Changes in version 1.2.5 (2021-04-13)                  

New stuff

  - Add support for ping_type = 'sbi_doulbe'. Special case - needs
    carefull contrsuction of TOA-matrix.
  - More robustification of the optimizer.
  - More pre-flight checks to catch issues with inp.
  - Use separate diffusivity for Z when estimating 3D

Bug fixes

  - Bug fix - constraint hitting very fast transmitters with BI < 1
    relaxed
  - Implement better start of top sequence when ping_type = sbi_double

                 Changes in version 1.2.4 (2021-02-10)                  

New stuff

  - Now on CRAN
  - More checks in checkInp() to catch typical errors in format of inp.
  - EXPERIMENTAL Attempt to robustify runYaps() - use with care.

Bug fixes

  - Fix bug in getToaYaps() re number of empty pings.
  - Docs and examples fixed to meet requirements.
  - Make getToaYaps() aware of pingType

                        Changes in version 1.2.3                        

New stuff

  - Moved example data hald to an external package with yaps example
    data yapsdata. Available from github using
    devtools::install_github('baktoft/yapsdata').
  - Lots of examples and tests added.

                        Changes in version 1.2.2                        

New stuff

  - New site added to github pages intended to collect yaps-related
    resources, how-tos etc. (https://baktoft.github.io/yaps/)
  - Add first step-by-step tutorial to yaps pages
  - Add function to sequentially fine-tune sync model.
  - Add option to use speed of sound based on logged temperatur in the
    synchronisation process.
  - Add function to fine-tune sync_model based on residual threshold
  - Add plot to check temporal stability of sync_models. Try
    plotSyncModelResids(sync_model, by='temporal')
  - Add option to impose spatial constraints (BBox only) and plot a
    visual of the constraint. Mainly used to constrain parameter space
    and increase speed and convergence.
  - Add various checks in checkInpSync()
  - Add option to use selective downsampling in getInpSync().
  - Add function to plot hydros from sync_model - usefull if hydros were
    re-positioned during getSyncModel().
  - Add option to estimate Z-dimension (depth) of tracks.
  - Add function to calucate speed of sound from water temperature,
    salinity and depth - tempToSs(temp, sal, depth).
  - Add github actions to hopefully ensure nothing breaks from now on...

Bug fixes

  - Fix nasty bug in likelihood contribution of ToP-estimation when
    using random burst interval (ping_type = 'rbi')
  - Fix bug in getInpSync() - failed if sync_tag was only heard on own
    hydro
  - Eliminate estimation of log_sigma_hydros_xy in sync_model
  - Relax priors on SS in both track and sync model - consider to switch
    to softplus instead
  - Return plsd object from getSyncModel
  - Fix bug in getToaYaps() that allowed too short/too high BI to pass
    through when using ping_type='rbi' and very fast transmitters
  - Fix bug in getToaYaps() that added to many empty pings when
    ping_type='sbi'.

                     Changes in version 1.2.0.9111                      

New stuff

  - Add option to use alternative optimization function (EXPERIMENTAL).
    Try nloptr() instead of default nlminb(), if you have issues with
    e.g. false convergence.
  - Add option to use linear correction information when running the
    sync model (EXPERIMENTAL).
  - Add option to specify all three ping types in testYaps(). PingType
    can be 'sbi' (default), 'rbi' or 'pbi'
  - Not related to package development, but check out yaps-live
    https://baktoft.shinyapps.io/yapslive/ to see yaps in action.

Minor new stuff

  - Split cpp file into pingType, Edist and ss specifics. Make code more
    readable and eliminates the need for 'diffuse priors' on parameters.
  - Implement testthat functions to ensure future updates doesn't break
    anything. Work in progress...
  - Update readMe.md

Bug fixes

  - Fix bug in prepDetections(). Thanks to Hugh Pederson for reporting
    it.

                     Changes in version 1.2.0.9110                      

New stuff

  - Add support for using pressure sensor data as z-values in track
    estimation
  - Add function alignBurstSeq() - aligns detection data with known
    burst sequence
  - Add option to use stationary ref tags as beacons/sync tags without
    hydro
  - Add testYaps() - function to test that everything is running as
    expected

Minor new stuff

  - Add sync_model and known burst sequences to example data hald
  - Add extra plots to plotSyncModelCheck()
  - Improve diagnostic plots - now violins instead on boxplots
  - Add first version of checkInp(). More tests will be added to catch
    common mistakes
  - Added a NEWS.md file to track changes to the package
  - Make console output from runYaps() more user friendly - work in
    progress

Bug fixes

  - Fixed bug in getToaYaps() when is.na(eposync) == TRUE
  - Add option to ignore extreme values when plotting
    plotSyncModelCheck()
  - Fix issue with sync_model extrapolating eposync beyond period
  - Relax initial ss and put gentle constraint on rest ss
  - Fix bug in on Attach()