Closed GoogleCodeExporter closed 8 years ago
I am passing this on to Merve. We can use the same l2 models (or a subset)
which are still in the sourceforge project.
Original comment by ozgunba...@gmail.com
on 19 Sep 2012 at 6:58
Samples are now added to the source. I have chosen a subset of the previous
samples for L2 models and queried PC to generate L3 sample models.
Original comment by mervecak...@gmail.com
on 25 Sep 2012 at 2:56
please review/verify
Original comment by ugurdogr...@gmail.com
on 25 Sep 2012 at 4:32
Sample models are not laid-out. Do you think we should work on pretty layouts
for sample models (as before) or can we depend on the auto-layout? Currently,
auto-layout generates incomprehensible geometry for some of the sample models.
Original comment by ozgunba...@gmail.com
on 26 Sep 2012 at 7:15
I think we should try for a good layout a number of times. If it doesn't look
very hopeful, we should do some manual improvements to the layout and save the
sample models.
Original comment by ugurdogr...@gmail.com
on 27 Sep 2012 at 7:16
I noticed that IDs of molecules in L3 sample models are different than the ones
in the current Pathway Commons. These should have changed in PC after creation
of sample models. This breaks querying from pop-up menu.
Let's not update sample models yet. IDs may still change. But we should do it
prior to the release.
Original comment by ozgunba...@gmail.com
on 10 Oct 2012 at 6:48
Level 3 sample models are now updated. I have performed new PC queries to
generate models. I have also done some minor manual improvements on the layouts
if automatic layout fails to generate a good result.
However, I did not update Level 2 samples. I have tried improving the layout
and saving the models, but when I loaded these models, ChiBE automatically
performed layout and did not use the saved layouts. This was not the case for
L3 models. What should I do with L2 models?
Original comment by mervecak...@gmail.com
on 3 Dec 2012 at 3:39
That shouldn't be the case, right Ozgun? Could you take a look please?
Original comment by ugurdogr...@gmail.com
on 5 Dec 2012 at 8:38
We didn't save layouts in L2 sample models previously. They were laying out
each time we load. We can save them layed out this time for the sake of
consistency.
Original comment by ozgunba...@gmail.com
on 5 Dec 2012 at 6:38
Is this easy to implement Ozgun? Can you do it or can you let Merve how to do
it? Please let me know when done, so I can have Cagdas prepare the installers.
Original comment by ugurdogr...@gmail.com
on 6 Dec 2012 at 12:58
Done.
Original comment by ozgunba...@gmail.com
on 6 Dec 2012 at 8:55
Merve, please beautify the layout of l2 samples now and let me know.
Original comment by ugurdogr...@gmail.com
on 10 Dec 2012 at 11:52
I have updated the layout of Level 2 samples. I have replaced some models which
would require extensive manipulation to reach a good layout.
Original comment by mervecak...@gmail.com
on 20 Dec 2012 at 1:02
Original comment by ugurdogr...@gmail.com
on 28 Dec 2012 at 9:17
Original issue reported on code.google.com by
ugurdogr...@gmail.com
on 19 Sep 2012 at 10:40