Improved, Best-like contact analysis (Issue #702)#708

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jandom wants to merge 26 commits intoMDAnalysis:developfrom

jandom:issue-702-contacts

Commits on Feb 9, 2016

Improved, Best-like contact analysis (Issue #702)
Jan Domanski
committed

Commits on Feb 10, 2016

Revert to changes to contacts.py
Jan Domanski
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Arguments refactored, numpy-style docs
Jan Domanski
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Refactor universe identity check between groups, optional scipy.sparse import
Jan Domanski
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Add test files to package, rename test class for contacts
Jan Domanski
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Commits on Feb 11, 2016

Contact analysis: move the example to cookbook
Jan Domanski
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Correct typo in tests
Jan Domanski
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Fixed module import
Jan Domanski
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Fixed module imports (ii)
Jan Domanski
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Fixed imports (iii)
Jan Domanski
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Commits on Feb 12, 2016

Single class that supports both cutoff and best-hummer contacts
Jan Domanski
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Clean-up docs, bzip conf files
Jan Domanski
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Commits on Feb 13, 2016

Trying to make the new Contacts class as close to ContactAnalysis1 class...
Jan Domanski
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Commits on Feb 14, 2016

Re-link to gro.bz2 files in setup.py
Jan Domanski
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Commits on Feb 15, 2016

Moved all the remaining methods from ContactAnalysis1 to Contacts
Jan Domanski
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Deprecate the old ContactAnalysis1 class
Jan Domanski
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Commits on Feb 23, 2016

Corrected docs, moved things around - general feature cleanup
Jan Domanski
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Commits on Feb 24, 2016

Test and docstring cleanup
Jan Domanski
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improvements for distances
orbeckst
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doc string upgrades in analysis.contacts
orbeckst
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added back ContactAnalysis
orbeckst
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Commits on Feb 25, 2016

Commits on Feb 26, 2016

Remove any self calls from load method, to make it nice and static
Jan Domanski
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Merge branch 'issue-702-contacts' of https://github.com/orbeckst/mdanalysis into orbeckst-issue-702-contacts
Jan Domanski
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Merge branch 'orbeckst-issue-702-contacts' into issue-702-contacts
Jan Domanski
committed