Updated ala2 HDF trajectory to include seqres
add setter for top
Merge pull request #380 from kyleabeauchamp/ala2

Updated ala2 HDF trajectory to include seqres
Merge pull request #381 from rmcgibbo/top

add setter for top
Fix autosummary of trajectory file objects
Fix error in ramachandran notebook
Merge pull request #382 from rmcgibbo/autosummary

Fix autosummary of trajectory file objects
Update mdinspect.py

added check_imaging function. Not 100% this is correct... let me know
Merge pull request #1 from cxhernandez/patch-2

Update mdinspect.py
Merge branch 'master' of github.com:cxhernandez/mdtraj into cxhernandez-master
Some work on mdinspect
oops
Thanks carlos
space after colon
Merge pull request #385 from rmcgibbo/cxhernandez-master

mdinspect work
initial commit
Add superpose to trajectory analysis
Update getting_started.rst
sketch the public API

added munkres files

Add the assignment problem solver

add test for munkres

test

fix test

junk

some more work on lprmsd

Working minimally.

Add quaternion code adapted from yank

Work on progress

I think it's working now. A couple tests passing

some assert on rotation matrix

relax condtion slightly

fix bug

Change docs a little, add todo

tests

taking views could be unsafe, because some subset of the structure might get rotated but then another doesn't -- that would corrupt the coordinates

docstring

(1) factor out some of the input validation into separate functions, (2) avoid large copies as much as possible

port fancy indexing to c so that we can do it without the gil and thus run the parallel loop

fix docstring to be more explicit

merge with master

I think this is finally fixed

minor cleanup. better name for file
Fix build for idiot windows is a terrible operating system and compiler stack