Monolix 4.2.2 (2013-03-15)
Bugs Fixes:
    - MLXTran Project
      - fixed omega and error model parameters was not correctly saved when they were set as 'Fixed'
      - load data file error when the data path was not ended by a '/'
      - under Windows OS, when the result folder is not the project folder, the path was prefixed by a '/'
      - parser did not load correlation block

    - Graphics : Spaghetti plot
      - error when there are censored data on several outputs (index out of bounds)

    - MLXTRAN model :
      - a zero-order dose absorption (or infusion) combined with a lag-time could raise an error of bad dimension if the end of the absorption followed the lagged dose before the next record
      - the autocorrelation was not correctly set when the error model is defined inside the structural model

    - GUI
      - when the error model is defined in the structural model and  it is changed from constant or proportional to combined, some parameters became fixed to 0
      - problem handling IOV + categorical covariates dependency on omegas
      - problem with Extensive workflow
      - problem with "View the Data" when the number of outputs in the dataset is different than the number of outputs in the structural model
      - issues handling covariates with only one category
      - error when loading project when there were results computed with version prior to 4.2.0 with censored data
      - Hypothesis test on residual error interface, allows only to change continuous error models that are not defined in the structural model
      
    - Algorithms: 
      - conditional mode estimation did not worked for IOV  when there are not variaibility at all
      - projects with autocorrelation and censored data crashed
      - log-likelihood estimation crashed when using band error model and the structural model returned values outside the band 
      - Axe titles were not correctly shown with correlation and discrete outputs
      - inter-occasion variability
        - issues when there was no variability at the first or at the last occasion level
        - issues when using correlations in iov
      - Mixtures
        - BSMM + autocorrelation failed
        - BSMM with several outputs failed      
        - issues when using several latent covariates
        - conditional expectation estimation failed when using several MC chains
      - Bayesian analysis failed if there were covariates with more than 2 categories
        
    - Monolix user API
      - Tables with individual contribution to log-likelihood (indContTable) and covariates information summary (covTable) did not work
   
Enhancements:
    - GUI
      - Errors due to problems loading results does not stop the load of project
	   
    - Algorithms
      - Covariates with only one value or category are not accepted anymore for population parameter estimation
	 
    - Monolix user API
      - documentation updated
      - Arguments 'Toggle' changed to 'Workflow' to reduce ambiguity
      - Added new function to know if Monolix packages is compatible with Matlab version
	   
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Monolix 4.2.1 (2013-02-15)
Bugs Fixes:
    - MLXTRAN Project : in STRUCTURAL_MODEL section resolved problem with path relative to %MLXPROJECT%
    - mlxEditor, mlxPerlScript : under Suse Linux OS, conflict with libstdc++ and Qt librairies installed on the OS.
    - Graphics : Kaplan Meier 
      - mean normalization
      - survival curve: case of censured data 
    - simulations where wrong in presence of correlation between individual parameters
    - MLXTRAN Model :
      - Events could be close at a numerical epsilon for the solver, but not for the solver driver
        Rarely, it resulted into an explicit integration failure, returning "NaN"
      - For the simulation of RTTE models, the ordering of the output names had to be alphabetical
      - Not declaring all regression variables that where selected from the data set crashed the application.
      - Declaring some PK without actual doses within the data set raised an error.
      - Using the deprecated syntax with several lagged compartments returned "NaN"
    - Algorithms
      - Error when some subjects had no doses in conditional mode computation
    - GUI
      - "Display the data" button did not update the information when the dataset was changed after running algorithms
      - Convergence assessment GUI failed when there where only one individual parameter
      - structural models with several dots (.) were not compiled when  clicking in the compile button in the Model selection GUI
      - projects with more outputs in structural model than observations in dataset caused an error when it is loaded
      - the editor was not saved in the preference file
    - Convergence assessment graphics did not handled correctly when there were not variances on some parameters or their covariate dependence
		
Enhancements:
    - add possibility to configure the compiler (used to create Structural Model plugins) through the file 'system.xmlx'
    - user API: 
      - it is possible now to use matlab function "ver" to know Monolix version and Monolix API version
    - mlxEditor:
      - allow multiple files selection on open file dialog box
      - add 'Find and replace'
      - set tabs movable
    - MLXTRAN Model :
      - Continuous observations can be declared within the model.
      - Macro for a depot absorption, with a target ODE component.
    - Permutation kernel for mcmc included
   
Other:
    - Licensing system : '.ini' files desactivated (only the '.lic' files are allowed)
    - residual error models in main interface are shown now with their full name (those used in MLXTRAN project and model)
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  Monolix 4.2.0 (2012-11-26)

Bugs Fixes:
    - MLXTRAN Project : in OBSERVATION section when a prediction has the same name as an individual parameter the project parses fail
    - PerlScript : bug with parameter '--use-matlab=false' was taken as 'true'
    - Identity line works in observations vs predictions graphic
    - Prediction distribution : percentiles are correctly displayed
    - Color when stratify in covariables graphic
    - Problem with prior (by default prior is Variance and not Standard Deviation, this implies a syntax error (standardDeviation <-> variance) 
    - Wrong data file for the demonstration project rtteWeibullCount_project.mlxtran
    - "Display the data" button did not work
    - bug when unchecking and checking "random effects" variability in simulation interface

Enhancements:
    - Interval censoring for continous data
    - Extended priors on fixed effects
    - Mlxtran model and Mlxtran project editor
    - Perl script HMI
    - Autosave
    - Multiple covariate definitions
    - Add batch-mode demo
    - Add a doc package and a rlm server package (floating license server)
    - Graphic
        - BLQ graphic : possibility to choose his own interval of censored data
        - Reorganisation of panel for list of graphics
        - Background color for each graphic in preferences
        - When split, limits are the same  for all axes
        - Obs. vs Pred., observations can be relied by individual
        - Optimal bandwidth setting for parameter distribution
        - CvSaem graphic : choice of axes number
    - Interval-censored data and maximum number of events for time-to-event and drop-out data models
    - Markov chain for categorical data
    - Continuous-time Markov process for categorical data
    - probit and normal cdf for Mlxtran model
    - New user API including simulation-estimation, convergence assessment and simulations tools
    - Possibility to define new covariates as transformation of already defined ones
    
New graphics:
    - Posterior and prior functions for bayesian
    - Individual contribution for the LL
    - Transition probabilities
    - Kaplan-Meier survival function
    
New tables:
    - Individual contribution to log-likelihood
    - Covariates summary
--------------

  Monolix 4.1.4 (2012-07-16)

Bugs Fixes:
    - Saving preferences from tools menu failed.
    - Display remaining time (license) correctly.
    - Problem with license activation file path.
    - Add license agreement into Linux installer.
    - The horizontal slider in "Check initial fixed effects" interface did not appear for some number of individual parameters.

Enhancements:
    - Windows 64 RC.
    - Management of the maximum number of threads for MLXTran models (can be set from the preference tools: MonolixGUI->Tools->Preference) 
    - License activate: inform user to not set activation key
      if the license is a floating license.
    - Documentation : 
        - Installation guide : Windows 64 bits.
        - User Guide : Cluster section revised.
        - Model MLxTRAN : list of keywords of the language.


--------------

  Monolix 4.1.3-sp2 (2012-05-29)

Enhancements:
    - system.xmlx : possibility to not display Lixoft Activate.
    - Lixoft Activate : add the possibility to send an email with encoded computer information to create license @Lixoft.
    - Lixoft Activate : manage "cannot connect to url" error by asking user to go on a web site or send an email.

Bugs Fixes:
    - IOV Problem with R2010bSP1
    - perlScripts : bug in the management of the configuration file for [program-execute-options] and run on a cluster.
    - add 'rlmutil.exe' for windows packages (forgotten in previous packages).
    - problem floating license.
    - warnings for occasions without dose were removed.
    - when the last Individual/Occasion had no dose, Monolix crashed.
    - When there were syntax errors in the structural model, monolix said that it could not find the file instead giving the MLXTRAN message
    - NaN observations are now mentionned as error when algorithms are launched.
    - Update documentation : in batch mode section, there is a bad path.
--------------

  Monolix 4.1.3-sp1 (2012-05-21)

Bug Fixes:
    - GUI:
        - Check Initial Fixed Effects interface crashed when creating covariate and parameter's sliders for some sizes
--------------

  Monolix 4.1.3 (2012-05-02)

New Features:
    - MLXTran model: allows negative categories
    - License management: uses RLM as license provider
    - Compiler manager: adds the possibility to choose the embedded compiler
    - The Monolix and Matlab versions are now stored in the algorithm result files

Bug Fixes:
    - MLXTRAN project: 
        - continuous transformation can take a mathematical expression
        - problem with structural model path
    - MLXTRAN model:
        - Under Linux 64 bits, due to library conflicts with Matlab R2010b and better, the multi-threaded
          loading of the model description for the project occasionally fails
        - Only the last table variable is recorded, overwriting the first one
    - Graphics: 
       - log / linear works on all graphics
       - when log-log scale is set for "observed versus predicted', the diagonal line isn't displayed anymore
    - GUI:
        - editor call did not work
    - Algorithms:
        - bug for individuals without some type of observations and with IOV computing conditional mode
        - bug when there were continuous outputs after discrete outputs
        - Fisher Information Matrix by Stochastic Appoximation does now handle better the case when there are 
          no parameters to estimate in the residual error
    - Session:
        - when the directory monolixData/monolix<version> is renamed during an active Monolix session, stopping 
        - Monolix caused an exit of Matlab. 

--------------

  Monolix 4.1.2: (2012-03-05)

--------------

New Features:
    - PerlScripts : possibility to save the results in the project directory instead of the output directory
    - In system.xmlx : automatically creates a directory hierarchy for 'monolixData' path

Enhancements:
    - MLXTran (structural model) multi-threading processing enhancement

Bug Fixes:
    - Batch Processing failed when a very large number of projects were launched
    - MDV column: when MDV=2 only the regression variables were taken into account
    - Fixed a bug in graphics saving
    - Fixed error when an empty result folder was timestamped
    - Simulation of categorical data, whenever no category 0 is defined
    - Fixed take into account UserPath defined in 'system.xmlx' for the preference file saving


--------------

  Monolix 4.1.1: (2012-02-13)

--------------

New Features:
    - timestamped backup
    - preferences interface
    - tools menu for activating license and preferences
    - option for locking structural model modifications
    - Project-MLXTRAN grammar modification : initialization of parameter is written now as beta_{pi,cov}, pop_{pi}, omega_{pi}, ...
    - save graphics as png / ps / jpg / bmp or tiff
    - selection of graphics/tables to be saved

Bug Fixes:
    - Project-MLXTran: user can define the result folder
    - LoQ difference between 3.2 and 4.1
    - statistical test for error model and covariate model
    - xmlx loading from 3.2 to 4.1
    - correlation (levelName consistence with IOV) + parser error
    - observation model (prediction = observation name)
    - path for MONOLIX user profile can include special characters 



--------------

  Monolix 4.1.0: (2012-01-23)

--------------

psmlx:
    - compatible with the mlxtran format of projects
    - available on Windows OS

mlxtran:
    - new syntax
    - PK macros
    - RTTE models

license:
    - interface for installing the license file

Interface:
    - setting for axes' limits
    - information for the observation model
    - shortcut for model libraries

File system:
    - improved handling of special characters for filepaths

Demos:
    - updated for the new mlxtran syntax
    - dispatch of the model library for demos

Known Bugs:
    - under Windows OS, user directory cannot contain special characters other than spaces



--------------

  Monolix 4.0.1: (2011-10-27)

--------------

psmlx:
    - use-matlab option didn't work in command line mode
    - multi-threading : multhreading didn't work
    - take account the p.coded files

mlxtran 
    - problem with FIM options : both linearization and stochasticApproximation appeared after a save with stochasticApproximation option set
    - avoid the unloading of project when settings files does not exist : default settings are loaded
license:
    - multi write database didn't work well in multi-threading mode

Interface:
    - save lists
    - configuration panel 
    - launching some graphics alone is now possible
    - the graphics were closed when "Use last estimates" were used
    - when monolix was launched twice without loading or creating a project, two toolbars were created

Algorithm and simulations:
    - simulation works now with dataset without EVID column and with MDV column

Results:
    - the graphics fit now to the paper in .ps files
    - xLabels were wrong for some graphics when several regression variables were present
    - some graphics  crashed when launched after some hypotheses tests were done
    - Visual studio redistribuable problem

