Aha you were pointing me to github. I can clone that repo directly:
git clone
https://github.com/Amber-MD/ambertools-ci.git
If I do that within AmberTools/src/build-bot/, I also get a directory
ambertools-test/ with only a .git file for its contents. Then, if I go
back to ${AMBERHOME} and do git pull (already up to date), git submodule
update --init I get:
fatal: Needed a single revision
Unable to find current revision in submodule path
'AmberTools/src/build-bot/ambertools-test'
On Mon, Jun 12, 2017 at 11:39 AM, Hai Nguyen <nhai.qn.gmail.com> wrote:
> On Mon, Jun 12, 2017 at 11:32 AM, David Cerutti <dscerutti.gmail.com>
> wrote:
>
> > How should I clone just the one directory?
>
>
> I don't know what you meant here.
>
> What's your git version? if it's old, I recommend to update it and retry.
>
> Hai
>
>
> > I'm warying of doing a sparse
> > checkout because all that I see online tends to revolve around cloning a
> > clean repository with only portions of the original.
> >
> > On Mon, Jun 12, 2017 at 11:18 AM, Hai Nguyen <nhai.qn.gmail.com> wrote:
> >
> > > I am not sure why, but that ambertools-test repo was renamed to
> > > ambertools-ci (https://github.com/Amber-MD/ambertools-ci)
> > >
> > > Can you try git clone that repo directly to see if you got the denial?
> > >
> > > I will have a look tonight.
> > > Meanwhile, you can safely ignore that repo to continue your work.
> > >
> > > Hai
> > >
> > > On Mon, Jun 12, 2017 at 11:08 AM, David Cerutti <dscerutti.gmail.com>
> > > wrote:
> > >
> > > > Hello devs,
> > > >
> > > > Has anyone seen this problem? It looks like a git permissions issue,
> > but
> > > > that is very odd since I can do a clean
> > > >
> > > > git clone gitosis.git.ambermd.org:/amber.git <amber install
> directory>
> > > >
> > > > without problems. However, if I then do
> > > >
> > > > git pull
> > > > git submodule update --init
> > > >
> > > > Submodule 'AmberTools/src/ambertools-binary-build' (
> > > > https://github.com/Amber-MD/ambertools-binary-build) registered for
> > path
> > > > 'AmberTools/src/ambertools-binary-build'
> > > > Submodule 'AmberTools/src/build-bot/ambertools-test'
> > > > (git.github.com:Amber-MD/ambertools-test)
> > > > registered for path 'AmberTools/src/build-bot/ambertools-test'
> > > > Submodule 'AmberTools/src/build-bot/docker-amber-build-box'
> > > > (git.github.com:Amber-MD/docker-amber-build-box)
> > > > registered for path 'AmberTools/src/build-bot/
> docker-amber-build-box'
> > > > Submodule 'AmberTools/src/cphstats' (git.github.com:/Amber-MD/
> > > > cphstats.git)
> > > > registered for path 'AmberTools/src/cphstats'
> > > > Submodule 'AmberTools/src/cpptraj' (git.github.com:/Amber-MD/
> > > cpptraj.git)
> > > > registered for path 'AmberTools/src/cpptraj'
> > > > Submodule 'AmberTools/src/parmed' (git.github.com:/ParmEd/
> ParmEd.git)
> > > > registered for path 'AmberTools/src/parmed'
> > > > Submodule 'AmberTools/src/pdb4amber' (git.github.com:/Amber-MD/
> > > pdb4amber)
> > > > registered for path 'AmberTools/src/pdb4amber'
> > > > Submodule 'AmberTools/src/pytraj' (git.github.com:/Amber-MD/
> > pytraj.git)
> > > > registered for path 'AmberTools/src/pytraj'
> > > > Cloning into 'AmberTools/src/ambertools-binary-build'...
> > > > remote: Counting objects: 1700, done.
> > > > remote: Compressing objects: 100% (71/71), done.
> > > > remote: Total 1700 (delta 60), reused 65 (delta 32), pack-reused 1597
> > > > Receiving objects: 100% (1700/1700), 246.98 KiB, done.
> > > > Resolving deltas: 100% (1012/1012), done.
> > > > Submodule path 'AmberTools/src/ambertools-binary-build': checked out
> > > > '18c419831a106b836ed60bf2296c241a44a4714e'
> > > > Cloning into 'AmberTools/src/build-bot/ambertools-test'...
> > > > Permission denied (publickey).
> > > > fatal: Could not read from remote repository.
> > > >
> > > > Please make sure you have the correct access rights
> > > > and the repository exists.
> > > > Clone of 'git.github.com:Amber-MD/ambertools-test' into submodule
> path
> > > > 'AmberTools/src/build-bot/ambertools-test' failed
> > > > [cerutti.casegroup1 amber3]$ ls AmberTools/src/build-bot/
> > > >
> > > > It looks like a permissions issue, but I'm not certain. The
> directory
> > > > AmberTools/src/build-bot/ certainly exists, and I'm assuming that it
> > > wants
> > > > to clone a new directory ambertools-test/ into that, but at present I
> > > don't
> > > > see ambertools-test/. I've been trying to clone a new repo because
> > I've
> > > > been having this same problem when I try to update the current repo
> > I've
> > > > been working in. Am I missing something obvious?
> > > >
> > > > Thanks!
> > > >
> > > > Dave
> > > > _______________________________________________
> > > > AMBER-Developers mailing list
> > > > AMBER-Developers.ambermd.org
> > > > http://lists.ambermd.org/mailman/listinfo/amber-developers
> > > >
> > > _______________________________________________
> > > AMBER-Developers mailing list
> > > AMBER-Developers.ambermd.org
> > > http://lists.ambermd.org/mailman/listinfo/amber-developers
> > >
> > _______________________________________________
> > AMBER-Developers mailing list
> > AMBER-Developers.ambermd.org
> > http://lists.ambermd.org/mailman/listinfo/amber-developers
> >
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Received on Mon Jun 12 2017 - 09:00:03 PDT
