git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/trunk@639 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

Keep organelle type ('chromosome' or 'mitochondrion') in chromosome database
table and use it to choose between g. and m. positioning.


git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/trunk@638 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/trunk@637 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/trunk@636 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

Support genomic references in the mapping database. At the moment, this is
only tested with mtDNA genes, but should in clear the way for NG_ mappings
as well.
Mappings for mtDNA genes can be added to the database using the command line
tool mutalyzer-mapping-import.


git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/trunk@635 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

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git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/trunk@620 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

This makes sure docstring and name are inherited from the decorated
definition. Fixes decorated unit tests, which previously where skipped
since their name did not start with test_ after decorating.


git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/trunk@619 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/trunk@618 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

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git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/trunk@615 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/trunk@614 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

See https://github.com/arskom/spyne/issues/159


git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/trunk@613 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

See https://github.com/arskom/spyne/issues/158


git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/trunk@612 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

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git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/trunk@603 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

describe.py:
- Slicing of the LCS matrix went wrong in findMax(), the coordinates of {s2}
  should be reversed.
- Added a function visMatrix() that can print part of the LCS matrix, handy
  for debugging.


git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/trunk@602 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

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Mainly removal of the javascript code for the menu, this is now all CSS
driven and much simplified.


git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/trunk@599 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1

git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/trunk@598 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1