Annotation of imach/src/ChangeLog, revision 1.33

1.33    ! brouard     1: 2010-04-29  brouard  <brouard@ined.fr>
        !             2: 
        !             3:        * imach.c (Module): Checking covariates for more complex models
        !             4:        than V1+V2. A lot of change to be done. Unstable.
        !             5: 
        !             6: 2010-04-26  brouard  <brouard@ined.fr>
        !             7: 
        !             8:        * imach.c (Module): merging some libgsl code. Fixing computation
        !             9:        of likelione (using inter/intrapolation if mle = 0) in order to
        !            10:        get same likelihood as if mle=1.
        !            11:        Some cleaning of code and comments added.
        !            12: 
1.32      brouard    13: 2009-10-29  brouard  <brouard@ined.fr>
                     14: 
                     15:        * imach.c (Module): Now imach stops if date of birth, at least year of birth, is not given. Some cleaning of the code.
                     16: 
1.31      brouard    17: 2006-06-30  Brouard Nicolas  <brouard@localhost>
                     18: 
                     19:        * imach.c (Module): Clarifications on computing e.j
                     20: 
1.30      brouard    21: 2006-04-28  Brouard Nicolas  <brouard@localhost>
                     22: 
                     23:        * imach.c (Module): Yes the sum of survivors was wrong since
                     24:        imach-114 because nhstepm was no more computed in the age
                     25:        loop. Now we define nhstepma in the age loop.
1.31      brouard    26:        (Module): In order to speed up (in case of numerous covariates) we
                     27:        compute health expectancies (without variances) in a first step
                     28:        and then all the health expectancies with variances or standard
                     29:        deviation (needs data from the Hessian matrices) which slows the
                     30:        computation.
                     31:        In the future we should be able to stop the program is only health
                     32:        expectancies and graph are needed without standard deviations.
1.30      brouard    33: 
1.29      lievre     34: 2006-04-04  LIEVRE Agnes  <lievre@PC_00697.ined.fr>
                     35: 
                     36:        * imach.iss (Module): 
                     37: 
                     38:        * imach.c (Module): bugs in evsi + population file added in htm output file
                     39: 
                     40: 2006-03-22  LIEVRE Agnes  <lievre@PC_00697.ined.fr>
                     41: 
                     42:        * imach.c (Module): 
                     43: 
1.27      brouard    44: 2006-03-20  Brouard Nicolas  <brouard@localhost>
                     45: 
1.28      brouard    46:        * imach.c (Module): <title> changed, corresponds to .htm file
                     47:        name. <head> headers where missing.
                     48: 
1.27      brouard    49:        * Makefile (Module): 0.98g
                     50: 
                     51:        * imach.c (Module): Weights can have a decimal point as for
                     52:        English (a comma might work with a correct LC_NUMERIC environment,
                     53:        otherwise the weight is truncated).
                     54:        Modification of warning when the covariates values are not 0 or
                     55:        1. 
                     56:        Version 0.98g
                     57: 
1.24      lievre     58: 2006-03-16  LIEVRE Agnes  <lievre@PC_00697.ined.fr>
                     59: 
1.26      lievre     60:        * imach.c (Module): Comments concerning covariates added
                     61: 
1.25      lievre     62:        * noreg-setup.iss (Module): Version 0.98f
                     63: 
1.24      lievre     64:        * Makefile (Module): Version 0.98f make _windows=1 imachcyg-setup
                     65: 
                     66:        * imach.c (Module): refinements in the computation of lli if
                     67:        status=-2 in order to have more reliable computation if stepm is
                     68:        not 1 month. Version 0.98f
                     69: 
1.22      brouard    70: 2006-03-15  Brouard Nicolas  <brouard@localhost>
                     71: 
                     72:        * imach.c (Module): Bug if status = -2, the loglikelihood was
                     73:        computed as likelihood omitting the logarithm. Version O.98e
                     74: 
1.21      brouard    75: 2006-03-14  Brouard Nicolas  <brouard@localhost>
                     76: 
                     77:        * imach.c (Module): varevsij Comments added explaining the second
                     78:        table of variances if popbased=1 .
                     79:        (Module): Covariances of eij, ekl added, graphs fixed, new html link.
                     80:        (Module): Function pstamp added
                     81:        (Module): Version 0.98d 
                     82: 
1.20      brouard    83: 2006-03-06  Brouard Nicolas  <brouard@localhost>
                     84: 
                     85:        * imach.c (Module): Variance-covariance wrong links and
                     86:        varian-covariance of ej. is needed (Saito).
                     87: 
1.19      brouard    88: 2006-02-27  Brouard Nicolas  <brouard@localhost>
                     89: 
                     90:        * imach.c (Module): One freematrix added in mlikeli!
                     91: 
                     92: 2006-02-26  Brouard Nicolas  <brouard@localhost>
                     93: 
                     94:        * imach.c (Module): Some improvements in processing parameter
                     95:        filename with strsep.
                     96: 
                     97: 2006-02-24  Brouard Nicolas  <brouard@localhost>
                     98: 
                     99:        * imach.c (Module): Memory leaks checks with valgrind and:
                    100:        datafile was not closed, some imatrix were not freed and on matrix
                    101:        allocation too.
                    102: 
1.16      lievre    103: 2006-02-09  LIEVRE Agnes  <lievre@PC_00697.ined.fr>
                    104: 
1.18      lievre    105:        * strsep.c (Module): Inclusion because not in mingw32!!!
                    106: 
1.17      lievre    107:        * setup.iss.in (Module): IMACHSETUPVERSION added
                    108: 
                    109:        * noreg-setup.iss (Module): added to cvs tree
                    110: 
1.16      lievre    111:        * Makefile (Module): IMACHSETUPVERSION added
                    112: 
1.15      brouard   113: 2006-01-30  BROUARD Nicolas  <brouard@localhost>
                    114: 
1.23      brouard   115:        * Makefile (Module, Module): Latest Makefile
                    116: 
1.15      brouard   117:        * imach.c (Module): Back to gnuplot.exe instead of wgnuplot.exe
                    118: 
                    119: 2006-01-27  BROUARD Nicolas  <brouard@localhost>
                    120: 
                    121:        * noreg-setup.iss (Module): ADDED
                    122: 
                    123: 2006-01-24  BROUARD Nicolas  <brouard@localhost>
                    124: 
                    125:        * imach.c (Module): Comments (lines starting with a #) are allowed in data.
                    126: 
1.14      brouard   127: 2005-10-25  Nicolas Brouard  <brouard@dhcp171.recherche.ined.fr>
                    128: 
                    129:        * Makefile (Module): Added Imach98.pmsp and howto crete a dmg
                    130: 
                    131:        * createdmg.sh (Module): Creates a dmg disk for MaC OS/X
                    132: 
1.12      lievre    133: 2005-09-30    <lievre@PC_00595>
                    134: 
                    135:        * imach.c (Module): sump fixed, loop imx fixed, and simplifications.
1.13      lievre    136:        (Module): If the status is missing at the last wave but we know
                    137:        that the person is alive, then we can code his/her status as -2
                    138:        (instead of missing=-1 in earlier versions) and his/her
                    139:        contributions to the likelihood is 1 - Prob of dying from last
                    140:        health status (= 1-p13= p11+p12 in the easiest case of somebody in
                    141:        the healthy state at last known wave). Version is 0.98 
1.12      lievre    142: 
1.11      brouard   143: 2004-05-20  Brouard Nicolas  <brouard@localhost>
                    144: 
                    145:        * imach.c (Repository): 
                    146:        Agnes added a direct estimation of mortality (without the need of
                    147:        computing period prevalence and differential mortality). Thus here
                    148:        is version 0.97a which has been distributed to some people at
                    149:        REVES 16 in Brugge using an Inno setup.exe for PCs. Estimates of
                    150:        mortality using covariates is not done today. Estimating direct
                    151:        mortality is a very different process because it doesn't need
                    152:        interpolation because it is easy to get the lx from the force of
                    153:        the mortality mux in the simplest case as for a Gompertz (log mux
                    154:        = a + b*x . But we have been able to incorporate the new code
                    155:        within former imach program (0.96d) without deteriorating too much
                    156:        the understanding of the program. 
                    157: 
1.10      brouard   158: 2003-06-25    <brouard@BROUARD>
                    159: 
                    160:        * imach.c (Module): On windows (cygwin) function asctime_r doesn't
                    161:        exist so I changed back to asctime which exists.
                    162:        (Module): Version 0.96b
                    163: 
                    164: 2003-06-24    <brouard@BROUARD>
                    165: 
                    166:        * imach.c (Module): Some bugs corrected for windows. Also, when
                    167:        mle=-1 a template is output in file "or"mypar.txt with the design
                    168:        of the covariance matrix to be input.
                    169: 
1.9       brouard   170: 2003-06-25  Brouard Nicolas  <brouard@homebrou>
                    171: 
                    172:        * imach.c (Repository): Duplicated warning errors corrected.
                    173:        (Repository): Elapsed time after each iteration is now output. It
                    174:        helps to forecast when convergence will be reached. Elapsed time
                    175:        is stamped in powell.  We created a new html file for the graphs
                    176:        concerning matrix of covariance. It has extension -cov.htm.
                    177: 
1.8       brouard   178: 2003-06-23  Brouard Nicolas  <brouard@homebrou>
                    179: 
                    180:        * 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.
                    181: 
                    182: 2003-06-18  Brouard Nicolas  <brouard@homebrou>
                    183: 
                    184:        * imach.c (Repository): Suppress abusive calls to append to file html (solution was to put fichtm as a global variable. Version 0.96
                    185: 
1.7       brouard   186: 2003-06-17  Brouard Nicolas  <brouard@homebrou>
                    187: 
                    188: 
                    189:        * imach.c (Repository): Check when date of death was earlier that
                    190:        current date of interview. It may happen when the death was just
                    191:        prior to the death. In this case, dh was negative and likelihood
                    192:        was wrong (infinity). We still send an "Error" but patch by
                    193:        assuming that the date of death was just one stepm after the
                    194:        interview.
                    195:        (Repository): Because some people have very long ID (first column)
                    196:        we changed int to long in num[] and we added a new lvector for
                    197:        memory allocation. But we also truncated to 8 characters (left
                    198:        truncation)
                    199: 
                    200:        (Repository): No more line truncation errors.
                    201: 
                    202: 2003-06-14  Brouard Nicolas  <brouard@homebrou>
                    203: 
                    204:        * imach.c (Repository): Add of a routine likelione (likelihood
                    205:        only once) which prints on a text file
                    206:        (ilk) the contributions to the likelihood for each
                    207:        individual/wave.
                    208: 
                    209: 2003-06-13  Brouard Nicolas  <brouard@homebrou>
                    210:        * imach.c (Repository): Replace "freqsummary" at a correct
                    211:        place. It differs from routine "prevalence" which may be called
                    212:        many times. Probs is memory consuming and must be used with
                    213:        parcimony.
                    214: 
                    215: 2003-06-17    <brouard@BROUARD>
                    216: 
                    217:        * timeval.h (Module): Added included file to make use of
                    218:        gettimeofday working on win32 with cygwin.
                    219: 
                    220: 2003-05-16  Brouard Nicolas  <brouard@brouard>
                    221:        * imach.c (Module): Insert of a warning if the delay between two
                    222:        waves is negative.
                    223: 
                    224:        * imach.c (Module): 
                    225: 
                    226: 2003-05-03    <brouard@BROUARD>
                    227: 
                    228:        * imach.c: Some cleaning
                    229: 
                    230: 2003-03-28    <brouard@BROUARD>
                    231:        * imach.c (Module): In version up to 0.92 likelihood was computed
                    232:        as if date of death was unknown. Death was treated as any other
                    233:        health state: the date of the interview describes the actual state
                    234:        and not the date of a change in health state. The former idea was
                    235:        to consider that at each interview the state was recorded
                    236:        (healthy, disable or death) and IMaCh was corrected; but when we
                    237:        introduced the exact date of death then we should have modified
                    238:        the contribution of an exact death to the likelihood. This new
                    239:        contribution is smaller and very dependent of the step unit
                    240:        stepm. It is no more the probability to die between last interview
                    241:        and month of death but the probability to survive from last
                    242:        interview up to one month before death multiplied by the
                    243:        probability to die within a month. Thanks to Chris
                    244:        Jackson for correcting this bug.  Former versions increased
                    245:        mortality artificially. The bad side is that we add another loop
                    246: 
                    247: 
                    248:        which slows down the processing. The difference can be up to 10%
                    249: 
                    250: 
                    251:        lower mortality.
                    252: 
                    253: 
                    254: 
                    255: 
                    256: 
                    257: 2002-05-30    <brouard@BROUARD>
                    258: 
                    259: 
                    260: 
                    261: 
                    262: 
                    263:        * 
                    264: 
                    265: 
                    266: 
                    267: 
                    268: 
                    269:        * imach.c (Module): Add correlation matrix of one-step
                    270: 
                    271: 
                    272:        probabilities and covariance matrix
                    273: 
                    274: 
                    275: 
                    276: 
                    277: 

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