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mattions / neuronvisio

A Graphical User Interface with 3D Visualization features for NEURON simulation enviroment
https://neuronvisio.readthedocs.io
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Added Updater.py #29

Closed uricohen closed 12 years ago

uricohen commented 12 years ago

Updater.py is both a stand-alone program which updates ModelDB.xml from online site and also can be used as a python module (e.g. to implement an 'update' button in neuronvisio).

The code need some cleaning, but it is fully functional and tested. One issue I did have is current ModelDB have 2 articles which are in the review process:

mattions commented 12 years ago

Hey Uri,

should I go ahead and merge it, or you want to clean the code first and then we merge?

On Tue, Nov 1, 2011 at 11:25 PM, Uri Cohen reply@reply.github.com wrote:

Updater.py is both a stand-alone program which updates ModelDB.xml from online site and also can be used as a python module (e.g. to implement an 'update' button in neuronvisio).

The code need some cleaning, but it is fully functional and tested. One issue I did have is current ModelDB have 2 articles which are in the review process:

  • Prosthetic electrostimulation for information flow repair in a neocortical simulation (under rev.)
  • Spike exchange methods for a Blue Gene/P supercomputer (Hines et al., accepted) I have Uploader.py ignoring such models (which lack a year) so we'll get the final version when one exists.

You can merge this Pull Request by running:

 git pull https://github.com/uricohen/neuronvisio master

Or you can view, comment on it, or merge it online at:

 https://github.com/mattions/neuronvisio/pull/29

-- Commit Summary --

  • Added BeautifulSoup.py version 3.2.0
  • Added 'article' and 'pubmed' links

-- File Changes --

A src/neuronvisio/modeldb/BeautifulSoup.py (2014) M src/neuronvisio/modeldb/ModelDB.xml (79854) A src/neuronvisio/modeldb/Updater.py (238)

-- Patch Links --

 https://github.com/mattions/neuronvisio/pull/29.patch  https://github.com/mattions/neuronvisio/pull/29.diff

Reply to this email directly or view it on GitHub: https://github.com/mattions/neuronvisio/pull/29

uricohen commented 12 years ago

Ok, it's ready.

On Wed, Nov 2, 2011 at 11:24 AM, Michele Mattioni < reply@reply.github.com>wrote:

Hey Uri,

should I go ahead and merge it, or you want to clean the code first and then we merge?

On Tue, Nov 1, 2011 at 11:25 PM, Uri Cohen reply@reply.github.com wrote:

Updater.py is both a stand-alone program which updates ModelDB.xml from online site and also can be used as a python module (e.g. to implement an 'update' button in neuronvisio).

The code need some cleaning, but it is fully functional and tested. One issue I did have is current ModelDB have 2 articles which are in the review process:

  • Prosthetic electrostimulation for information flow repair in a neocortical simulation (under rev.)
  • Spike exchange methods for a Blue Gene/P supercomputer (Hines et al., accepted) I have Uploader.py ignoring such models (which lack a year) so we'll get the final version when one exists.

You can merge this Pull Request by running:

git pull https://github.com/uricohen/neuronvisio master

Or you can view, comment on it, or merge it online at:

https://github.com/mattions/neuronvisio/pull/29

-- Commit Summary --

  • Added BeautifulSoup.py version 3.2.0
  • Added 'article' and 'pubmed' links

-- File Changes --

A src/neuronvisio/modeldb/BeautifulSoup.py (2014) M src/neuronvisio/modeldb/ModelDB.xml (79854) A src/neuronvisio/modeldb/Updater.py (238)

-- Patch Links --

https://github.com/mattions/neuronvisio/pull/29.patch https://github.com/mattions/neuronvisio/pull/29.diff

Reply to this email directly or view it on GitHub: https://github.com/mattions/neuronvisio/pull/29

Reply to this email directly or view it on GitHub: https://github.com/mattions/neuronvisio/pull/29#issuecomment-2601155

        Uri Cohen
mattions commented 12 years ago

this is great.

So now, if I run the Update.py, I will have a new XML with the new model. If I restart Neuronvisio is that one which is picked up?

uricohen commented 12 years ago

Yes, updater actually save a new version of ModelDB.xml. Go ahead and delete 2-3 random ... from the file and see it add them back in at the end of the file.

On Wed, Nov 2, 2011 at 4:53 PM, Michele Mattioni < reply@reply.github.com>wrote:

this is great.

So now, if I run the Update.py, I will have a new XML with the new model. If I restart Neuronvisio is that one which is picked up?

Reply to this email directly or view it on GitHub: https://github.com/mattions/neuronvisio/pull/29#issuecomment-2604323

        Uri Cohen