Dear Daniel,
Thank for your reply.
Yes, wget works, using wget only I have downloaded the patches manually in
the folder as suggested by Jason here
http://archive.ambermd.org/201208/0427.html
But then I could not figure out myself which lines in the patch_amber.py
script to comment-out?
As far as I'm able to understand proxy setting are fine (I'm able to access
my email and use wget).
Please suggest.
On Wed, Jan 30, 2013 at 10:01 AM, Daniel Sindhikara <sindhikara.gmail.com>wrote:
> Does wget or curl work for you in the terminal? If not you should contact
> your sysadmin to help you with the proxy settings.
>
> -Dan
>
>
> On Wed, Jan 30, 2013 at 1:03 PM, Vaibhav Dixit <vaibhavadixit.gmail.com
> >wrote:
>
> > Please suggest on this patching problem, I'm unable to install Amber12.
> > Thanks in advance.
> >
> > On Tue, Jan 29, 2013 at 9:49 AM, Vaibhav Dixit <vaibhavadixit.gmail.com
> > >wrote:
> >
> > > Dear Amber community members,
> > > I'm facing a problem while patching amber12 updates using the command
> > > ---------
> > > gm.linux-rfml:/usr/local/amber12> ./patch_amber.py --update-tree
> > > Error: No internet access!
> > > -----------
> > > I tried suggestions given here,
> > > http://archive.ambermd.org/201208/0427.html
> > >
> > > My proxy setting are correct (I'm able to use internet on the same PC
> and
> > > I have set the path with proper user name and password (export
> > http_proxy="
> > > http://username:password.proxy.iisc.ernet.in:3128"). But this did not
> > > work, then I tried *./patch_amber.py --update-tree --timeout 20, but
> this
> > > also gave the same result*
> > >
> > > After downloading all the patches, I have made following changes to the
> > > patch_amber.py file, *but I'm unable to understand which line in this
> > > file should I comment out*, so that the patch file are used directly
> from
> > > the folder specified.
> > > -----------
> > > BUGFIX_PREFIX = 'bugfix'
> > > patch_locs = ['file:///home/gm/bugfixes/AmberTools/12.0/',
> > > 'file:///home/gm/bugfixes/12.0/']
> > > -----------
> > >
> > > --
> > > With regards
> > >
> > > Dr. Dixit Vaibhav Anil (Dr. D.S.Kothari Fellow)
> > > Department of Inogranic and Physical Chemistry
> > > Indian Institute of Science (IISc), Bangalore-560012
> > > Karnataka.
> > > Phone (Mobile): +919915214408, +91-7709129400.
> > > E-mail: vaibhavadixit.gmail.com, vaibhavadixit.ipc.iisc.ernet.in
> > > http://www.iisc.ernet.in/
> > > <http://www.niper.nic.in>
> >
> >
> >
> >
> > --
> > With regards
> >
> > Vaibhav A. Dixit
> > Ph.D.
> > Department of Medicinal Chemistry
> > Natl. Inst. Pharm. Edu. & Res. (NIPER)
> > Sector 67, Phase X, S.A.S. Nagar (Mohali)
> > Punjab -160 062 INDIA
> > Phone (Mobile): +919915214408, +91-7709129400.
> > E-mail: vaibhavadixit.gmail.com
> > www.niper.nic.in
> > _______________________________________________
> > AMBER mailing list
> > AMBER.ambermd.org
> > http://lists.ambermd.org/mailman/listinfo/amber
> >
>
>
>
> --
> Dr. Daniel J. Sindhikara <http://www.dansindhikara.com/Information.html>
> Ritsumeikan University <http://www.ritsumei.ac.jp/eng/>
> sindhikara.gmail.com <http://www.dansindhikara.com>
> --
> _______________________________________________
> AMBER mailing list
> AMBER.ambermd.org
> http://lists.ambermd.org/mailman/listinfo/amber
>
--
With regards
Vaibhav A. Dixit
Ph.D.
Department of Medicinal Chemistry
Natl. Inst. Pharm. Edu. & Res. (NIPER)
Sector 67, Phase X, S.A.S. Nagar (Mohali)
Punjab -160 062 INDIA
Phone (Mobile): +919915214408, +91-7709129400.
E-mail: vaibhavadixit.gmail.com
www.niper.nic.in
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Received on Tue Jan 29 2013 - 21:00:03 PST
