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Diff for /imach/src/ChangeLog between versions 1.6 and 1.34

version 1.6, 2003/06/17 20:16:05 version 1.34, 2014/08/28 07:52:45
Line 1 Line 1
 2003-06-17  Brouard Nicolas  <brouard@homebrou>  2014-01-26  Nicolas J Brouard   <nbrouard@ledermann-2.local>
   
         * imach.c (Repository): Check when date of death was earlier that          * imach.c (Module): Trying to merge old staffs together while being at Tokyo. Not tested...
         current date of interview. It may happen when the death was just          (Module): Version 0.98nR Running ok, but output format still only works for three covariates.
         prior to the death. In this case, dh was negative and likelihood  
         was wrong (infinity). We still send an "Error" but patch by  2010-04-29  brouard  <brouard@ined.fr>
         assuming that the date of death was just one stepm after the  
         interview.          * imach.c (Module): Checking covariates for more complex models
         (Repository): Because some people have very long ID (first column)          than V1+V2. A lot of change to be done. Unstable.
         we changed int to long in num[] and we added a new lvector for  
         memory allocation. But we also truncated to 8 characters (left  2010-04-26  brouard  <brouard@ined.fr>
         truncation)  
         (Repository): No more line truncation errors.          * imach.c (Module): merging some libgsl code. Fixing computation
           of likelione (using inter/intrapolation if mle = 0) in order to
 2003-06-14  Brouard Nicolas  <brouard@homebrou>          get same likelihood as if mle=1.
           Some cleaning of code and comments added.
         * imach.c (Repository): Add of a routine likelione (likelihood  
         only once) which prints on a text file  2009-10-29  brouard  <brouard@ined.fr>
         (ilk) the contributions to the likelihood for each  
         individual/wave.          * imach.c (Module): Now imach stops if date of birth, at least year of birth, is not given. Some cleaning of the code.
   
 2003-06-13  Brouard Nicolas  <brouard@homebrou>  2006-06-30  Brouard Nicolas  <brouard@localhost>
   
         * imach.c (Repository): Replace "freqsummary" at a correct          * imach.c (Module): Clarifications on computing e.j
         place. It differs from routine "prevalence" which may be called  
         many times. Probs is memory consuming and must be used with  2006-04-28  Brouard Nicolas  <brouard@localhost>
         parcimony.  
           * imach.c (Module): Yes the sum of survivors was wrong since
 2003-06-17    <brouard@BROUARD>          imach-114 because nhstepm was no more computed in the age
           loop. Now we define nhstepma in the age loop.
         * timeval.h (Module): Added included file to make use of          (Module): In order to speed up (in case of numerous covariates) we
         gettimeofday working on win32 with cygwin.          compute health expectancies (without variances) in a first step
           and then all the health expectancies with variances or standard
 2003-05-16  Brouard Nicolas  <brouard@brouard>          deviation (needs data from the Hessian matrices) which slows the
           computation.
         * imach.c (Module): Insert of a warning if the delay between two          In the future we should be able to stop the program is only health
         waves is negative.          expectancies and graph are needed without standard deviations.
   
         * imach.c (Module):  2006-04-04  LIEVRE Agnes  <lievre@PC_00697.ined.fr>
   
 2003-05-03    <brouard@BROUARD>          * imach.iss (Module):
   
         * imach.c: Some cleaning          * imach.c (Module): bugs in evsi + population file added in htm output file
 2003-03-28    <brouard@BROUARD>  
   2006-03-22  LIEVRE Agnes  <lievre@PC_00697.ined.fr>
         * imach.c (Module): In version up to 0.92 likelihood was computed  
         as if date of death was unknown. Death was treated as any other          * imach.c (Module):
         health state: the date of the interview describes the actual state  
         and not the date of a change in health state. The former idea was  2006-03-20  Brouard Nicolas  <brouard@localhost>
         to consider that at each interview the state was recorded  
         (healthy, disable or death) and IMaCh was corrected; but when we          * imach.c (Module): <title> changed, corresponds to .htm file
         introduced the exact date of death then we should have modified          name. <head> headers where missing.
         the contribution of an exact death to the likelihood. This new  
         contribution is smaller and very dependent of the step unit          * Makefile (Module): 0.98g
         stepm. It is no more the probability to die between last interview  
         and month of death but the probability to survive from last          * imach.c (Module): Weights can have a decimal point as for
         interview up to one month before death multiplied by the          English (a comma might work with a correct LC_NUMERIC environment,
         probability to die within a month. Thanks to Chris          otherwise the weight is truncated).
         Jackson for correcting this bug.  Former versions increased          Modification of warning when the covariates values are not 0 or
         mortality artificially. The bad side is that we add another loop          1.
         which slows down the processing. The difference can be up to 10%          Version 0.98g
         lower mortality.  
   2006-03-16  LIEVRE Agnes  <lievre@PC_00697.ined.fr>
 2002-05-30    <brouard@BROUARD>  
           * imach.c (Module): Comments concerning covariates added
         *  
           * noreg-setup.iss (Module): Version 0.98f
         * imach.c (Module): Add correlation matrix of one-step  
         probabilities and covariance matrix          * Makefile (Module): Version 0.98f make _windows=1 imachcyg-setup
   
           * imach.c (Module): refinements in the computation of lli if
           status=-2 in order to have more reliable computation if stepm is
           not 1 month. Version 0.98f
   
   2006-03-15  Brouard Nicolas  <brouard@localhost>
   
           * imach.c (Module): Bug if status = -2, the loglikelihood was
           computed as likelihood omitting the logarithm. Version O.98e
   
   2006-03-14  Brouard Nicolas  <brouard@localhost>
   
           * imach.c (Module): varevsij Comments added explaining the second
           table of variances if popbased=1 .
           (Module): Covariances of eij, ekl added, graphs fixed, new html link.
           (Module): Function pstamp added
           (Module): Version 0.98d
   
   2006-03-06  Brouard Nicolas  <brouard@localhost>
   
           * imach.c (Module): Variance-covariance wrong links and
           varian-covariance of ej. is needed (Saito).
   
   2006-02-27  Brouard Nicolas  <brouard@localhost>
   
           * imach.c (Module): One freematrix added in mlikeli!
   
   2006-02-26  Brouard Nicolas  <brouard@localhost>
   
           * imach.c (Module): Some improvements in processing parameter
           filename with strsep.
   
   2006-02-24  Brouard Nicolas  <brouard@localhost>
   
           * imach.c (Module): Memory leaks checks with valgrind and:
           datafile was not closed, some imatrix were not freed and on matrix
           allocation too.
   
   2006-02-09  LIEVRE Agnes  <lievre@PC_00697.ined.fr>
   
           * strsep.c (Module): Inclusion because not in mingw32!!!
   
           * setup.iss.in (Module): IMACHSETUPVERSION added
   
           * noreg-setup.iss (Module): added to cvs tree
   
           * Makefile (Module): IMACHSETUPVERSION added
   
   2006-01-30  BROUARD Nicolas  <brouard@localhost>
   
           * Makefile (Module, Module): Latest Makefile
   
           * imach.c (Module): Back to gnuplot.exe instead of wgnuplot.exe
   
   2006-01-27  BROUARD Nicolas  <brouard@localhost>
   
           * noreg-setup.iss (Module): ADDED
   
   2006-01-24  BROUARD Nicolas  <brouard@localhost>
   
           * imach.c (Module): Comments (lines starting with a #) are allowed in data.
   
   2005-10-25  Nicolas Brouard  <brouard@dhcp171.recherche.ined.fr>
   
           * Makefile (Module): Added Imach98.pmsp and howto crete a dmg
   
           * createdmg.sh (Module): Creates a dmg disk for MaC OS/X
   
   2005-09-30    <lievre@PC_00595>
   
           * imach.c (Module): sump fixed, loop imx fixed, and simplifications.
           (Module): If the status is missing at the last wave but we know
           that the person is alive, then we can code his/her status as -2
           (instead of missing=-1 in earlier versions) and his/her
           contributions to the likelihood is 1 - Prob of dying from last
           health status (= 1-p13= p11+p12 in the easiest case of somebody in
           the healthy state at last known wave). Version is 0.98
   
   2004-05-20  Brouard Nicolas  <brouard@localhost>
   
           * imach.c (Repository):
           Agnes added a direct estimation of mortality (without the need of
           computing period prevalence and differential mortality). Thus here
           is version 0.97a which has been distributed to some people at
           REVES 16 in Brugge using an Inno setup.exe for PCs. Estimates of
           mortality using covariates is not done today. Estimating direct
           mortality is a very different process because it doesn't need
           interpolation because it is easy to get the lx from the force of
           the mortality mux in the simplest case as for a Gompertz (log mux
           = a + b*x . But we have been able to incorporate the new code
           within former imach program (0.96d) without deteriorating too much
           the understanding of the program.
   
   2003-06-25    <brouard@BROUARD>
   
           * imach.c (Module): On windows (cygwin) function asctime_r doesn't
           exist so I changed back to asctime which exists.
           (Module): Version 0.96b
   
   2003-06-24    <brouard@BROUARD>
   
           * imach.c (Module): Some bugs corrected for windows. Also, when
           mle=-1 a template is output in file "or"mypar.txt with the design
           of the covariance matrix to be input.
   
   2003-06-25  Brouard Nicolas  <brouard@homebrou>
   
           * imach.c (Repository): Duplicated warning errors corrected.
           (Repository): Elapsed time after each iteration is now output. It
           helps to forecast when convergence will be reached. Elapsed time
           is stamped in powell.  We created a new html file for the graphs
           concerning matrix of covariance. It has extension -cov.htm.
   
   2003-06-23  Brouard Nicolas  <brouard@homebrou>
   
           * imach.c (Repository): Create a sub-directory where all the secondary files are. Only imach, htm, gp and r(imach) are on the main directory. Correct time and other things.
   
   2003-06-18  Brouard Nicolas  <brouard@homebrou>
   
           * imach.c (Repository): Suppress abusive calls to append to file html (solution was to put fichtm as a global variable. Version 0.96
   
   2003-06-17  Brouard Nicolas  <brouard@homebrou>
   
   
           * imach.c (Repository): Check when date of death was earlier that
           current date of interview. It may happen when the death was just
           prior to the death. In this case, dh was negative and likelihood
           was wrong (infinity). We still send an "Error" but patch by
           assuming that the date of death was just one stepm after the
           interview.
           (Repository): Because some people have very long ID (first column)
           we changed int to long in num[] and we added a new lvector for
           memory allocation. But we also truncated to 8 characters (left
           truncation)
   
           (Repository): No more line truncation errors.
   
   2003-06-14  Brouard Nicolas  <brouard@homebrou>
   
           * imach.c (Repository): Add of a routine likelione (likelihood
           only once) which prints on a text file
           (ilk) the contributions to the likelihood for each
           individual/wave.
   
   2003-06-13  Brouard Nicolas  <brouard@homebrou>
           * imach.c (Repository): Replace "freqsummary" at a correct
           place. It differs from routine "prevalence" which may be called
           many times. Probs is memory consuming and must be used with
           parcimony.
   
   2003-06-17    <brouard@BROUARD>
   
           * timeval.h (Module): Added included file to make use of
           gettimeofday working on win32 with cygwin.
   
   2003-05-16  Brouard Nicolas  <brouard@brouard>
           * imach.c (Module): Insert of a warning if the delay between two
           waves is negative.
   
           * imach.c (Module):
   
   2003-05-03    <brouard@BROUARD>
   
           * imach.c: Some cleaning
   
   2003-03-28    <brouard@BROUARD>
           * imach.c (Module): In version up to 0.92 likelihood was computed
           as if date of death was unknown. Death was treated as any other
           health state: the date of the interview describes the actual state
           and not the date of a change in health state. The former idea was
           to consider that at each interview the state was recorded
           (healthy, disable or death) and IMaCh was corrected; but when we
           introduced the exact date of death then we should have modified
           the contribution of an exact death to the likelihood. This new
           contribution is smaller and very dependent of the step unit
           stepm. It is no more the probability to die between last interview
           and month of death but the probability to survive from last
           interview up to one month before death multiplied by the
           probability to die within a month. Thanks to Chris
           Jackson for correcting this bug.  Former versions increased
           mortality artificially. The bad side is that we add another loop
   
   
           which slows down the processing. The difference can be up to 10%
   
   
           lower mortality.
   
   
   
   
   
   2002-05-30    <brouard@BROUARD>
   
   
   
   
   
           *
   
   
   
   
   
           * imach.c (Module): Add correlation matrix of one-step
   
   
           probabilities and covariance matrix
   
   
   
   
   
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  Added in v.1.34

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