On Wed, Sep 2, 2015 at 10:44 AM, Oliver Grant <olivercgrant.gmail.com>
wrote:
> Hi all,
>
> I attempted to update Amber14 and update.13 fails. It requests that I
> "Check the errors before re-configuring", but I don't see a log file
> detailing the problem anywhere in .patches. Where do I look to check what
> the issue with the update is?
> I deleted the update.13 from .patches/AmberTools14_Unapplied_Patches but
> the patching failed again.
>
> ./configure gnu
> Checking for updates...
> Checking for available patches online. This may take a few seconds...
> Major version upgrade available:
> AmberTools 14 to AmberTools 15 upgrade
> Type './update_amber --upgrade' to upgrade to AmberTools 15
>
> Available AmberTools 14 patches:
>
> update.13, update.14.bz2, update.15, update.16, update.17, update.18,
> update.19, update.20, update.21, update.22,
> update.23, update.24, update.25, update.26, update.27
>
> Available Amber 14 patches:
>
> update.1, update.2, update.3, update.4, update.5, update.6, update.7,
> update.8, update.9, update.10,
> update.11, update.12, update.13
> There are patches available. Do you want to apply them now? [y/N]
> (Recommended Y)
> Y
> Preparing to apply updates... please wait.
> Downloading updates for AmberTools 14
> Downloading AmberTools 14/update.13 (1146.27 KB)
> Downloading: [::::::::::::::::::::::::::::::::::::::::::::::::::] 100.0%
> Done.
> Applying AmberTools 14/update.13
> PatchingError: .patches/AmberTools14_Unapplied_Patches/update.13 failed to
> apply. No changes made from this patch
> Automatic patching failed! Check the errors before re-configuring
>
​Have you changed the source code in some way? In particular, any of the
files listed in the header of the update:
http://ambermd.org/bugfixes/14.0/update.13.
What does the following command print, when you run it in AMBERHOME:
patch -p0 -N --dry-run < .patches/Amber14_Unapplied_Patches/update.13
? I've never seen this happen, which means that *either* you've changed
the source code in the same place that update.13 makes changes or you are
not using the official release tarball of Amber.
HTH,
Jason
--
Jason M. Swails
BioMaPS,
Rutgers University
Postdoctoral Researcher
_______________________________________________
AMBER mailing list
AMBER.ambermd.org
http://lists.ambermd.org/mailman/listinfo/amber
Received on Wed Sep 02 2015 - 08:30:03 PDT
