Changes in #120 that need to be propagated elsewhere

[makortel]

This issue is to track the propagation of the update #120 in cudadev to other programs.

The changes from cudadev to

• cuda and
• cudauvm

are straightforward to figure out (just merge by hand e.g. with meld). Also,

• cudauvm and
• cudatest

should be synchronized from cuda.

The https://github.com/cms-patatrack/pixeltrack-standalone/blob/master/doc/CodeStructure.md needs to be updated for

• links to code in cuda
• reference profile

Changes to kokkos require a bit more care, here is the list of files (in cudadev) that need to be looked at

• src/cudadev/CUDACore/AtomicPairCounter.h: add namespaces
• src/cudadev/CUDACore/GPUSimpleVector.h: rename to SimpleVector, rename namespace
• src/cudadev/CUDACore/GPUVecArray.h: rename to VecArray, rename namespace
• src/cudadev/CUDACore/HistoContainer.h: move remaining functions and types into namespace
• Move BeamSpotCUDA::Data to BeamSpotPOD
  • src/cudadev/CUDADataFormats/BeamSpotCUDA.h
  • src/cudadev/plugin-BeamSpotProducer/BeamSpotESProducer.cc
  • src/cudadev/plugin-BeamSpotProducer/BeamSpotToCUDA.cc
• src/cudadev/CUDADataFormats/ZVertexSoA.h: MAXTRACKS = 16 * 1024 to MAXTRACKS = 32 * 1024
• add pixelCPEforGPU::DetParams::pixmx member (requires an update of binary dumps):
  • src/cudadev/CondFormats/pixelCPEforGPU.h
  • src/cudadev/plugin-SiPixelRecHits/gpuPixelRecHits.h
• src/cudadev/DataFormats/approx_atan2.h: add parentheses
• src/cudadev/plugin-PixelTriplets/BrokenLine.h, src/cudadev/plugin-PixelTriplets/RiemannFitOnGPU.h: use namespaces explicitly, some rewording
• src/cudadev/plugin-PixelTriplets/BrokenLineFitOnGPU.h: remove using namespace Eigen
• src/cudadev/plugin-PixelTriplets/CAConstants.h: changes in constants
• device_theCellNeighbors_ and device_theCellTracks_ apparently get used now (list of files below is incomplete)
  • src/cudadev/plugin-PixelTriplets/CAHitNtupletGeneratorKernels.cu
  • src/cudadev/plugin-PixelTriplets/CAHitNtupletGeneratorKernelsImpl.h
  • src/cudadev/plugin-PixelTriplets/GPUCACell.h
  • src/cudadev/plugin-PixelTriplets/gpuPixelDoublets.h
• src/cudadev/plugin-PixelTriplets/CAHitNtupletGeneratorKernelsImpl.h: remove using namespace gpuPixelDoublets
• src/cudadev/plugin-PixelTriplets/CAHitNtupletGeneratorOnGPU.cc: fitter memory allocation is moved a bit later
• src/cudadev/plugin-PixelTriplets/choleskyInversion.h: rename namespace, add empty lines between functions
• add isRun2_ boolean flag, set to true
  • src/cudadev/plugin-SiPixelClusterizer/SiPixelRawToClusterCUDA.cc
  • src/cudadev/plugin-SiPixelClusterizer/SiPixelRawToClusterGPUKernel.h
  • src/cudadev/plugin-SiPixelClusterizer/SiPixelRawToClusterGPUKernel.cu
  • src/cudadev/plugin-SiPixelClusterizer/gpuCalibPixel.h
• src/cudadev/plugin-SiPixelRecHits/gpuPixelRecHits.h: one-line if inside #ifdef GPU_DEBUG
• src/cudadev/test/VertexFinder_t.h: remove using namespace gpuVertexFinder