Annotation of imach/src/ChangeLog, revision 1.60

1.60    ! brouard     1: 2022-09-11  Nicolas Brouard   <brouard@ined.fr>
        !             2: 
        !             3:        * imach.c (Module): Adding timevarying products of any kinds,
        !             4:        should work before shifting cotvar from ncovcol+nqv columns in
        !             5:        order to have a correspondance between the column of cotvar and
        !             6:        the id of column.
        !             7: 
        !             8: 2022-09-09  Nicolas Brouard   <brouard@ined.fr>
        !             9: 
        !            10:        * imach.c (Module): Many improvements for fixing products of fixed
        !            11:        timevarying as well as fixed * fixed, and test with quantitative
        !            12:        covariate.
        !            13: 
1.59      brouard    14: 2022-09-04  Nicolas Brouard   <brouard@ined.fr>
                     15: 
                     16:        * imach.c (Module): Now the easy runs i.e. without result or
                     17:        model=1+age only did not work. The defautl combination should be 1
                     18:        and not 0 because everything hasn't been tranformed yet.
                     19: 
                     20: 2022-09-02  Nicolas Brouard   <brouard@ined.fr>
                     21: 
                     22:        * imach.c: Version 0.99r35 because it outputs same results with
                     23:        1+age+V1+V1*age for females and 1+age for females only
                     24:        (education=1 noweight)
                     25: 
1.58      brouard    26: 2022-08-31  Nicolas Brouard   <brouard@ined.fr>
                     27: 
                     28:        * imach.c (Module): Some improvments in fichtm and many verifications 0.99r34
                     29: 
1.56      brouard    30: 2022-08-21  Nicolas Brouard   <brouard@ined.fr>
                     31: 
                     32:        * imach.c (Module): Version 0.99r33 A lot of changes in
                     33:        reassigning covariates: my first idea was that people will always
                     34:        use the first covariate V1 into the model but in fact they are
                     35:        producing data with many covariates and can use an equation model
                     36:        with some of the covariate; it means that in a model V2+V3 instead
                     37:        of codtabm(k,Tvaraff[j]) which calculates for combination k, for
                     38:        three covariates (V1, V2, V3) the value of Tvaraff[j], but in fact
                     39:        the equation model is restricted to two variables only (V2, V3)
                     40:        and the combination for V2 should be codtabm(k,1) instead of
                     41:        (codtabm(k,2), and the code should be
                     42:        codtabm(k,TnsdVar[Tvaraff[j]]. Many many changes have been
                     43:        made. All of these should be simplified once a day like we did in
                     44:        hpxij() for example by using precov[nres] which is computed in
                     45:        decoderesult for each nres of each resultline. Loop should be done
                     46:        on the equation model globally by distinguishing only product with
                     47:        age (which are changing with age) and no more on type of
                     48:        covariates, single dummies, single covariates. 
                     49: 
                     50: 2022-08-06  Nicolas Brouard   <brouard@ined.fr>
                     51: 
                     52:        *  imach.c (Module): Version of imach using partly decoderesult to rebuild xpxij function
                     53: 
                     54: 2022-08-03  Nicolas Brouard   <brouard@ined.fr>
                     55: 
                     56:        *  imach.c (Module): Many errors in graphs fixed with Vn*age covariates.
                     57: 
1.55      brouard    58: 2022-07-25  Brouard Nicolas  <brouard@brouard.name>
                     59: 
                     60:        * imach.c (Module): Error cptcovn instead of nsd in bmij (was
                     61:        coredumped, revealed by Feiuno, thank you.
1.57      brouard    62: 
                     63: 2022-07-23  Nicolas Brouard   <brouard@ined.fr>
                     64: 
                     65:        * r29 W and not sqrt(Wald)
                     66: 
                     67: 2022-07-22  Nicolas Brouard   <brouard@ined.fr>
                     68: 
                     69:        *  imach.c (Module): Output of Wald test in the htm file and not only in the log. 
                     70: 
1.55      brouard    71: 2022-06-02  Brouard Nicolas  <brouard@brouard.name>
                     72: 
                     73:        * imach.c (Module): Adding the Wald tests from the log to the main
                     74:        htm for better display of the maximum likelihood estimators.
                     75: 
                     76: 2022-05-30  Brouard Nicolas  <brouard@brouard.name>
                     77: 
                     78:        * imach.c: With products of covariates (age or dummies or
                     79:        quantitatives), estimates of parameters were good but when
                     80:        estimating variances the positions of newly created covariates
                     81:        were wrongly assigned and results were wrong. Thank to Feinua_Sun!
                     82: 
                     83: 2022-05-24  Nicolas Brouard   <brouard@ined.fr>
                     84: 
                     85:        * imach.c (Module): Some attempts to find a bug of wrong estimates
                     86:        of confidencce intervals with product in the equation modelC
                     87: 
                     88: 2022-05-15  Nicolas Brouard   <brouard@ined.fr>
                     89: 
                     90:        * imach.c (Module):  Some minor improvements
                     91: 
                     92: 2022-04-13  Brouard Nicolas  <brouard@brouard.name>
                     93: 
                     94:        * imach.c (Module): Adding link to text data files
                     95: 
                     96: 2022-04-11  Nicolas Brouard   <brouard@ined.fr>
                     97: 
                     98:        * imach.c (Module): Error in rewriting the 'r' file with yearsfproj or yearsbproj fixed
                     99: 
                    100: 2022-04-05  Brouard Nicolas  <brouard@ined.fr>
                    101: 
                    102:        * imach.c (Module): Fixed covariates (dummy or quantitative)
                    103:        with missing values have never been allowed but are ERRORS and
                    104:        program quits. Standard deviations of fixed covariates were
                    105:        wrongly computed. Mean and standard deviations of time varying
                    106:        covariates are still not computed.
                    107: 
                    108: 2022-03-17  Brouard Nicolas  <brouard@ined.fr>
                    109: 
                    110:        * 99r25 Improvements in fixing discrepancies between covariates
                    111:        missing in result line but in model. 
                    112: 
                    113: *Wed Mar 31 2021  Nicolas Brouard   <brouard@ined.fr>
                    114:        * imach.c (Module): Still bugs in the result loop. Thank to Holly Benett
                    115: 
                    116: *2021-03-08  Nicolas Brouard   <brouard@ined.fr>
                    117: 
                    118:        * ./ (Module): Fixed bug on result:
                    119: 
                    120: *2021-02-20  Nicolas Brouard   <brouard@ined.fr>
                    121: 
                    122:        * imach.c (Module): Fix bug on quitting after result lines!
                    123:        (Module): Version 0.99r21
                    124: 
                    125: 2021-02-12  Nicolas Brouard   <brouard@ined.fr>
                    126: 
                    127:        * imach.c (Module): The use of a Windows BOM (huge) file is now an error
                    128: 
                    129: 
                    130: 2021-02-11  Nicolas  Brouard   <brouard@ined.fr>
                    131: 
                    132:        *  (Module): imach.c Someone entered 'results:' instead of 'result:'. Now it is an error which is printed.
                    133: 
                    134: 2020-02-22  Brouard Nicolas  <brouard@ined.fr>
                    135: 
                    136:        *  (Module): imach.c Update mle=-3 (for computing Life expectancy
                    137:        and life table from the data without any state)
                    138: 
                    139: 2019-05-20  Brouard Nicolas  <brouard@ined.fr>
                    140: 
                    141:        * version.h: Summary: version 0.99.r19
                    142: 
                    143:        * imach.c: Summary: Projection syntax simplified
                    144:        We can now start projections, forward or backward, from the mean date
                    145:        of inteviews up to or down to a number of years of projection:
                    146:        prevforecast=1 yearsfproj=15.3 mobil_average=0
                    147:        or
                    148:        prevforecast=1 starting-proj-date=1/1/2007 final-proj-date=12/31/2017 mobil_average=0
                    149:        or
                    150:        prevbackcast=1 yearsbproj=12.3 mobil_average=1
                    151:        or
                    152:        prevbackcast=1 starting-back-date=1/10/1999 final-back-date=1/1/1985 mobil_average=1
                    153: 
                    154: 2019-05-18  Brouard Nicolas  <brouard@ined.fr>
                    155: 
                    156:        * imach.c: Summary: doxygen tex bug
                    157: 
                    158: 2019-05-16  Brouard Nicolas  <brouard@ined.fr>
                    159: 
                    160:        * imach.c: Summary: There was some wrong lines added
                    161: 
                    162: 2019-05-09  Brouard Nicolas  <brouard@ined.fr>
                    163: 
                    164:        * Makefile, imach.c: *** empty log message ***
                    165: 
                    166:        * ChangeLog: Summary: C=
                    167: 
                    168:        * imach.c: Summary: Some updates
                    169: 
                    170:        * imach.c: Summary: Before ncovmax
                    171: 
                    172:        * version.h: *** empty log message ***
                    173: 
                    174:        * imach.c: Summary: 0.99r18 unlimited number of individuals
                    175:        The number n which was limited to 20,000 cases is now unlimited, from firstobs to lastobs. If the number is too for the virtual memory, probably an error will occur.
                    176: 
                    177: 2018-12-13  Brouard Nicolas  <brouard@ined.fr>
                    178: 
                    179:        * imach.c: Summary: Bug for young ages (<-30) will be in r17
                    180: 
                    181: 2018-12-05  Brouard Nicolas  <brouard@ined.fr>
                    182: 
                    183:        * Makefile: Summary: 0.99r16
                    184: 
                    185: 2018-05-02  Brouard Nicolas  <brouard@ined.fr>
                    186: 
                    187:        * imach.c: Summary: Some bugs fixed
                    188: 
                    189: 2018-05-02  Brouard Nicolas  <brouard@ined.fr>
                    190: 
                    191:        * imach.c:  Summary: Bug for young ages (<-30) will be in r17
                    192: 
                    193: 2018-05-02  Brouard Nicolas  <brouard@ined.fr>
                    194: 
                    195:        * imach.c: Summary: Some bugs fixed
                    196: 
                    197: 2018-05-01  Brouard Nicolas  <brouard@ined.fr>
                    198: 
                    199:        * imach.c:
                    200:        Summary: Bug fixed by providing frequencies only for non missing covariates
                    201: 
                    202: 2018-04-27  Brouard Nicolas  <brouard@ined.fr>
                    203: 
                    204:        * imach.c: Summary: some minor bugs
                    205: 
                    206: 2018-04-21  Brouard Nicolas  <brouard@ined.fr>
                    207: 
                    208:        * README.txt: *** empty log message ***
                    209: 
                    210:        * imach.c: Summary: Some bugs fixed, valgrind tested
                    211: 
                    212: 2018-04-20  Brouard Nicolas  <brouard@ined.fr>
                    213: 
                    214:        * Makefile, README.txt, setup.iss: Summary: imach 0.99r16
                    215: 
                    216:        * imach.c:
                    217:        Summary: Computing mean and stdeviation of fixed quantitative variables
                    218: 
                    219: 2018-04-19  Brouard Nicolas  <brouard@ined.fr>
                    220: 
                    221:        * imach.c: Summary: Some minor bugs fixed
                    222: 
                    223:        * version.h: *** empty log message ***
                    224: 
                    225: 2018-02-27  Brouard Nicolas  <brouard@ined.fr>
                    226: 
                    227:        * imach.c: *** empty log message ***
                    228: 
                    229:        * imach.c: Summary: Adding second argument for quitting
                    230: 
                    231: 2018-02-21  Brouard Nicolas  <brouard@ined.fr>
                    232: 
                    233:        * Makefile, README.txt, imach.c: Summary: 0.99r15
                    234:        New Makefile with recent VirtualBox 5.26. Bug in sqrt negatve in imach.c
                    235: 
                    236: 2017-07-20  Brouard Nicolas  <brouard@ined.fr>
                    237: 
                    238:        * imach.c: Summary: temporary working
                    239: 
                    240: 2017-07-19  Brouard Nicolas  <brouard@ined.fr>
                    241: 
                    242:        * imach.c: Summary: Bug for mobil_average=0 and prevforecast fixed(?)
                    243: 
                    244: 2017-07-17  Brouard Nicolas  <brouard@ined.fr>
                    245: 
                    246:        * imach.c: Summary: BOM files can be read now
                    247: 
                    248: 2017-06-30  Brouard Nicolas  <brouard@ined.fr>
                    249: 
                    250:        * imach.c: Summary: Graphs improvements
                    251: 
                    252:        * imach.c: Summary: Saito's color
                    253: 
                    254: 2017-06-29  Brouard Nicolas  <brouard@ined.fr>
                    255: 
                    256:        * imach.c: Summary: Version 0.99r14
                    257: 
                    258: 2017-06-27  Brouard Nicolas  <brouard@ined.fr>
                    259: 
                    260:        * imach.c: Summary: More documentation on projections
                    261: 
                    262:        * imach.c: Summary: Color of backprojection changed from 6 to 5(yellow)
                    263: 
                    264:        * imach.c: Summary: Some bug with rint
                    265: 
                    266: 2017-05-24  Brouard Nicolas  <brouard@ined.fr>
                    267: 
                    268:        * imach.c: *** empty log message ***
                    269: 
                    270: 2017-05-23  Brouard Nicolas  <brouard@ined.fr>
                    271: 
                    272:        * imach.c: Summary: Code into subroutine, cleanings
                    273: 
                    274: 2017-05-18  Brouard Nicolas  <brouard@ined.fr>
                    275: 
                    276:        * imach.c:
                    277:        Summary: backprojection and confidence intervals of backprevalence
                    278: 
                    279: 2017-05-13  Brouard Nicolas  <brouard@ined.fr>
                    280: 
                    281:        * imach.c: Summary: temporary save for backprojection
                    282: 
                    283:        * imach.c: Summary: Version 0.99r13 (improvements and bugs fixed)
                    284: 
                    285: 2017-04-26  Brouard Nicolas  <brouard@ined.fr>
                    286: 
                    287:        * imach.c: Summary: imach 0.99r13 Some bugs fixed
                    288: 
                    289:        * imach.c: Summary: Labels in graphs
                    290: 
                    291: 2017-04-24  Brouard Nicolas  <brouard@ined.fr>
                    292: 
                    293:        * imach.c: Summary: to save
                    294: 
                    295: 2017-04-18  Brouard Nicolas  <brouard@ined.fr>
                    296: 
                    297:        * imach.c: *** empty log message ***
                    298: 
                    299: 2017-04-05  Brouard Nicolas  <brouard@ined.fr>
                    300: 
                    301:        * imach.c: Summary: Bug in E_ as well as in T_ fixed nres-1 vs k1-1
                    302: 
                    303: 2017-04-04  Brouard Nicolas  <brouard@ined.fr>
                    304: 
                    305:        * imach.c: Summary: Gnuplot indexations fixed (humm)
                    306: 
                    307:        * imach.c:
                    308:        Summary: Some errors to warnings only if date of death is unknown but status is death we could set to pi3
                    309: 
                    310: 2017-04-03  Brouard Nicolas  <brouard@ined.fr>
                    311: 
                    312:        * imach.c: Summary: Version 0.99r12
                    313:        Some cleanings, conformed with updated documentation.
                    314: 
                    315: 2017-03-30  Brouard Nicolas  <brouard@ined.fr>
                    316: 
                    317:        * version.h: *** empty log message ***
                    318: 
                    319:        * version.h: Summary:0.99r11
                    320: 
                    321: 2017-03-29  Brouard Nicolas  <brouard@ined.fr>
                    322: 
                    323:        * imach.c: Summary: Temp
                    324: 
                    325: 2017-03-27  Brouard Nicolas  <brouard@ined.fr>
                    326: 
                    327:        * imach.c: Summary: Temporary
                    328: 
                    329: 2017-03-08  Brouard Nicolas  <brouard@ined.fr>
                    330: 
                    331:        * imach.c: Summary: IMaCh version 0.99r10 bugs in gnuplot fixed
                    332: 
                    333:        * imach.c: Summary: Fixing data parameter line
                    334: 
                    335: 2016-12-15  Brouard Nicolas  <brouard@ined.fr>
                    336: 
                    337:        * imach.c: Summary: 0.99 in progress
                    338: 
                    339: 2016-09-15  Brouard Nicolas  <brouard@ined.fr>
                    340: 
                    341:        * imach.c: *** empty log message ***
                    342: 
                    343:        * imach.c: Summary: not working
                    344: 
                    345: 2016-09-08  Brouard Nicolas  <brouard@ined.fr>
                    346: 
                    347:        * imach.c: Summary: continue
                    348: 
                    349: 2016-09-07  Brouard Nicolas  <brouard@ined.fr>
                    350: 
                    351:        * imach.c: Summary: Starting values from frequencies
                    352: 
                    353:        * imach.c: *** empty log message ***
                    354: 
                    355: 2016-09-02  Brouard Nicolas  <brouard@ined.fr>
                    356: 
                    357:        * imach.c: *** empty log message ***
                    358: 
                    359: 2016-08-30  Brouard Nicolas  <brouard@ined.fr>
                    360: 
                    361:        * imach.c: Summary: Fixing a lots
                    362: 
                    363: 2016-08-29  Brouard Nicolas  <brouard@ined.fr>
                    364: 
                    365:        * imach.c: Summary: gnuplot problem in Back projection to fix
                    366: 
                    367:        * imach.c: Summary: Better
                    368: 
                    369: 2016-08-26  Brouard Nicolas  <brouard@ined.fr>
                    370: 
                    371:        * imach.c:
                    372:        Summary: Improvement in Powell output in order to copy and paste
                    373: 
                    374:        * imach.c: Summary: Starting tests of 0.99
                    375: 
                    376:        * imach.c: Summary: to valgrind
                    377: 
                    378: 2016-08-25  Brouard Nicolas  <brouard@ined.fr>
                    379: 
                    380:        * imach.c: *** empty log message ***
                    381: 
                    382: 2016-08-23  Brouard Nicolas  <brouard@ined.fr>
                    383: 
                    384:        * imach.c: *** empty log message ***
                    385: 
                    386:        * imach.c: Summary: not working
                    387: 
                    388: 2016-08-22  Brouard Nicolas  <brouard@ined.fr>
                    389: 
                    390:        * imach.c: Summary: not working
                    391: 
                    392:        * imach.c: Summary: Not working
                    393: 
                    394: 2016-07-23  Brouard Nicolas  <brouard@ined.fr>
                    395: 
                    396:        * imach.c: Summary: Completing for func too
                    397: 
                    398: 2016-07-22  Brouard Nicolas  <brouard@ined.fr>
                    399: 
                    400:        * imach.c: Summary: Fixing some arrays, still debugging
                    401: 
                    402: 2016-07-21  Brouard Nicolas  <brouard@ined.fr>
                    403: 
                    404:        * imach.c:
                    405:        Summary: 0.99 working (more or less) for Asian Workshop on multitate methods
                    406: 
                    407: 2016-07-12  Brouard Nicolas  <brouard@ined.fr>
                    408: 
                    409:        * imach.c: Summary: temp
                    410: 
                    411:        * imach.c: Summary: saving but not running
                    412: 
                    413: 2016-07-01  Brouard Nicolas  <brouard@ined.fr>
                    414: 
                    415:        * imach.c: Summary: Fixes
                    416: 
                    417: 2016-02-19  Brouard Nicolas  <brouard@ined.fr>
                    418: 
                    419:        * imach-0.98r.c: Summary: Kind of 0.98r? series, starting with r7
                    420: 
                    421:        * setup.iss, Makefile, version.h: *** empty log message ***
                    422: 
                    423:        * imach.c: Summary: temporary
                    424: 
                    425: 2016-02-17  Brouard Nicolas  <brouard@ined.fr>
                    426: 
                    427:        * imach.c: Summary: Probably last 0.98 stable version 0.98r6
                    428: 
                    429: 2016-02-16  Brouard Nicolas  <brouard@ined.fr>
                    430: 
                    431:        * imach.c: Summary: minor bug
                    432: 
                    433:        * imach.c: Summary: 0.99r2
                    434: 
                    435: 2016-02-15  Brouard Nicolas  <brouard@ined.fr>
                    436: 
                    437:        * imach.c: *** empty log message ***
                    438: 
                    439: 2016-02-12  Brouard Nicolas  <brouard@ined.fr>
                    440: 
                    441:        * imach.c: Summary: 0.99 Back projections
                    442: 
                    443: 2015-12-23  Brouard Nicolas  <brouard@ined.fr>
                    444: 
                    445:        * imach.c: Summary: Experimental backcast
                    446: 
                    447: 2015-12-18  Brouard Nicolas  <brouard@ined.fr>
                    448: 
                    449:        * imach.c: Summary: 0.98r4 Warning and status=-2
                    450: 
                    451:        Version 0.98r4 is now:
                    452:         - displaying an error when status is -1, date of interview unknown and date of death known;
                    453:         - permitting a status -2 when the vital status is unknown at a known date of right truncation.
                    454:        Older changes concerning s=-2, dating from 2005 have been supersed.
                    455: 
                    456:        * Makefile: *** empty log message ***
                    457: 
                    458: 2015-12-16  Brouard Nicolas  <brouard@ined.fr>
                    459: 
                    460:        * Makefile: *** empty log message ***
                    461: 
                    462:        * imach.c: Summary: 0.98r4 working
                    463: 
                    464:        * Makefile: Summary: linuxrpm added
                    465: 
                    466:        * Makefile: *** empty log message ***
                    467: 
                    468:        * imach.c: Summary: temporary not working
                    469: 
                    470: 2015-12-11  Brouard Nicolas  <brouard@ined.fr>
                    471: 
                    472:        * imach.c: Summary: 0.98r4
                    473: 
                    474: 2015-12-08  Brouard Nicolas  <brouard@ined.fr>
                    475: 
                    476:        * Makefile: *** empty log message ***
                    477: 
                    478: 2015-11-21  Brouard Nicolas  <brouard@ined.fr>
                    479: 
                    480:        * Makefile:
                    481:        Summary: VBoxManage change from execute --image to run --exe and --wait-exit doesn't exist any more
                    482: 
                    483:        * imach.c: Summary: minor typo
                    484: 
                    485:        * imach.c: Summary: 0.98r3 with some graph of projected cross-sectional
                    486: 
                    487:        Author: Nicolas Brouard
                    488: 
                    489: 2015-11-18  Brouard Nicolas  <brouard@ined.fr>
                    490: 
                    491:        * imach.c: Summary: Start working on projected prevalences
                    492: 
                    493: 2015-11-17  Brouard Nicolas  <brouard@ined.fr>
                    494: 
                    495:        * imach.c: Summary: Adding ftolpl parameter
                    496:        Author: N Brouard
                    497: 
                    498:        We had difficulties to get smoothed confidence intervals. It was due
                    499:        to the period prevalence which wasn't computed accurately. The inner
                    500:        parameter ftolpl is now an outer parameter of the .imach parameter
                    501:        file after estepm. If ftolpl is small 1.e-4 and estepm too,
                    502:        computation are long.
                    503: 
                    504:        * version.h: *** empty log message ***
                    505: 
                    506:        * imach.c: Summary: temporary
                    507: 
                    508: 2015-10-27  Brouard Nicolas  <brouard@ined.fr>
                    509: 
                    510:        * Makefile: *** empty log message ***
                    511: 
                    512:        * setup.iss.in: Summary: some new subdirs
                    513: 
                    514:        * imach.c: *** empty log message ***
                    515: 
                    516:        * setup.iss.in:
                    517:        Summary: Adding gnuplot 5.1 with bin and etc for pango fonts
                    518: 
                    519: 2015-10-24  Brouard Nicolas  <brouard@ined.fr>
                    520: 
                    521:        * imach.c: *** empty log message ***
                    522: 
                    523: 2015-10-23  Brouard Nicolas  <brouard@ined.fr>
                    524: 
                    525:        * imach.c:
                    526:        Summary: 0.98r3 some clarification for graphs on likelihood contributions
                    527: 
                    528: 2015-10-01  Brouard Nicolas  <brouard@ined.fr>
                    529: 
                    530:        * imach.c: Summary: Some new graphs of contribution to likelihood
                    531: 
                    532: 2015-09-30  Brouard Nicolas  <brouard@ined.fr>
                    533: 
                    534:        * Makefile:
                    535:        Summary: Version read from version.h, itself read with cmake
                    536: 
                    537:        * imach.c: Summary: looking at better estimation of the hessian
                    538: 
                    539:        Also a better criteria for convergence to the period prevalence And
                    540:        therefore adding the number of years needed to converge. (The
                    541:        prevalence in any alive state shold sum to one
                    542: 
                    543:        * Makefile: *** empty log message ***
                    544: 
                    545: 2015-09-22  Brouard Nicolas  <brouard@ined.fr>
                    546: 
                    547:        * imach.c:
                    548:        Summary: Adding some overall graph on contribution to likelihood. Might change
                    549: 
                    550: 2015-09-15  Brouard Nicolas  <brouard@ined.fr>
                    551: 
                    552:        * Makefile: *** empty log message ***
                    553: 
                    554:        * imach.c: Summary: 0.98r0
                    555: 
                    556:        - Some new graphs like survival functions
                    557:        - Some bugs fixed like model=1+age+V2.
                    558: 
                    559:        * ChangeLog, Makefile: Summary: 0.98r0
                    560: 
                    561:        * CMakeLists.txt: Summary: Some tests for setup.iss
                    562: 
                    563: 2015-09-15  Nicolas J Brouard   <nbrouard@tugault.ined.fr>
                    564: 
                    565:        *  (Module): 0.98r0 Some new graphs, some bugs fixed: model=1+age+V2. etc
                    566: 
                    567: 2015-08-18  Nicolas J Brouard   <nbrouard@tugault.local>
                    568: 
                    569:        *  (Module): Adding error when the covariance matrix doesn't contain the exact number of lines required by the model line.
                    570: 
                    571: 2015-08-03  Nicolas J Brouard   <nbrouard@tugault.ined.fr>
                    572: 
                    573:        *  (Module): Changing Variance of one-step probabilities into Standard deviation (thanks to Yao-Chi Shih)
                    574: 
                    575: 2014-12-16  Nicolas J Brouard   <nbrouard@tugault.local>
                    576: 
                    577:        * imach.c (Module): Merging 1.61 to 1.162
                    578: 
                    579: 2014-09-02  Nicolas J Brouard   <nbrouard@njbrouard.ined.fr>
                    580: 
                    581:        * prevlim.h (Module): 
                    582: 
                    583: 2014-01-26  Nicolas J Brouard   <nbrouard@ledermann-2.local>
                    584: 
                    585:        * imach.c (Module): Trying to merge old staffs together while being at Tokyo. Not tested...
                    586:        (Module): Version 0.98nR Running ok, but output format still only works for three covariates.
                    587: 
                    588: 2010-04-29  brouard  <brouard@ined.fr>
                    589: 
                    590:        * imach.c (Module): Checking covariates for more complex models
                    591:        than V1+V2. A lot of change to be done. Unstable.
                    592: 
                    593: 2010-04-26  brouard  <brouard@ined.fr>
                    594: 
                    595:        * imach.c (Module): merging some libgsl code. Fixing computation
                    596:        of likelione (using inter/intrapolation if mle = 0) in order to
                    597:        get same likelihood as if mle=1.
                    598:        Some cleaning of code and comments added.
                    599: 
                    600: 2009-10-29  brouard  <brouard@ined.fr>
                    601: 
                    602:        * imach.c (Module): Now imach stops if date of birth, at least year of birth, is not given. Some cleaning of the code.
                    603: 
                    604: 2006-06-30  Brouard Nicolas  <brouard@localhost>
                    605: 
                    606:        * imach.c (Module): Clarifications on computing e.j
                    607: 
                    608: 2006-04-28  Brouard Nicolas  <brouard@localhost>
                    609: 
                    610:        * imach.c (Module): Yes the sum of survivors was wrong since
                    611:        imach-114 because nhstepm was no more computed in the age
                    612:        loop. Now we define nhstepma in the age loop.
                    613:        (Module): In order to speed up (in case of numerous covariates) we
                    614:        compute health expectancies (without variances) in a first step
                    615:        and then all the health expectancies with variances or standard
                    616:        deviation (needs data from the Hessian matrices) which slows the
                    617:        computation.
                    618:        In the future we should be able to stop the program is only health
                    619:        expectancies and graph are needed without standard deviations.
                    620: 
                    621: 2006-04-04  LIEVRE Agnes  <lievre@PC_00697.ined.fr>
                    622: 
                    623:        * imach.iss (Module): 
                    624: 
                    625:        * imach.c (Module): bugs in evsi + population file added in htm output file
                    626: 
                    627: 2006-03-22  LIEVRE Agnes  <lievre@PC_00697.ined.fr>
                    628: 
                    629:        * imach.c (Module): 
                    630: 
                    631: 2006-03-20  Brouard Nicolas  <brouard@localhost>
                    632: 
                    633:        * imach.c (Module): <title> changed, corresponds to .htm file
                    634:        name. <head> headers where missing.
                    635: 
                    636:        * Makefile (Module): 0.98g
                    637: 
                    638:        * imach.c (Module): Weights can have a decimal point as for
                    639:        English (a comma might work with a correct LC_NUMERIC environment,
                    640:        otherwise the weight is truncated).
                    641:        Modification of warning when the covariates values are not 0 or
                    642:        1. 
                    643:        Version 0.98g
                    644: 
                    645: 2006-03-16  LIEVRE Agnes  <lievre@PC_00697.ined.fr>
                    646: 
                    647:        * imach.c (Module): Comments concerning covariates added
                    648: 
                    649:        * noreg-setup.iss (Module): Version 0.98f
                    650: 
                    651:        * Makefile (Module): Version 0.98f make _windows=1 imachcyg-setup
                    652: 
                    653:        * imach.c (Module): refinements in the computation of lli if
                    654:        status=-2 in order to have more reliable computation if stepm is
                    655:        not 1 month. Version 0.98f
                    656: 
                    657: 2006-03-15  Brouard Nicolas  <brouard@localhost>
                    658: 
                    659:        * imach.c (Module): Bug if status = -2, the loglikelihood was
                    660:        computed as likelihood omitting the logarithm. Version O.98e
                    661: 
                    662: 2006-03-14  Brouard Nicolas  <brouard@localhost>
                    663: 
                    664:        * imach.c (Module): varevsij Comments added explaining the second
                    665:        table of variances if popbased=1 .
                    666:        (Module): Covariances of eij, ekl added, graphs fixed, new html link.
                    667:        (Module): Function pstamp added
                    668:        (Module): Version 0.98d 
                    669: 
                    670: 2006-03-06  Brouard Nicolas  <brouard@localhost>
                    671: 
                    672:        * imach.c (Module): Variance-covariance wrong links and
                    673:        varian-covariance of ej. is needed (Saito).
                    674: 
                    675: 2006-02-27  Brouard Nicolas  <brouard@localhost>
                    676: 
                    677:        * imach.c (Module): One freematrix added in mlikeli!
                    678: 
                    679: 2006-02-26  Brouard Nicolas  <brouard@localhost>
                    680: 
                    681:        * imach.c (Module): Some improvements in processing parameter
                    682:        filename with strsep.
                    683: 
                    684: 2006-02-24  Brouard Nicolas  <brouard@localhost>
                    685: 
                    686:        * imach.c (Module): Memory leaks checks with valgrind and:
                    687:        datafile was not closed, some imatrix were not freed and on matrix
                    688:        allocation too.
                    689: 
                    690: 2006-02-09  LIEVRE Agnes  <lievre@PC_00697.ined.fr>
                    691: 
                    692:        * strsep.c (Module): Inclusion because not in mingw32!!!
                    693: 
                    694:        * setup.iss.in (Module): IMACHSETUPVERSION added
                    695: 
                    696:        * noreg-setup.iss (Module): added to cvs tree
                    697: 
                    698:        * Makefile (Module): IMACHSETUPVERSION added
                    699: 
                    700: 2006-01-30  BROUARD Nicolas  <brouard@localhost>
                    701: 
                    702:        * Makefile (Module, Module): Latest Makefile
                    703: 
                    704:        * imach.c (Module): Back to gnuplot.exe instead of wgnuplot.exe
                    705: 
                    706: 2006-01-27  BROUARD Nicolas  <brouard@localhost>
                    707: 
                    708:        * noreg-setup.iss (Module): ADDED
                    709: 
                    710: 2006-01-24  BROUARD Nicolas  <brouard@localhost>
                    711: 
                    712:        * imach.c (Module): Comments (lines starting with a #) are allowed in data.
                    713: 
                    714: 2005-10-25  Nicolas Brouard  <brouard@dhcp171.recherche.ined.fr>
                    715: 
                    716:        * Makefile (Module): Added Imach98.pmsp and howto crete a dmg
                    717: 
                    718:        * createdmg.sh (Module): Creates a dmg disk for MaC OS/X
                    719: 
                    720: 2005-09-30    <lievre@PC_00595>
                    721: 
                    722:        * imach.c (Module): sump fixed, loop imx fixed, and simplifications.
                    723:        (Module): If the status is missing at the last wave but we know
                    724:        that the person is alive, then we can code his/her status as -2
                    725:        (instead of missing=-1 in earlier versions) and his/her
                    726:        contributions to the likelihood is 1 - Prob of dying from last
                    727:        health status (= 1-p13= p11+p12 in the easiest case of somebody in
                    728:        the healthy state at last known wave). Version is 0.98 
                    729: 
                    730: 2004-05-20  Brouard Nicolas  <brouard@localhost>
                    731: 
                    732:        * imach.c (Repository): 
                    733:        Agnes added a direct estimation of mortality (without the need of
                    734:        computing period prevalence and differential mortality). Thus here
                    735:        is version 0.97a which has been distributed to some people at
                    736:        REVES 16 in Brugge using an Inno setup.exe for PCs. Estimates of
                    737:        mortality using covariates is not done today. Estimating direct
                    738:        mortality is a very different process because it doesn't need
                    739:        interpolation because it is easy to get the lx from the force of
                    740:        the mortality mux in the simplest case as for a Gompertz (log mux
                    741:        = a + b*x . But we have been able to incorporate the new code
                    742:        within former imach program (0.96d) without deteriorating too much
                    743:        the understanding of the program. 
                    744: 
                    745: 2003-06-25    <brouard@BROUARD>
                    746: 
                    747:        * imach.c (Module): On windows (cygwin) function asctime_r doesn't
                    748:        exist so I changed back to asctime which exists.
                    749:        (Module): Version 0.96b
                    750: 
                    751: 2003-06-24    <brouard@BROUARD>
                    752: 
                    753:        * imach.c (Module): Some bugs corrected for windows. Also, when
                    754:        mle=-1 a template is output in file "or"mypar.txt with the design
                    755:        of the covariance matrix to be input.
                    756: 
                    757: 2003-06-25  Brouard Nicolas  <brouard@homebrou>
                    758: 
                    759:        * imach.c (Repository): Duplicated warning errors corrected.
                    760:        (Repository): Elapsed time after each iteration is now output. It
                    761:        helps to forecast when convergence will be reached. Elapsed time
                    762:        is stamped in powell.  We created a new html file for the graphs
                    763:        concerning matrix of covariance. It has extension -cov.htm.
                    764: 
                    765: 2003-06-23  Brouard Nicolas  <brouard@homebrou>
                    766: 
                    767:        * 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.
                    768: 
                    769: 2003-06-18  Brouard Nicolas  <brouard@homebrou>
                    770: 
                    771:        * imach.c (Repository): Suppress abusive calls to append to file html (solution was to put fichtm as a global variable. Version 0.96
                    772: 
                    773: 2003-06-17  Brouard Nicolas  <brouard@homebrou>
                    774: 
                    775: 
                    776:        * imach.c (Repository): Check when date of death was earlier that
                    777:        current date of interview. It may happen when the death was just
                    778:        prior to the death. In this case, dh was negative and likelihood
                    779:        was wrong (infinity). We still send an "Error" but patch by
                    780:        assuming that the date of death was just one stepm after the
                    781:        interview.
                    782:        (Repository): Because some people have very long ID (first column)
                    783:        we changed int to long in num[] and we added a new lvector for
                    784:        memory allocation. But we also truncated to 8 characters (left
                    785:        truncation)
                    786: 
                    787:        (Repository): No more line truncation errors.
                    788: 
                    789: 2003-06-14  Brouard Nicolas  <brouard@homebrou>
                    790: 
                    791:        * imach.c (Repository): Add of a routine likelione (likelihood
                    792:        only once) which prints on a text file
                    793:        (ilk) the contributions to the likelihood for each
                    794:        individual/wave.
                    795: 
                    796: 2003-06-13  Brouard Nicolas  <brouard@homebrou>
                    797:        * imach.c (Repository): Replace "freqsummary" at a correct
                    798:        place. It differs from routine "prevalence" which may be called
                    799:        many times. Probs is memory consuming and must be used with
                    800:        parcimony.
                    801: 
                    802: 2003-06-17    <brouard@BROUARD>
                    803: 
                    804:        * timeval.h (Module): Added included file to make use of
                    805:        gettimeofday working on win32 with cygwin.
                    806: 
                    807: 2003-05-16  Brouard Nicolas  <brouard@brouard>
                    808:        * imach.c (Module): Insert of a warning if the delay between two
                    809:        waves is negative.
                    810: 
                    811:        * imach.c (Module): 
                    812: 
                    813: 2003-05-03    <brouard@BROUARD>
                    814: 
                    815:        * imach.c: Some cleaning
                    816: 
                    817: 2003-03-28    <brouard@BROUARD>
                    818:        * imach.c (Module): In version up to 0.92 likelihood was computed
                    819:        as if date of death was unknown. Death was treated as any other
                    820:        health state: the date of the interview describes the actual state
                    821:        and not the date of a change in health state. The former idea was
                    822:        to consider that at each interview the state was recorded
                    823:        (healthy, disable or death) and IMaCh was corrected; but when we
                    824:        introduced the exact date of death then we should have modified
                    825:        the contribution of an exact death to the likelihood. This new
                    826:        contribution is smaller and very dependent of the step unit
                    827:        stepm. It is no more the probability to die between last interview
                    828:        and month of death but the probability to survive from last
                    829:        interview up to one month before death multiplied by the
                    830:        probability to die within a month. Thanks to Chris
                    831:        Jackson for correcting this bug.  Former versions increased
                    832:        mortality artificially. The bad side is that we add another loop
                    833:        which slows down the processing. The difference can be up to 10%
                    834:        lower mortality.
                    835: 
                    836: 2002-05-30    <brouard@BROUARD>
1.57      brouard   837: 
1.55      brouard   838:        * imach.c (Module): Add correlation matrix of one-step
                    839:        probabilities and covariance matrix
1.54      brouard   840: 

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