Namespace changes for the following classes:

O2itsGeoHandler -> GeometryHandler
O2itsContFact -> ContainerFactory
O2itsMisalignPar -> MisalignmentParameter
AliGeomManager -> GeometryManager
AliITSv11Geometry -> V11Geometry
AliITSUv1Layer -> UpgradeV1Layer
AliITSsegmentation -> Segmentation
AliITSUSegmentationPix -> UpgradeSegmentationPixel
AliITSUGeomTGeo -> UpgradeGeometryTGeo
O2itsPoint -> Point
O2its -> Detector

Dropped the digitization skeleton
Renamed all header guards according to the O2 coding guidelines
Conform the contents of the ITS directory to the coding guidelines: Detector class (Part 1)

Naming and formating rules for the following classes:
Detector
GeometryHandler
GeometryManager
MisalignmentParameter
Segmentation
UpgradeGeometryTGeo
UpgradeSegmentationPixel
UpgradeV1Layer
V11Geometry
Point
Use boost::program_options for command line argument handling in FLP2EPN and FLP2EPN-dynamic.
Common options like number of io threads now have default values.
To find out all available options for an executable run it with '--help'.
Existing scripts have been updated to use the new format.
first version of FLP2EPN-distributed with data transfer shaping
use namespaces & adjust style
Renamed directories:

AliBase -> Base
AliData -> Data
AliGenerators -> Generators

Namespace changes for classes:

O2Detector -> Detector
O2Module -> Module
O2TrackReference -> TrackReference
AliDetectorList -> DetectorList
AliStack -> Stack
AliMCTrack -> MCTrack

Correctly set ClassImp to namespaces

Removed namespace prefixes from the UpgradeV1Layer class

Renamed LinkDefs and library names to conform to the coding guidelines
Created a Doxygen configuration file, to create the documentation execute doxygen AliceO2Doxygen.conf

Edited the markdown file to also conform with the doxygen markdown format
bugfix: rootcint error when building dictionary for AliceO2::Base::Detector because of Detector.h in FairRoot without namespace, fixed the include path order
Bugfix: Correctly set transient data members and variable length arrays for streamer

Bugfix: Fixed a warning in CMakeLists.txt

Bugfix: Removed extra namespace from the Detector class
Added the Magnetic Field classes
Layout changes: Bring the line limit to 120 characters

Layout, namespace, naming and formatting changes to Magnetic Field classes and the rest of the project
Added the .clang-format file to the root of the tree for formatting the code according to the coding guidelines. To format a source file, execute the following: clang-format-3.5 -style=file -i SOURCEFILE
Bugfix: Set the include and link order to AliceO2 -> FairRoot -> FairSoft -> Root for the Base, Data, field and its directories
Apply the coding convention to the passive modules
 continue adding namespaces and testing infrastructure
change library name for generator to libO2Gen to avoid conflict with FairRoot libGen
correct typo in test script
Bugfix: Substitute the hardcoded Integral and Max values of the magnetic field
use methods adviced by Philippe Canal to read the old maps with the new classes