. Point your upstream to https://chocolatey.org/api/v2. Packages cache on first access automatically. Make sure your choco clients are using your proxy repository as a source and NOT the default community repository. See source command for more information.
- You can also just download the package and push it to a repository Download
-
Open Source
- Download the Package Download
- Follow manual internalization instructions
-
Package Internalizer (C4B)
- Run
choco download deepview --internalize --source=https://chocolatey.org/api/v2
(additional options) - Run
choco push --source="'http://internal/odata/repo'"
for package and dependencies - Automate package internalization
- Run
3. Enter your internal repository url
(this should look similar to https://chocolatey.org/api/v2)
4. Choose your deployment method:
choco upgrade deepview -y --source="'STEP 3 URL'" [other options]
See options you can pass to upgrade.
See best practices for scripting.
Add this to a PowerShell script or use a Batch script with tools and in places where you are calling directly to Chocolatey. If you are integrating, keep in mind enhanced exit codes.
If you do use a PowerShell script, use the following to ensure bad exit codes are shown as failures:
choco upgrade deepview -y --source="'STEP 3 URL'"
$exitCode = $LASTEXITCODE
Write-Verbose "Exit code was $exitCode"
$validExitCodes = @(0, 1605, 1614, 1641, 3010)
if ($validExitCodes -contains $exitCode) {
Exit 0
}
Exit $exitCode
- name: Ensure deepview installed
win_chocolatey:
name: deepview
state: present
version: 4.10.0.20161116
source: STEP 3 URL
See docs at https://docs.ansible.com/ansible/latest/modules/win_chocolatey_module.html.
Coming early 2020! Central Managment Reporting available now! More information...
chocolatey_package 'deepview' do
action :install
version '4.10.0.20161116'
source 'STEP 3 URL'
end
See docs at https://docs.chef.io/resource_chocolatey_package.html.
Chocolatey::Ensure-Package
(
Name: deepview,
Version: 4.10.0.20161116,
Source: STEP 3 URL
);
Requires Otter Chocolatey Extension. See docs at https://inedo.com/den/otter/chocolatey.
cChocoPackageInstaller deepview
{
Name = 'deepview'
Ensure = 'Present'
Version = '4.10.0.20161116'
Source = 'STEP 3 URL'
}
Requires cChoco DSC Resource. See docs at https://github.com/chocolatey/cChoco.
package { 'deepview':
provider => 'chocolatey',
ensure => '4.10.0.20161116',
source => 'STEP 3 URL',
}
Requires Puppet Chocolatey Provider module. See docs at https://forge.puppet.com/puppetlabs/chocolatey.
salt '*' chocolatey.install deepview version="4.10.0.20161116" source="STEP 3 URL"
See docs at https://docs.saltstack.com/en/latest/ref/modules/all/salt.modules.chocolatey.html.
5. If applicable - Chocolatey configuration/installation
See infrastructure management matrix for Chocolatey configuration elements and examples.
Private CDN cached downloads available for licensed customers. Never experience 404 breakages again! Learn more...
This package was approved by moderator flcdrg on 24 Nov 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.
$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
$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)
}
Log in or click on link to see number of positives.
- libcurl.dll (43673252f611) - ## / 54
- spdbv.exe (f85ff6d662f8) - ## / 55
- SPDBV_4.10_PC.zip (369c0c9b6e05) - ## / 56
- deepview.4.10.0.20161116.nupkg (75494079ff5a) - ## / 56
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.
Version | Downloads | Last Updated | Status |
---|---|---|---|
DeepView - Swiss PdbViewer 4.10.0.20161116 | 694 | Wednesday, November 16, 2016 | Approved |
DeepView - Swiss PdbViewer 4.10 | 313 | Wednesday, April 27, 2016 | Approved |
Copyright © 1995-2012 Nicolas Guex
This package has no dependencies.
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