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Downloads:

13

Downloads of v 1.7.1:

13

Last Update:

22 Feb 2024

Published Date:

22 Feb 2024

Reviewed Date:

23 Mar 2024

Reviewer:

gravatar

Package Maintainer(s):

Software Author(s):

  • UCSF Resource for Biocomputing
  • Visualization
  • and Informatics

Tags:

chimerax chemistry molecular modeling python admin

UCSF ChimeraX

(Waiting for Maintainer to take corrective action)

  • 1
  • 2
  • 3

1.7.1 | Updated: 22 Feb 2024

Downloads:

13

Downloads of v 1.7.1:

13

Published:

22 Feb 2024

Reviewed:

23 Mar 2024

Reviewer:

gravatar

Maintainer(s):

Software Author(s):

  • UCSF Resource for Biocomputing
  • Visualization
  • and Informatics

UCSF ChimeraX 1.7.1

(Waiting for Maintainer to take corrective action)
  • 1
  • 2
  • 3

Some Checks Have Failed or Are Not Yet Complete

Not All Tests Have Passed


Validation Testing Passed


Verification Testing Passed

Details

Scan Testing Resulted in Flagged as a Note:

At least one file within this package has greater than 0 detections, but less than 5

Details
IMPORTANT

This version is in moderation and has not yet been approved. This means it doesn't show up under normal search.

  • Until approved, you should consider this package version unsafe - it could do very bad things to your system (it probably doesn't but you have been warned, that's why we have moderation).
  • This package version can change wildly over the course of moderation until it is approved. If you install it and it later has changes to this version, you will be out of sync with any changes that have been made to the package. Until approved, you should consider that this package version doesn't even exist.
  • You cannot install this package under normal scenarios. See How to install package version under moderation for more information.
  • There are also no guarantees that it will be approved.
WARNING

There are versions of this package awaiting moderation (possibly just this one). See the Version History section below.

ITS-Unibas (maintainer) on 22 Feb 2024 12:54:23 +00:00:

User 'ITS-Unibas' (maintainer) submitted package.

chocolatey-ops (reviewer) on 22 Feb 2024 13:26:03 +00:00:

chimerax has passed automated validation. It may have or may still fail other checks like testing (verification).
NOTE: No required changes that the validator checks have been flagged! It is appreciated if you fix other items, but only Requirements will hold up a package version from approval. A human review could still turn up issues a computer may not easily find.

Guidelines

Guidelines are strong suggestions that improve the quality of a package version. These are considered something to fix for next time to increase the quality of the package. Over time Guidelines can become Requirements. A package version can be approved without addressing Guideline comments but will reduce the quality of the package.

  • The package script downloads a file outside of using built-in helpers. Scripts should use the built-in helpers to download files. More...

chocolatey-ops (reviewer) on 22 Feb 2024 13:41:16 +00:00:

chimerax has passed automated package testing (verification). The next step in the process is package scanning.
Please visit https://gist.github.com/choco-bot/3dda1b42e5af7b4999de74ac99b8ea40 for details.
This is an FYI only. There is no action you need to take.

chocolatey-ops (reviewer) on 22 Feb 2024 14:15:47 +00:00:

chimerax has been flagged as part of automated virus scanning.
Package virus scanning found that at least 1 file within, or downloaded by, the package has between 1 and 5 VirusTotal detections associated with it.
This is not enough detections to prevent the approval of this package version.

ITS-Unibas (maintainer) on 11 Mar 2024 15:35:03 +00:00:

What can be done from our point of view (package-maintainer) that the new version of chimeraX will be approved?

TheCakeIsNaOH (reviewer) on 23 Mar 2024 03:55:54 +00:00:

Hi,

> What can be done from our point of view (package-maintainer) that the new version of chimeraX will be approved?

Packages that are in a "ready for review" status and packages where the maintainer has updated/responded are put in a queue for human moderation. The moderators are primarily volunteers, so sometimes the packages for review can pile up somewhat.

You can go here https://ch0.co/moderation to see the current queue.

Regards, TheCakeIsNaOH

chocolatey-ops (reviewer) on 22 Apr 2024 13:25:05 +00:00:

We've found chimerax v1.7.1 in a submitted status and waiting for your next actions. It has had no updates for 20 or more days since a reviewer has asked for corrections. Please note that if there is no response or fix of the package within 15 days of this message, this package version will automatically be closed (rejected) due to being stale.

Take action:

  • Log in to the site and respond to the review comments.
  • Resubmit fixes for this version.
  • If the package version is failing automated checks, you can self-reject the package.

If your package is failing automated testing, you can use the chocolatey test environment to manually run the verification and determine what may need to be fixed.

Note: We don't like to see packages automatically rejected. It doesn't mean that we don't value your contributions, just that we can not continue to hold packages versions in a waiting status that have possibly been abandoned. If you don't believe you will be able to fix up this version of the package within 15 days, we strongly urge you to log in to the site and respond to the review comments until you are able to.

Description

ChimeraX provides several advantages relative to Chimera, and the list will continue to grow. A small sample is given below. See also: feature highlights, example images, missing features

High-performance rendering of large structures and data

Fast mmCIF reader and ability to write mmCIF

Fast and robust solvent-excluded surfaces

Interactive ambient-occlusion lighting

Curved-cylinder “tube” helices integrated with cartoons


tools\chocolateyInstall.ps1
$ErrorActionPreference = 'Stop'

$AppVersion = '1.7.1'
$AppVersionShort = $AppVersion -replace '.\d$'

$BaseURL = 'https://www.cgl.ucsf.edu'

# Discovering download link
$url = "$BaseURL/chimerax/cgi-bin/secure/chimerax-get.py"
$PostParams = @{
   choice='Accept'
   file="$AppVersionShort/windows/ChimeraX-$AppVersion.exe"
}
$DownloadPage = Invoke-WebRequest $url -method Post -Body $postparams -UseBasicParsing

$URLstub = ($DownloadPage.content.split() | Where-Object {$_ -match 'href='}) -replace '.*href="(.*)".*','$1'

Write-Host 'You are establishing a license agreement as defined here:' -ForegroundColor Cyan
Write-Host 'http://www.cgl.ucsf.edu/chimerax/license.html' -ForegroundColor Cyan

$packageArgs = @{
   packageName    = $env:ChocolateyPackageName
   fileType       = 'EXE'
   url64bit       = $BaseURL + $URLstub
   softwareName   = 'UCSF ChimeraX*' 
   checksum64     = 'cc9b4af4e1a04fc647d082e04f60c111c7aeed12ebcf00d146bbf970bfcbd3d7'
   checksumType64 = 'sha256'
   silentArgs     = '/VERYSILENT /SUPPRESSMSGBOXES /NORESTART /SP-'
   validExitCodes = @(0)
}

Install-ChocolateyPackage @packageArgs

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.

Add to Builder Version Downloads Last Updated Status
UCSF ChimeraX 1.7.1 13 Thursday, February 22, 2024
Waiting for Maintainer
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This package has no dependencies.

Discussion for the UCSF ChimeraX Package

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  • This discussion is only about UCSF ChimeraX and the UCSF ChimeraX 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.
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  • Tell us what you love about the package or UCSF ChimeraX, or tell us what needs improvement.
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