[Chimera-users] [EXTERNAL] Re: Need help- Why there is network connection

[Dylan Ramir]

Thank you for the explanation,
That as really insightful and helped me gain a better understanding of data
transfer, blasting, and where/how processing of certain tasks are done.
Everyone in the Chimera program is doing great work and your support is top
notch! You are all deeply appreciated.
Warmly,
Dylan Ramirez

On Tue, Apr 13, 2021, 10:35 AM Siddhartha Pradhan (Contractor) <
siddhartha.pradhan1 at gilead.com> wrote:

> Hi Elaine,
>
> Good day!!
> Thanks much for sharing the details.
> If we need more information, we shall connect you.
>
> Thanks much for your help and support in advance.
>
> Regards,
> Siddhartha
>
> -----Original Message-----
> From: Elaine Meng <meng at cgl.ucsf.edu>
> Sent: Monday, April 12, 2021 11:46 PM
> To: Siddhartha Pradhan (Contractor) <siddhartha.pradhan1 at gilead.com>
> Cc: Chimera <chimera-users at cgl.ucsf.edu>
> Subject: [EXTERNAL] Re: [Chimera-users] Need help- Why there is network
> connection
>
> Hi Siddhartha,
> This page lists the web services (and databases on the web) that may be
> accessed by Chimera, depending on which features you use and which data you
> fetch:
>
> <
> https://urldefense.com/v3/__https://www.rbvi.ucsf.edu/chimera/docs/webservices.html__;!!Dq7g1IpY!10cAOCZatF_dsWHbFDaUmYPMynZlXX2hiU9eIZtSqgcYBShnTSiNkMlknIubieloKAxwyMw$
> >
>
> Elaine
> -----
> Elaine C. Meng, Ph.D.
> UCSF Chimera(X) team
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
>
>
> > On Apr 12, 2021, at 11:00 AM, Eric Pettersen <pett at cgl.ucsf.edu> wrote:
> >
> > Hi Siddhartha,
> >       When Chimera starts up, it may contact
> https://urldefense.com/v3/__http://www.cgl.ucsf.edu__;!!Dq7g1IpY!10cAOCZatF_dsWHbFDaUmYPMynZlXX2hiU9eIZtSqgcYBShnTSiNkMlknIubieloM5McTW0$
> to determine if a newer version of Chimera is available and alert the user
> if there is one.  The frequency of checking (including never) is controlled
> by the "Update check interval" preference setting (Favorites→Preferences).
> >       There is no setting in Chimera to disable all outbound network
> connections, and doing so would significantly reduce Chimera's usefulness.
> It would not be able to fetch data from publicly available databases such
> as the PDB and UniProt, be able to convert SMILES strings to structures,
> and many other things.
> >       There are some "cloud services" (really web services) run on CGL's
> own servers that some Chimera tools are built on and that involve exporting
> user data and importing results.  They are: comparative modeling with
> MODELLER, BLASTing sequences, and realigning sequences with Clustal Omega
> or MUSCLE.  It is possible to install local versions of all these programs
> and have Chimera use the locally installed version instead of the web
> service.  As far as SMILES strings could be considered "user data", the
> strings are sent to external servers to convert into 3D structures.  There
> may be other less-used external services I'm forgetting (Chimera is a big
> program and I basing this off my memory).
> >
> > --Eric
> >
> >       Eric Pettersen
> >       UCSF Computer Graphics Lab
> >
> >
> >> On Apr 12, 2021, at 12:56 AM, Siddhartha Pradhan (Contractor) <
> siddhartha.pradhan1 at gilead.com> wrote:
> >>
> >> Hi,
> >> Before we install any  software in our system within Gilead
> organization, we do the software security assessment. During our assessment
> for " UCSF Chimera v1.15", we found below external network connection is
> being made.
> >>
> >>      • Connection to
> https://urldefense.com/v3/__http://169.230.27.29__;!!Dq7g1IpY!10cAOCZatF_dsWHbFDaUmYPMynZlXX2hiU9eIZtSqgcYBShnTSiNkMlknIubieloHTjBBII$
> on tcp/80 (
> https://urldefense.com/v3/__http://www.cgl.ucsf.edu__;!!Dq7g1IpY!10cAOCZatF_dsWHbFDaUmYPMynZlXX2hiU9eIZtSqgcYBShnTSiNkMlknIubieloM5McTW0$
> )
> >>
> >> •             Why the network connection is being made and what is the
> reason behind it?
> >> •             Is there any sorts of data transfer is being happened
> from the user system?
> >> •             Is there any settings in the application to disable the
> network connections?
> >> •             If users can use the software to export/import data. Is
> there any cloud service associated with this?
> >>
> >> It would be of great help if you can kindly give a clarity for the
> above network connection ASAP.
> >>
> >> Regards,
> >> Siddhartha
>
>
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