Run portion of puppet? about neurovault_puppet HOT 6 CLOSED

Try increasing timeout on this step. I just added caching in #6 that avoids
redownloading dependencies (deb packages and freesurfer).

On Wed Dec 03 2014 at 8:41:26 AM vsoch [email protected] wrote:

Is there a way to run just a portion of the install from main? My install
failed with getting the pycortex data:

==> default: Debug: Executing 'svn export --force
https://github.com/NeuroVault/neurovault_data/trunk/pycortex_datastore
/opt/pycortex_data'

Likely because of just internet connectivity. The remaining errors were
largely warnings and notices about the dependency, but I can find a bunch
of commands that were skipped, eg:

==> default: Warning:
/Stage[main]/Main/Neurovault::Main[nvault-install]/Neurovault::Pycortex[install_pycortex]/Exec[chown_datastore]:
Skipping because of failed dependencies

And they are substantial because manage.py runserver can't even find
django (and I did source the venv).

I was going through each one and looking in the main.pp file and then the
appropriate file under manifests to run manually, but I think it would be
easier to just trigger the install from some point forward. I did install
all of freesurfer so I'm less wanting to restart the whole thing to see if
I get the same timeout!

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#7.

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Yep, that did the trick! Now for a repeat performance with freesurfer!

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please send a PR with updated timeout

On Wed Dec 03 2014 at 9:39:18 AM vsoch [email protected] wrote:

Yep, that did the trick! Now for a repeat performance with freesurfer!

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#7 (comment)
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Re: cache: It looks like it's just downloading freesurfer. However, I manually created the cache directory (and deleted everything else under ~/.vagrand.d) and (what I think) should happen is sharing the cache between instances of the same box - however since I deleted everything before retrying, technically this is the first instance :) Should I let this one finish, and then create another?

==> default: Notice: /Stage[main]/Main/Neurovault::Main[nvault-install]/Neurovault::Freesurfer[install_freesurfer]/Package[libxmu6]/ensure: ensure changed 'purged' to 'present'
==> default: Debug: /Package[libxmu6]: The container Neurovault::Freesurfer[install_freesurfer] will propagate my refresh event
==> default: Debug: Execdl_freesurfer: Executing check 'test -d /opt/freesurfer'
==> default: Debug: Executing 'test -d /opt/freesurfer'
==> default: Debug: Execdl_freesurfer: Executing 'mkdir -p /var/cache/wget && wget wget -N -P /var/cache/wget ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/5.3.0/freesurfer-Linux-centos4_x86_64-stable-pub-v5.3.0.tar.gz'
==> default: Debug: Executing 'mkdir -p /var/cache/wget && wget wget -N -P /var/cache/wget ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/5.3.0/freesurfer-Linux-centos4_x86_64-stable-pub-v5.3.0.tar.gz'

from neurovault_puppet.

Yes it is downloading it now. You can let it finish or stop it, destroy the
VM, replace the unfinished download with the tarball you got from the other
computer, start building the VM again. It should not have to download
FreeSurfer then.

BTW I merged all of the PR on neurovault_puppet. You can use master now.

On Wed Dec 03 2014 at 2:22:35 PM vsoch [email protected] wrote:

Re: cache: It looks like it's just downloading freesurfer. However, I
manually created the cache directory (and deleted everything else under
~/.vagrand.d) and (what I think) should happen is sharing the cache between
instances of the same box - however since I deleted everything before
retrying, technically this is the first instance :) Should I let this one
finish, and then create another?

==> default: Notice:
/Stage[main]/Main/Neurovault::Main[nvault-install]/Neurovault::Freesurfer[install_freesurfer]/Package[libxmu6]/ensure:
ensure changed 'purged' to 'present'
==> default: Debug: /Package[libxmu6]: The container
Neurovault::Freesurfer[install_freesurfer] will propagate my refresh event
==> default: Debug: Execdl_freesurfer http://provider=posix: Executing
check 'test -d /opt/freesurfer'
==> default: Debug: Executing 'test -d /opt/freesurfer'
==> default: Debug: Execdl_freesurfer http://provider=posix: Executing
'mkdir -p /var/cache/wget && wget wget -N -P /var/cache/wget
ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/5.3.0/freesurfer-Linux-centos4_x86_64-stable-pub-v5.3.0.tar.gz
'
==> default: Debug: Executing 'mkdir -p /var/cache/wget && wget wget -N -P
/var/cache/wget
ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/5.3.0/freesurfer-Linux-centos4_x86_64-stable-pub-v5.3.0.tar.gz
'

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#7 (comment)
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I had one more error:

==> default: Error: mkdir -p /var/cache/wget && wget wget -N -P /var/cache/wget ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/5.3.0/freesurfer-Linux-centos4_x86_64-stable-pub-v5.3.0.tar.gz returned 4 instead of one of [0]

But wget error code 4 is just Network error, so this is likely again my shoddy wireless connection. I'm still going to try it again. I'll post here only if there is an error that is not network related.

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