- IMP-dev - salilab.org

Re: [IMP-dev] Build system failure, 10/26/2009
by Keren Lasker 26 Oct '09

26 Oct '09

I will fix all today - it is not a big deal - i just need time - it was a crazy week and weekend .... On Oct 26, 2009, at 7:00 AM, build-system(a)salilab.org wrote: > Build system failed on 10/26/2009. > Failed components: IMP. > Please see https://salilab.org/internal/imp/tests.html for full > details. > _______________________________________________ > IMP-dev mailing list > IMP-dev(a)salilab.org > https://salilab.org/mailman/listinfo/imp-dev

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reading multiple chains
by Keren Lasker 21 Oct '09

21 Oct '09

hey - so reading a pdb file with multiple chains, IMP changes the residues indexes to have sequential residue indexes. so imagine 3 chains A from 1 to 10, B from 1 to 10 and C from 1 to 10 reading into IMP we get: A from 1 to 10 B from 11 to 20 C from 21 to 30 this really messes up stuff .... is there a special reason for that ? thanks, Keren.

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changing parent in IMP Hierarchy
by Keren Lasker 20 Oct '09

20 Oct '09

hi, is there a way to change the parent of a particle ? thanks, Keren.

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rigid bodies and snapping
by Daniel Russel 20 Oct '09

20 Oct '09

Does anyone use the original, snapping based, rigid bodies code? Any objection if I remove it?

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Last week in IMP
by Daniel Russel 19 Oct '09

19 Oct '09

- IMP::atom::Hierarchy has been modified to get rid of the IMP::atom::Hierarchy::Type. Instead, all types are contained in the decorators. IMP::atom::get_by_type() was also updated to reflect this. - IMP_check() and IMP_assert() have been replaced with IMP_USAGE_CHECK() and IMP_INTERNAL_CHECK() respectively. Hopefully this makes it clearer when to use which. IMP::set_check_level() has been revised accordingly (to use IMP::USAGE and IMP::USAGE_AND_INTERNAL). Also, IMP_failure() and IMP_not_implemented() have been renamed to IMP_FAILURE() and IMP_NOT_IMPLEMENTED() to make all macros be all caps. To update external code, - replace IMP.EXPENSIVE with IMP.USAGE_AND_INTERNAL - replace IMP.CHEAP with IMP.USAGE - replace IMP_assert and IMP_check as above. - A \ref differences "page" has been added on the differences between the python and C++ interfaces of \imp. Please add salient points as they come up or let Daniel know about them so he can add them. The page is located at kernel/doc/python_differences.dox.

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return pointer in swig
by Keren Lasker 16 Oct '09

16 Oct '09

hi, How can I setup swig so that python will recognize a pointer to a class as the object itself. More specifically, I have a function MyClass *return_this() const; and I would like python to treat MyClass as the actual object and not as a pointer. thanks, Keren.

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IMP_check
by Keren Lasker 15 Oct '09

15 Oct '09

did it go away ? what should I use instead ??

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copyright notice check
by Keren Lasker 14 Oct '09

14 Oct '09

hi - was there any change in the copyright format? svn rejects commits due to copyright and file description errors that used to work in the past (I tried multiple files) .... thanks, keren.

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doxygen
by Daniel Russel 12 Oct '09

12 Oct '09

Doxygen is producing mostly useless documentation on the upgraded salilab linux boxes. Many functions created by macros do not show up for some reason. I don't have a good work around at this point. Sorry.

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How to iterate through the particles of a model ?
by Javier Ángel Velázquez Muriel 11 Oct '09

11 Oct '09

Could anybody provide an example of that, please? Thanks

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