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akshay kulkarni

2019-Mar-20 08:02 UTC

[R] problem with nlsLM.....

dear members,
                             Yesterday, Duncan identified a silly mistake in an
nls call...in the list of starting values, one of the names of the variable was
getting repeated. But I am experiencing the same problem again, with a different
formula:
> formulaDH3HM1 ~ (a + (b * ((HM2 + 0.3)^(1/3)))) * (c * log(HM3 + 27))

here HM1 is the response variable, and HM2 and HM3 are predictors.....
> nonlin_modDH3 <- nls(formulaDH3, start = list(a = 0.43143, b = 0.68173,c
= 0.02954))Error in nlsModel(formula, mf, start, wts) :
  singular gradient matrix at initial parameter
estimates> nonlin_modDH3 <- nlsLM(formulaDH3, start = list(a = 0.43143, b =
0.68173,c = 0.02954))Error in nlsModel(formula, mf, start, wts) :
  singular gradient matrix at initial parameter estimates

I am using nlsLM function from the minpack.lm package which says that it will
converge when nls fails with singular gradient matrix error...


Is there again a silly mistake(pardon me again if there is one!), or is the
problem serious? If it is serious, any pointers towards a solution?

very many thanks for your time and effort....
yours sincerely,
AKSHAY M KULKARNI

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akshay kulkarni

2019-Mar-20 08:20 UTC

head link

[R] Fw: problem with nlsLM.....

dear members,
                             I think Duncan's  solution is not
working...I've checked the function again:
> formulaDH5 <- as.formula(HM1 ~ (a + (b * ((HM2 + 0.3)^(1/2)))) +
(A*sin(w*HM3 + c) + C))
> nonlin_modDH5 <- nls(formulaDH5, start = list(a = 0.43143, b = 0.68173,A
= 0.09,w = 0.8,c = 0.01,C = 0.94))Error in nlsModel(formula, mf, start, wts) :
  singular gradient matrix at initial parameter
estimates> nonlin_modDH5 <- nlsLM(formulaDH5, start = list(a = 0.43143, b =
0.68173,A = 0.09,w = 0.8,c = 0.01,C = 0.94))Error in nlsModel(formula, mf, start, wts) :
  singular gradient matrix at initial parameter estimates


I've checked the Internet  for a method of getting the starting values, but
they are not comprehensive....any resources for how to find the starting values?
> dput(HM1)c(1.01484280343579, 0.977004104656811, 1.02448653468064, 1.01562102015533,
0.968359321714289, 0.99105072887847, 0.99384582083167, 1.00579414727333,
0.967593120445675, 1.04694148058855, 1.03832347454026, 0.971040156128456,
0.976967848281943, 0.990386686964446, 1.02257020722784, 0.994529161072552,
1.05361176882747, 0.988021514764882, 0.998909692369571, 1.04933819895509,
0.988354009297047, 0.878584020586706, 1.01438895222572, 1.01522203155842,
0.999979601913003, 0.975862934766315, 1.03948445565434, 1.02493339899053,
0.972267168470219, 0.971001051421653, 1.03066167719129, 0.967898970631469,
0.976606662010519, 0.990061873979734, 1.03398666689317, 1.05491455733517,
0.995997711923663, 0.991213393857838, 0.9903216916016, 1.06850794640807,
1.01345738121581, 0.877847194198055, 0.992124544661245, 1.00927272338804,
0.988196514422814, 0.987504905313256, 0.990274516132497, 1.01484624802751,
0.9800176904083, 0.969321725342799, 1.07407427451262, 1.02023130729371,
0.975827723120998, 0.988260886231393, 1.05116598585815, 0.977996171738906,
0.985118207891832, 0.98243346941999, 0.991380612684958, 1.00960741365585,
1.03062446605116, 1.04176358759364, 1.02494798972349, 1.04645592406625,
0.999998705820515, 0.972161829098397, 0.991313521356105, 1.0211561076261,
0.971257832217016, 1.00935026461508, 0.997140402835885, 1.00719609467891,
0.97483865743955, 0.987491380127905, 1.0643888147255, 1.00804564512905,
0.989366232219398, 0.942042386899482, 1.0140328534339, 0.98812919092058,
1.04584882138055, 0.970586857498767, 1.0098232311784, 1.02237732533005,
0.99306513943649, 0.963808401790738, 1.03577231048959, 1.00540101137939,
0.970458918298484, 0.973460294926879, 0.992676651187501, 1.04079931972326,
0.988928168736541, 0.986376934855979, 1.04117941173535, 1.01252015337269,
0.920578394310677, 0.98933093765412, 0.98116698970429, 0.995498900493761,
0.96463760451942, 1.1059686605887, 1.03366353582116, 0.981256131441973,
1.0152599452654, 0.995362080418312, 0.997276311537458, 0.943438355295013,
1.04025117202718, 1.03102737097366, 1.02096902615856, 1.02506560388494,
0.959364103040633, 0.987217067188943, 1.00454456275356, 1.03517749036747,
1.0148342900634, 0.974518005568706, 1.02515903830848, 1.00435361604303,
0.973400954462685, 0.981702992961201, 1.0155969247203, 1.01064154947471,
0.957131570492054, 0.88504625471737, 1.01849907662046, 1.01503806358198,
0.987004149653273, 0.974485857983481, 0.987572979379099, 1.0037529762248,
0.976026658183349, 0.983176178747953, 1.03812943411666, 1.01828203593425,
0.984139742592733, 1.00377243020886, 1.02118652563454, 1.01115776483144,
0.98387406692053, 0.985919715423209, 0.989550590454508, 1.01845373071313,
1.00394660346757, 0.949076679285431, 1.06094051230739, 0.981940494629297,
0.982812578115724, 0.929673163266673, 1.05359335975355, 1.03498999963467,
0.989218608625026, 0.994412680504384, 1.03162650392014, 1.04359975620911,
0.96938669600183, 0.987150178669349, 0.990503131271205, 1.01120231626779,
0.977334529946535, 0.966013274319284, 1.04966722359666, 1.04745672849702,
0.960799643211444, 0.866626315091455, 1.01316731305781, 1.02919067036911,
0.988567285725018, 0.978702298855537, 1.0186604054056, 1.01398864226215,
0.985492431198792, 1.03982326960775, 1.02287049736119, 1.02357106122821,
0.977519287403578, 0.993818572820706, 1.01139405704906, 1.02683235508704,
0.943370973180458, 0.970153991236375, 0.970746163945049, 1.00996886938921,
0.970599365922215, 1.03230385881209, 1.02072718512322, 1.0161024503161,
0.987718207880278, 0.987512809150475, 1.04108232940019, 1.0153758143276,
1.03916475100072, 0.959776942350879, 1.01739288375256, 1.05438479662213,
0.970479916939806, 0.979826128477137, 0.982800613999074, 0.977050857426291,
0.977474025608337, 0.972905352371901, 1.02191626900472, 1.02737043327345,
0.987565251408109, 0.93131925605196, 0.991469304659888, 0.949708678221412,
0.948662234856045, 0.938158485016718, 1.02342896552764, 1.01869899424866,
1.01244484998263, 0.990637832491416, 1.04591108144934, 0.951244278685872,
0.977265525807748, 0.942206977147219, 1.09440128638859, 1.02935716108991,
0.978428723706514, 1.08589930790608, 1.0015813231405, 1.07512822987239,
0.976356469419301, 0.972775004620642, 1.00954673593815, 0.992551447194369,
0.985819189451289, 0.975310750212573, 1.05999783258221, 1.07815688799274,
0.959648862885262, 1.03418767541976, 1.07207529899183, 1.04949264142055,
0.966872387358102, 0.963564695272614, 1.01310836328613, 0.996622968927382,
1.00202486063801, 0.948215304098709, 1.02845448262427, 0.987124642586768,
0.999269328077687, 0.964674178364545, 0.991913103743918, 0.970556592778505,
0.979495816235886, 0.949160643807912, 0.999611005677085, 1.01697727168167,
0.966362681248743, 0.938703012004999, 1.01394761650376, 1.011369485146,
0.975929406359934, 0.97111480362557, 1.0581474202687, 1.03965938660391,
0.990447147628825, 0.967286377976687, 0.968162001740811, 1.00573452177125,
0.974628505381728, 0.983183640545729, 1.08185959707149, 0.976533333333333,
0.932582771965921, 1.02205682784386, 1.02162002635618, 1.00634335266967,
1.03045302554561, 1.05015537832235, 1.0238800474742, 1.0151188247761,
0.951176244898346, 0.937999477475998, 0.986664690881963, 1.00889938014614,
0.972546365957459, 0.937560562249233, 0.953227957137494, 0.964284336810156,
0.977909815090698, 0.988068102557503, 1.04429493287078, 1.01803069781624,
0.957632272450841, 0.971991500790857, 0.98209395086599, 1.02815448263624,
0.947227198465786, 0.941538843776026, 1.05745885548346, 1.01671992454154,
0.983992269183969, 0.951511089781983, 1.0110983382201, 1.00912039359684,
1.14741321154181, 0.985344569298617, 0.986725720078838, 1.03117619992574,
1.21391930217405, 0.997217690041687, 1.07387278335981, 1.02108776576674,
1.10313006343474, 1.10905015571117, 1.03999508931616, 1.03976033898847,
1.02524837903366, 0.984818521675578, 1.04179889608739, 0.975154632188378,
0.969607959579886, 1.02781726918172, 0.999963290601752, 1.01515310515696,
1.00520167771997, 0.984550628692601, 1.01902810624565, 1.00685219196689,
0.982173452231062, 0.999629285915004, 0.970558368481076, 0.995716235126211,
1.01314341676203, 1.02075675497478, 1.01128668171558, 1.05844449406008,
1.02510935720045, 0.983720171349822, 0.844396082698583, 1.05810846093782,
0.99048977314373, 0.971262209252963, 0.968530578900656, 1.04638759101296,
1.1799017507928, 0.898448146333193, 1.01160891745375, 1.01132611427775,
0.973840647644128, 1.04683923857471, 0.990344793003927, 1.0068683076688,
0.992798241837764, 0.99368375299494, 1.01200003722717, 1.0294016781563,
1.01547984207734, 1.04807175686468, 0.981737356425208, 1.06169292627851,
1.00518291863648, 0.976808854545251, 0.999321592083517, 0.97527078961014,
0.904376968942001, 0.987807226191329, 1.0350293488462, 1.02802944623052,
0.963692701708712, 0.998027399233401, 1.01762747994825, 1.0361812777154,
0.988298193013531, 1.04174794125517, 0.970839140069407, 1.0011387710754,
0.961691863428911, 1.02272120871699, 1.00519180537531, 0.999331326197155,
0.988055521308447, 1.00078630058504, 1.03915754537212, 0.971719181925134,
0.947846525645955, 0.955178087494908, 1.0019107391621, 1.01160524115586,
0.984958748948305, 0.967579294820259, 1.00552471207069, 1.04518978636097,
1.01810784117456, 0.993552343701494, 1.03535983577691, 0.982973964981781,
0.976175417305875, 0.971173421374951, 1.02622192154044, 1.06169292627851,
0.980316131595686, 0.98802873807095, 1.02522486330609, 1.01920704714191,
0.987730950969463, 0.972320506142784, 1.02950031603837, 1.01481027236895,
1.05066348592531, 0.941412086703545, 1.00426249434292, 0.997599618540051,
0.9727707483253, 0.987822018689403, 1.00496006171741, 1.00365488022554,
0.982021737672154, 0.946014836456916, 0.977232083157459, 1.04246004468132,
0.981228463109654, 0.971195860055527, 0.957569129533581, 0.987312165664453,
0.955583610052133, 0.991173211015633, 0.988434021882053, 0.94971029297998,
1.02260060019826, 0.986729432665294, 1.00044978044626, 1.00283798105021,
0.97876379280085, 0.948623031823408, 1.02317511219612, 1.02274213461243,
0.952138762776323, 0.974014522860041, 1.02874293788325, 1.02108205408977,
0.950582622331241, 0.986098109021331, 1.00098916530354, 1.05435029523389,
0.999921440746985, 0.964778188342829, 1.02087753056688, 1.0295810738595,
0.981181990342875, 0.94981916198993, 1.00828646284387, 1.01127872412662,
0.976192285243012, 0.95032633282931, 1.02884118341175, 1.01603776783957,
0.952947066257398, 0.988924105443658, 1.02727453593468, 1.02944328284254,
0.970561666318556, 0.982859453938812, 0.995886713501412, 1.04330648532137,
0.991844865771659, 0.99159250467833, 1.0332159700053, 0.993864541664301,
0.952716253755034, 0.960889912140351, 0.945669021854222, 0.985578531230794,
0.975053113912155, 0.999552576905685, 1.02526821151208, 1.00450298718514,
0.948193972002236, 0.99358065264941, 1.04855364680554, 0.982181523974446,
0.957570494265717, 0.989249667650167, 1.01928030167592, 0.977392376116208,
0.98989833978368, 0.950312758756191, 1.01179069272545, 1.03630963397181,
0.997439452068598, 0.981793158114732, 0.98560918506727, 1.0497573745934,
1.06729226949522, 0.987962794653476, 1.05655507163022, 1.01896087310511,
0.985627836611195, 1.03148215915346, 1.07268555224398, 1.00116324087534,
1.0353274520202, 0.965843323254256, 0.981731445105197, 1.01927876056569,
0.999117162412819, 0.984262994383997, 1.0058994935294, 1.03100765642408,
0.970000664632288, 0.974667000854514, 1.02683721041632, 1.00224180239507,
0.976488446884133, 0.989129579180466, 1.01111944121172, 1.01081759149299,
0.990822520380867, 0.951849309560414, 1.0533258785109, 1.02605855087945,
0.993203883495146, 1.01231349444546, 1.05040134097269, 0.988195090931879,
0.998324259112233, 0.955268105597824, 1.01179535756103, 1.00923640076821,
1.01018973127051, 0.97727388908476, 1.0163531272719, 1.03445181115965,
0.922709820364792, 1.05034425545701, 0.971929096725562, 1.01600521659268,
0.989307124797035, 0.966327502991904, 1.0148486097639, 1.00804453317389,
0.986688556832374, 1.01100519377607, 1.07022911567444, 1.01751745478207,
1.00395256916996, 1.02666291685486, 1.04306886282915, 0.976284796774505,
0.873912939480404, 0.985956634379203, 0.966005821428092, 1.01911378235808,
0.989971040708023, 0.948518684869746, 0.964578663605958, 1.00130118816861,
1.14681217078448, 0.989198271209915, 0.975831372743337, 0.87134009583841,
0.999320371256267, 1.04366317607907, 1.0941742251269, 1.04912747347822,
0.873169695550468, 0.9946703855144, 1.02687904508206, 1.01557590029223,
0.979039928979583, 0.978199700239161, 0.988038704848986, 0.944583404359117,
0.97831517569251, 0.9881631354812, 0.990553852862955, 1.05139702349736,
0.987315661692795, 0.973936995140175, 1.06038641236987, 1.0651525599012,
0.997891074790299, 0.979657304627723, 0.976638433723023, 0.981157058049022,
0.974773098042751, 1.04814547433216, 1.02327857487465, 1.01725074945885,
0.978364366421386, 1.02726007295919, 1.02997589351422, 1.0208112362723,
0.965389721633011, 1.01152741033802, 1.00352090319123, 0.981151102088714,
0.986010324656192, 0.97990659165448, 0.990503768576242, 0.985301104774446,
0.976384165205197, 0.983887706958686, 0.992885571845564, 0.985757622165226,
0.946874017209482, 0.990962963812142, 1.04319324396693, 1.07354098057006,
0.984597785175012, 0.97845443949194, 0.963960215777945, 1.06584156194012,
1.15623372835712, 0.94928101059165, 1.05512096334013, 1.00899261027951,
1.00760894032175, 0.989021593753401, 1.01442722705518, 1.04495346859144,
1.00095646335122, 0.958907195434402, 1.02045280866442, 1.00659622664478,
0.980590749755976, 1.01197688939839, 0.998468538022796, 1.040625279257,
0.934164344256759, 0.992160161968429, 0.998594942355232, 1.0532781805963,
0.974144103277039, 0.946253316413415, 1.00623102828924, 0.988787044999963,
0.987541467770869, 0.999140303075891, 1.05429436081972, 1.01617267860198,
1.17044068684611, 1.05663112916056, 1.01681282884482, 1.02872692218644,
1.00738468152863, 1.0222081131894, 1.01817103171172, 1.01222250929532,
0.97386289237006, 0.987701353725335, 1.00418624697519, 1.0183108729199,
0.956852868616883, 1.05440980534023, 1.01562402108019, 1.00083274000183,
0.945641654423597, 0.966367379950251, 1.02020174816679, 1.01151664724635,
0.940072052642951, 0.991027873457432, 0.984568985852697, 1.02373049431651,
0.985887377562884, 1.05498951399906, 0.98672427011774, 1.02570399134917,
1.06987898201568, 1.02648218241568, 0.971175525661877, 1.03211886190237,
0.992647697074835, 0.986388969656675, 1.02097305537141, 1.04518978636097,
0.987300416455667, 0.985182286987375, 1.02373433952904, 1.01376295257605,
0.992398195656577, 0.983765510339449, 1.06154013507033, 1.01312319643703
)

> dput(HM3)c(0.196622289085315, -0.0436031046458981, 0.000820037203846464,
0.392758326108918, 0.0445839547736504, 0.223969403187679, -0.070152338130932,
0.197471312884591, 0.0498910549108242, -0.620322188497616, 0.488037411730214,
0.0461937792271113, 0.0051066586622384, 0.413877974790452, -0.154637441642314,
0.229802002983503, 0.509904610124243, 0.126452664534026, 0.583037470359474,
0.470621010682895, -0.00578078533090776, -0.457074922218691,
-0.0506356375273661, -0.767302691971105, -0.000822439375515026,
-0.170080770417037, -0.0638533091192526, 0.218492017287635, -0.088210288825341,
-0.389219867379597, 1.23355646106213, -1.78773586807154, 0.0117401974737664,
-0.154882548871051, -2.11547741687211, -0.0638533091192526, -8.18190789706224,
0.282699360997887, 0.0383693451361519, -0.0638533091192526, 0.832793868600698,
0.894379977535782, -0.302329357989944, 0.573489523345283, -0.223540700260161,
0.229802002983503, 0.0239731624923989, 0.556201388601996, -0.112552578411774,
-0.0438764575701239, 0.470621010682895, -4.92500180132548, 0.00309129784132211,
0.172407876390051, 0.229802002983503, 0.061799194890529, -0.000864150216291216,
-0.0683834224257835, -1.42874041532869, 0.654009227783557, -0.620322188497616,
0.272034153890376, -0.00558557185457871, 0.229802002983503,
-1.53118563423569e-05,
0.470621010682895, -0.736608540541868, -1.47747441666374, -0.00291475050109709,
-1.56966101463791, 0.362334298169537, -1.41867286052432, -0.0062864890624406,
-0.223090980170635, 0.229802002983503, 0, 0.0147973092972513,
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0.0270242177828994, 0.0650551686301645, 0.01402255124967)


very many thanks for your time and effort...
yours sincerely

AKSHAY M KULKARNI


________________________________________
From: R-help <r-help-bounces at r-project.org> on behalf of akshay
kulkarni <akshay_e4 at hotmail.com>
Sent: Wednesday, March 20, 2019 1:32 PM
To: R help Mailing  list
Subject: [R] problem with nlsLM.....

dear members,
                             Yesterday, Duncan identified a silly mistake in an
nls call...in the list of starting values, one of the names of the variable was
getting repeated. But I am experiencing the same problem again, with a different
formula:
> formulaDH3HM1 ~ (a + (b * ((HM2 + 0.3)^(1/3)))) * (c * log(HM3 + 27))

here HM1 is the response variable, and HM2 and HM3 are predictors.....
> nonlin_modDH3 <- nls(formulaDH3, start = list(a = 0.43143, b = 0.68173,c
= 0.02954))Error in nlsModel(formula, mf, start, wts) :
  singular gradient matrix at initial parameter
estimates> nonlin_modDH3 <- nlsLM(formulaDH3, start = list(a = 0.43143, b =
0.68173,c = 0.02954))Error in nlsModel(formula, mf, start, wts) :
  singular gradient matrix at initial parameter estimates

I am using nlsLM function from the minpack.lm package which says that it will
converge when nls fails with singular gradient matrix error...


Is there again a silly mistake(pardon me again if there is one!), or is the
problem serious? If it is serious, any pointers towards a solution?

very many thanks for your time and effort....
yours sincerely,
AKSHAY M KULKARNI

        [[alternative HTML version deleted]]

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and provide commented, minimal, self-contained, reproducible code.

	[[alternative HTML version deleted]]

Ivan Krylov

2019-Mar-20 09:36 UTC

head link

[R] problem with nlsLM.....

On Wed, 20 Mar 2019 08:02:45 +0000
akshay kulkarni <akshay_e4 at hotmail.com> wrote:
> formulaDH5 <- as.formula(HM1 ~ (a + (b * ((HM2 + 0.3)^(1/2)))) +
> (A*sin(w*HM3 + c) + C))
The problem with this formula is simple: the partial derivative with
respect to `a` is the same as the partial derivative with respect to
`C`. This makes the regression problem have an infinite number of
solutions, all of them satisfying equation \lambda_1 * a + \lambda_2 *
C + \lambda_3 = 0 for some values of \lambda_i. Gradient-based
optimizers (which both nls and nlsLM are) don't like problems with
non-unique solutions, especially when the model function has same
partial derivative with respect to different variables, making them
indistinguishable.

Solution: remove one of the variables.
> > formulaDH3  
> HM1 ~ (a + (b * ((HM2 + 0.3)^(1/3)))) * (c * log(HM3 + 27))
The problem with this formula is similar, albeit slightly different.

Suppose that (a, b, c) is a solution. Then (\lambda * a, \lambda * b,
c / \lambda) is also a solution for any real \lambda. Once again,
removing `c` should get rid of ambiguity.
> I've checked the Internet  for a method of getting the starting
> values, but they are not comprehensive....any resources for how to
> find the starting values?
Starting values depend on the particular function you are trying to
fit. The usual approach seems to be in transforming the formula and
getting rid of parts you can safely assume to be small until it looks
like linear regression, or applying domain specific knowledge (e.g.
when trying to it a peak function, look for the biggest local maximum
in the dataset).

If you cannot do that, there also are global optimization algorithms
(see `nloptr`), though they still perform better on some problems
and worse on others. It certainly helps to have upper and lower
bounds on all parameter values. I've heard about a scientific group
creating a pool of many initial Levenberg-Marquardt parameter estimates,
then improving them using a genetic algorithm. The whole thing
"converged overnight" on a powerful desktop computer.

-- 
Best regards,
Ivan

akshay kulkarni

2019-Mar-20 09:43 UTC

head link

[R] problem with nlsLM.....

dear Ivan,
                   THanks for the reply......
But doesn't removing some of the parameters reduce the precision of the
relationship between the response variable and the predictors(inefficient
estimates of the coefficients)?

very many thanks for your time and effort....
yours sincerely,
AKSHAY M KULKARNI
________________________________
From: Ivan Krylov <krylov.r00t at gmail.com>
Sent: Wednesday, March 20, 2019 3:06 PM
To: akshay kulkarni
Cc: R help Mailing list
Subject: Re: [R] problem with nlsLM.....

On Wed, 20 Mar 2019 08:02:45 +0000
akshay kulkarni <akshay_e4 at hotmail.com> wrote:
> formulaDH5 <- as.formula(HM1 ~ (a + (b * ((HM2 + 0.3)^(1/2)))) +
> (A*sin(w*HM3 + c) + C))
The problem with this formula is simple: the partial derivative with
respect to `a` is the same as the partial derivative with respect to
`C`. This makes the regression problem have an infinite number of
solutions, all of them satisfying equation \lambda_1 * a + \lambda_2 *
C + \lambda_3 = 0 for some values of \lambda_i. Gradient-based
optimizers (which both nls and nlsLM are) don't like problems with
non-unique solutions, especially when the model function has same
partial derivative with respect to different variables, making them
indistinguishable.

Solution: remove one of the variables.
> > formulaDH3
> HM1 ~ (a + (b * ((HM2 + 0.3)^(1/3)))) * (c * log(HM3 + 27))
The problem with this formula is similar, albeit slightly different.

Suppose that (a, b, c) is a solution. Then (\lambda * a, \lambda * b,
c / \lambda) is also a solution for any real \lambda. Once again,
removing `c` should get rid of ambiguity.
> I've checked the Internet  for a method of getting the starting
> values, but they are not comprehensive....any resources for how to
> find the starting values?
Starting values depend on the particular function you are trying to
fit. The usual approach seems to be in transforming the formula and
getting rid of parts you can safely assume to be small until it looks
like linear regression, or applying domain specific knowledge (e.g.
when trying to it a peak function, look for the biggest local maximum
in the dataset).

If you cannot do that, there also are global optimization algorithms
(see `nloptr`), though they still perform better on some problems
and worse on others. It certainly helps to have upper and lower
bounds on all parameter values. I've heard about a scientific group
creating a pool of many initial Levenberg-Marquardt parameter estimates,
then improving them using a genetic algorithm. The whole thing
"converged overnight" on a powerful desktop computer.

--
Best regards,
Ivan

	[[alternative HTML version deleted]]

J C Nash

2019-Mar-20 12:45 UTC

head link

[R] Fw: problem with nlsLM.....

Of course, you might just try a more powerful approach. Duncan responded to the
obvious issue earlier,
but the second problem seems to need the analytic derivatives of the nlsr
package. Note that
nlsLM uses the SAME very simple forward difference derivative approximation for
the Jacobian.
Optimization folk will generally say "singular Jacobian" and the
singular values reported by
nlsr show how bad the case is here. Note that the nlsr output summary seems to
imply that
the singular values are associated with specific parameters. My bad -- I wanted
to keep
the summary tidy. The sv's apply to the problem in general, but there are as
many of them as
parameters, so they fit on the page nicely where I've put them. The
singularity leads to no
standard errors, of course.

JN
>> library(nlsr)
>> nonlin_modDH5 <- nlxb(formulaDH5, start = list(a = 0.43143, b =
0.68173,A = 0.09,w = 0.8,c = 0.01,C = 0.94))
> vn:[1] "HM1" "a"   "b"   "HM2"
"A"   "w"   "HM3" "c"   "C"
> no weights
>> nonlin_modDH5
> nlsr object: x 
> residual sumsquares =  0.66987  on  680 observations
>     after  15    Jacobian and  20 function evaluations
>   name            coeff          SE       tstat      pval      gradient   
JSingval
> a              0.0929101            NA         NA         NA  -5.817e-07   
42.97
> b               0.541246            NA         NA         NA  -3.359e-07   
7.043
> A             0.00921275            NA         NA         NA    9.42e-08   
0.984
> w               0.545654            NA         NA         NA  -8.693e-09   
0.195
> c              -0.770181            NA         NA         NA    -5.2e-09   
0.07464
> C                0.60148            NA         NA         NA  -5.817e-07  
7.567e-14
>> 


On 2019-03-20 4:20 a.m., akshay kulkarni wrote:> dear members,
>                              I think Duncan's  solution is not
working...I've checked the function again:
> 
>> formulaDH5 <- as.formula(HM1 ~ (a + (b * ((HM2 + 0.3)^(1/2)))) +
(A*sin(w*HM3 + c) + C))
>> nonlin_modDH5 <- nls(formulaDH5, start = list(a = 0.43143, b =
0.68173,A = 0.09,w = 0.8,c = 0.01,C = 0.94))
> Error in nlsModel(formula, mf, start, wts) :
>   singular gradient matrix at initial parameter estimates
>> nonlin_modDH5 <- nlsLM(formulaDH5, start = list(a = 0.43143, b =
0.68173,A = 0.09,w = 0.8,c = 0.01,C = 0.94))
> Error in nlsModel(formula, mf, start, wts) :
>   singular gradient matrix at initial parameter estimates
> 
> 
> I've checked the Internet  for a method of getting the starting values,
but they are not comprehensive....any resources for how to find the starting
values?
> 
>> dput(HM1)
> c(1.01484280343579, 0.977004104656811, 1.02448653468064, 1.01562102015533,
> 0.968359321714289, 0.99105072887847, 0.99384582083167, 1.00579414727333,
> 0.967593120445675, 1.04694148058855, 1.03832347454026, 0.971040156128456,
> 0.976967848281943, 0.990386686964446, 1.02257020722784, 0.994529161072552,
> 1.05361176882747, 0.988021514764882, 0.998909692369571, 1.04933819895509,
> 0.988354009297047, 0.878584020586706, 1.01438895222572, 1.01522203155842,
> 0.999979601913003, 0.975862934766315, 1.03948445565434, 1.02493339899053,
> 0.972267168470219, 0.971001051421653, 1.03066167719129, 0.967898970631469,
> 0.976606662010519, 0.990061873979734, 1.03398666689317, 1.05491455733517,
> 0.995997711923663, 0.991213393857838, 0.9903216916016, 1.06850794640807,
> 1.01345738121581, 0.877847194198055, 0.992124544661245, 1.00927272338804,
> 0.988196514422814, 0.987504905313256, 0.990274516132497, 1.01484624802751,
> 0.9800176904083, 0.969321725342799, 1.07407427451262, 1.02023130729371,
> 0.975827723120998, 0.988260886231393, 1.05116598585815, 0.977996171738906,
> 0.985118207891832, 0.98243346941999, 0.991380612684958, 1.00960741365585,
> 1.03062446605116, 1.04176358759364, 1.02494798972349, 1.04645592406625,
> 0.999998705820515, 0.972161829098397, 0.991313521356105, 1.0211561076261,
> 0.971257832217016, 1.00935026461508, 0.997140402835885, 1.00719609467891,
> 0.97483865743955, 0.987491380127905, 1.0643888147255, 1.00804564512905,
> 0.989366232219398, 0.942042386899482, 1.0140328534339, 0.98812919092058,
> 1.04584882138055, 0.970586857498767, 1.0098232311784, 1.02237732533005,
> 0.99306513943649, 0.963808401790738, 1.03577231048959, 1.00540101137939,
> 0.970458918298484, 0.973460294926879, 0.992676651187501, 1.04079931972326,
> 0.988928168736541, 0.986376934855979, 1.04117941173535, 1.01252015337269,
> 0.920578394310677, 0.98933093765412, 0.98116698970429, 0.995498900493761,
> 0.96463760451942, 1.1059686605887, 1.03366353582116, 0.981256131441973,
> 1.0152599452654, 0.995362080418312, 0.997276311537458, 0.943438355295013,
> 1.04025117202718, 1.03102737097366, 1.02096902615856, 1.02506560388494,
> 0.959364103040633, 0.987217067188943, 1.00454456275356, 1.03517749036747,
> 1.0148342900634, 0.974518005568706, 1.02515903830848, 1.00435361604303,
> 0.973400954462685, 0.981702992961201, 1.0155969247203, 1.01064154947471,
> 0.957131570492054, 0.88504625471737, 1.01849907662046, 1.01503806358198,
> 0.987004149653273, 0.974485857983481, 0.987572979379099, 1.0037529762248,
> 0.976026658183349, 0.983176178747953, 1.03812943411666, 1.01828203593425,
> 0.984139742592733, 1.00377243020886, 1.02118652563454, 1.01115776483144,
> 0.98387406692053, 0.985919715423209, 0.989550590454508, 1.01845373071313,
> 1.00394660346757, 0.949076679285431, 1.06094051230739, 0.981940494629297,
> 0.982812578115724, 0.929673163266673, 1.05359335975355, 1.03498999963467,
> 0.989218608625026, 0.994412680504384, 1.03162650392014, 1.04359975620911,
> 0.96938669600183, 0.987150178669349, 0.990503131271205, 1.01120231626779,
> 0.977334529946535, 0.966013274319284, 1.04966722359666, 1.04745672849702,
> 0.960799643211444, 0.866626315091455, 1.01316731305781, 1.02919067036911,
> 0.988567285725018, 0.978702298855537, 1.0186604054056, 1.01398864226215,
> 0.985492431198792, 1.03982326960775, 1.02287049736119, 1.02357106122821,
> 0.977519287403578, 0.993818572820706, 1.01139405704906, 1.02683235508704,
> 0.943370973180458, 0.970153991236375, 0.970746163945049, 1.00996886938921,
> 0.970599365922215, 1.03230385881209, 1.02072718512322, 1.0161024503161,
> 0.987718207880278, 0.987512809150475, 1.04108232940019, 1.0153758143276,
> 1.03916475100072, 0.959776942350879, 1.01739288375256, 1.05438479662213,
> 0.970479916939806, 0.979826128477137, 0.982800613999074, 0.977050857426291,
> 0.977474025608337, 0.972905352371901, 1.02191626900472, 1.02737043327345,
> 0.987565251408109, 0.93131925605196, 0.991469304659888, 0.949708678221412,
> 0.948662234856045, 0.938158485016718, 1.02342896552764, 1.01869899424866,
> 1.01244484998263, 0.990637832491416, 1.04591108144934, 0.951244278685872,
> 0.977265525807748, 0.942206977147219, 1.09440128638859, 1.02935716108991,
> 0.978428723706514, 1.08589930790608, 1.0015813231405, 1.07512822987239,
> 0.976356469419301, 0.972775004620642, 1.00954673593815, 0.992551447194369,
> 0.985819189451289, 0.975310750212573, 1.05999783258221, 1.07815688799274,
> 0.959648862885262, 1.03418767541976, 1.07207529899183, 1.04949264142055,
> 0.966872387358102, 0.963564695272614, 1.01310836328613, 0.996622968927382,
> 1.00202486063801, 0.948215304098709, 1.02845448262427, 0.987124642586768,
> 0.999269328077687, 0.964674178364545, 0.991913103743918, 0.970556592778505,
> 0.979495816235886, 0.949160643807912, 0.999611005677085, 1.01697727168167,
> 0.966362681248743, 0.938703012004999, 1.01394761650376, 1.011369485146,
> 0.975929406359934, 0.97111480362557, 1.0581474202687, 1.03965938660391,
> 0.990447147628825, 0.967286377976687, 0.968162001740811, 1.00573452177125,
> 0.974628505381728, 0.983183640545729, 1.08185959707149, 0.976533333333333,
> 0.932582771965921, 1.02205682784386, 1.02162002635618, 1.00634335266967,
> 1.03045302554561, 1.05015537832235, 1.0238800474742, 1.0151188247761,
> 0.951176244898346, 0.937999477475998, 0.986664690881963, 1.00889938014614,
> 0.972546365957459, 0.937560562249233, 0.953227957137494, 0.964284336810156,
> 0.977909815090698, 0.988068102557503, 1.04429493287078, 1.01803069781624,
> 0.957632272450841, 0.971991500790857, 0.98209395086599, 1.02815448263624,
> 0.947227198465786, 0.941538843776026, 1.05745885548346, 1.01671992454154,
> 0.983992269183969, 0.951511089781983, 1.0110983382201, 1.00912039359684,
> 1.14741321154181, 0.985344569298617, 0.986725720078838, 1.03117619992574,
> 1.21391930217405, 0.997217690041687, 1.07387278335981, 1.02108776576674,
> 1.10313006343474, 1.10905015571117, 1.03999508931616, 1.03976033898847,
> 1.02524837903366, 0.984818521675578, 1.04179889608739, 0.975154632188378,
> 0.969607959579886, 1.02781726918172, 0.999963290601752, 1.01515310515696,
> 1.00520167771997, 0.984550628692601, 1.01902810624565, 1.00685219196689,
> 0.982173452231062, 0.999629285915004, 0.970558368481076, 0.995716235126211,
> 1.01314341676203, 1.02075675497478, 1.01128668171558, 1.05844449406008,
> 1.02510935720045, 0.983720171349822, 0.844396082698583, 1.05810846093782,
> 0.99048977314373, 0.971262209252963, 0.968530578900656, 1.04638759101296,
> 1.1799017507928, 0.898448146333193, 1.01160891745375, 1.01132611427775,
> 0.973840647644128, 1.04683923857471, 0.990344793003927, 1.0068683076688,
> 0.992798241837764, 0.99368375299494, 1.01200003722717, 1.0294016781563,
> 1.01547984207734, 1.04807175686468, 0.981737356425208, 1.06169292627851,
> 1.00518291863648, 0.976808854545251, 0.999321592083517, 0.97527078961014,
> 0.904376968942001, 0.987807226191329, 1.0350293488462, 1.02802944623052,
> 0.963692701708712, 0.998027399233401, 1.01762747994825, 1.0361812777154,
> 0.988298193013531, 1.04174794125517, 0.970839140069407, 1.0011387710754,
> 0.961691863428911, 1.02272120871699, 1.00519180537531, 0.999331326197155,
> 0.988055521308447, 1.00078630058504, 1.03915754537212, 0.971719181925134,
> 0.947846525645955, 0.955178087494908, 1.0019107391621, 1.01160524115586,
> 0.984958748948305, 0.967579294820259, 1.00552471207069, 1.04518978636097,
> 1.01810784117456, 0.993552343701494, 1.03535983577691, 0.982973964981781,
> 0.976175417305875, 0.971173421374951, 1.02622192154044, 1.06169292627851,
> 0.980316131595686, 0.98802873807095, 1.02522486330609, 1.01920704714191,
> 0.987730950969463, 0.972320506142784, 1.02950031603837, 1.01481027236895,
> 1.05066348592531, 0.941412086703545, 1.00426249434292, 0.997599618540051,
> 0.9727707483253, 0.987822018689403, 1.00496006171741, 1.00365488022554,
> 0.982021737672154, 0.946014836456916, 0.977232083157459, 1.04246004468132,
> 0.981228463109654, 0.971195860055527, 0.957569129533581, 0.987312165664453,
> 0.955583610052133, 0.991173211015633, 0.988434021882053, 0.94971029297998,
> 1.02260060019826, 0.986729432665294, 1.00044978044626, 1.00283798105021,
> 0.97876379280085, 0.948623031823408, 1.02317511219612, 1.02274213461243,
> 0.952138762776323, 0.974014522860041, 1.02874293788325, 1.02108205408977,
> 0.950582622331241, 0.986098109021331, 1.00098916530354, 1.05435029523389,
> 0.999921440746985, 0.964778188342829, 1.02087753056688, 1.0295810738595,
> 0.981181990342875, 0.94981916198993, 1.00828646284387, 1.01127872412662,
> 0.976192285243012, 0.95032633282931, 1.02884118341175, 1.01603776783957,
> 0.952947066257398, 0.988924105443658, 1.02727453593468, 1.02944328284254,
> 0.970561666318556, 0.982859453938812, 0.995886713501412, 1.04330648532137,
> 0.991844865771659, 0.99159250467833, 1.0332159700053, 0.993864541664301,
> 0.952716253755034, 0.960889912140351, 0.945669021854222, 0.985578531230794,
> 0.975053113912155, 0.999552576905685, 1.02526821151208, 1.00450298718514,
> 0.948193972002236, 0.99358065264941, 1.04855364680554, 0.982181523974446,
> 0.957570494265717, 0.989249667650167, 1.01928030167592, 0.977392376116208,
> 0.98989833978368, 0.950312758756191, 1.01179069272545, 1.03630963397181,
> 0.997439452068598, 0.981793158114732, 0.98560918506727, 1.0497573745934,
> 1.06729226949522, 0.987962794653476, 1.05655507163022, 1.01896087310511,
> 0.985627836611195, 1.03148215915346, 1.07268555224398, 1.00116324087534,
> 1.0353274520202, 0.965843323254256, 0.981731445105197, 1.01927876056569,
> 0.999117162412819, 0.984262994383997, 1.0058994935294, 1.03100765642408,
> 0.970000664632288, 0.974667000854514, 1.02683721041632, 1.00224180239507,
> 0.976488446884133, 0.989129579180466, 1.01111944121172, 1.01081759149299,
> 0.990822520380867, 0.951849309560414, 1.0533258785109, 1.02605855087945,
> 0.993203883495146, 1.01231349444546, 1.05040134097269, 0.988195090931879,
> 0.998324259112233, 0.955268105597824, 1.01179535756103, 1.00923640076821,
> 1.01018973127051, 0.97727388908476, 1.0163531272719, 1.03445181115965,
> 0.922709820364792, 1.05034425545701, 0.971929096725562, 1.01600521659268,
> 0.989307124797035, 0.966327502991904, 1.0148486097639, 1.00804453317389,
> 0.986688556832374, 1.01100519377607, 1.07022911567444, 1.01751745478207,
> 1.00395256916996, 1.02666291685486, 1.04306886282915, 0.976284796774505,
> 0.873912939480404, 0.985956634379203, 0.966005821428092, 1.01911378235808,
> 0.989971040708023, 0.948518684869746, 0.964578663605958, 1.00130118816861,
> 1.14681217078448, 0.989198271209915, 0.975831372743337, 0.87134009583841,
> 0.999320371256267, 1.04366317607907, 1.0941742251269, 1.04912747347822,
> 0.873169695550468, 0.9946703855144, 1.02687904508206, 1.01557590029223,
> 0.979039928979583, 0.978199700239161, 0.988038704848986, 0.944583404359117,
> 0.97831517569251, 0.9881631354812, 0.990553852862955, 1.05139702349736,
> 0.987315661692795, 0.973936995140175, 1.06038641236987, 1.0651525599012,
> 0.997891074790299, 0.979657304627723, 0.976638433723023, 0.981157058049022,
> 0.974773098042751, 1.04814547433216, 1.02327857487465, 1.01725074945885,
> 0.978364366421386, 1.02726007295919, 1.02997589351422, 1.0208112362723,
> 0.965389721633011, 1.01152741033802, 1.00352090319123, 0.981151102088714,
> 0.986010324656192, 0.97990659165448, 0.990503768576242, 0.985301104774446,
> 0.976384165205197, 0.983887706958686, 0.992885571845564, 0.985757622165226,
> 0.946874017209482, 0.990962963812142, 1.04319324396693, 1.07354098057006,
> 0.984597785175012, 0.97845443949194, 0.963960215777945, 1.06584156194012,
> 1.15623372835712, 0.94928101059165, 1.05512096334013, 1.00899261027951,
> 1.00760894032175, 0.989021593753401, 1.01442722705518, 1.04495346859144,
> 1.00095646335122, 0.958907195434402, 1.02045280866442, 1.00659622664478,
> 0.980590749755976, 1.01197688939839, 0.998468538022796, 1.040625279257,
> 0.934164344256759, 0.992160161968429, 0.998594942355232, 1.0532781805963,
> 0.974144103277039, 0.946253316413415, 1.00623102828924, 0.988787044999963,
> 0.987541467770869, 0.999140303075891, 1.05429436081972, 1.01617267860198,
> 1.17044068684611, 1.05663112916056, 1.01681282884482, 1.02872692218644,
> 1.00738468152863, 1.0222081131894, 1.01817103171172, 1.01222250929532,
> 0.97386289237006, 0.987701353725335, 1.00418624697519, 1.0183108729199,
> 0.956852868616883, 1.05440980534023, 1.01562402108019, 1.00083274000183,
> 0.945641654423597, 0.966367379950251, 1.02020174816679, 1.01151664724635,
> 0.940072052642951, 0.991027873457432, 0.984568985852697, 1.02373049431651,
> 0.985887377562884, 1.05498951399906, 0.98672427011774, 1.02570399134917,
> 1.06987898201568, 1.02648218241568, 0.971175525661877, 1.03211886190237,
> 0.992647697074835, 0.986388969656675, 1.02097305537141, 1.04518978636097,
> 0.987300416455667, 0.985182286987375, 1.02373433952904, 1.01376295257605,
> 0.992398195656577, 0.983765510339449, 1.06154013507033, 1.01312319643703
> )
> 
> 
>> dput(HM3)
> c(0.196622289085315, -0.0436031046458981, 0.000820037203846464,
> 0.392758326108918, 0.0445839547736504, 0.223969403187679,
-0.070152338130932,
> 0.197471312884591, 0.0498910549108242, -0.620322188497616,
0.488037411730214,
> 0.0461937792271113, 0.0051066586622384, 0.413877974790452,
-0.154637441642314,
> 0.229802002983503, 0.509904610124243, 0.126452664534026, 0.583037470359474,
> 0.470621010682895, -0.00578078533090776, -0.457074922218691,
> -0.0506356375273661, -0.767302691971105, -0.000822439375515026,
> -0.170080770417037, -0.0638533091192526, 0.218492017287635,
-0.088210288825341,
> -0.389219867379597, 1.23355646106213, -1.78773586807154,
0.0117401974737664,
> -0.154882548871051, -2.11547741687211, -0.0638533091192526,
-8.18190789706224,
> 0.282699360997887, 0.0383693451361519, -0.0638533091192526,
0.832793868600698,
> 0.894379977535782, -0.302329357989944, 0.573489523345283,
-0.223540700260161,
> 0.229802002983503, 0.0239731624923989, 0.556201388601996,
-0.112552578411774,
> -0.0438764575701239, 0.470621010682895, -4.92500180132548,
0.00309129784132211,
> 0.172407876390051, 0.229802002983503, 0.061799194890529,
-0.000864150216291216,
> -0.0683834224257835, -1.42874041532869, 0.654009227783557,
-0.620322188497616,
> 0.272034153890376, -0.00558557185457871, 0.229802002983503,
-1.53118563423569e-05,
> 0.470621010682895, -0.736608540541868, -1.47747441666374,
-0.00291475050109709,
> -1.56966101463791, 0.362334298169537, -1.41867286052432,
-0.0062864890624406,
> -0.223090980170635, 0.229802002983503, 0, 0.0147973092972513,
> 0.757637727251206, 0.332227874554666, -0.620322188497616,
-0.0638533091192526,
> -0.0638533091192526, 1.59477829009842, -0.247635059505396,
-0.0638533091192526,
> 0.384123364351151, -0.909542286753924, -1.61643290186366,
-0.00969493151693274,
> -0.0638533091192526, 0.335128597413319, 0.229802002983503,
-3.36005853184083,
> -1.77772450660144, -0.223359097040026, -4.75082975711953,
0.545441153017038,
> -0.0181047188208818, 0.229802002983503, 0.718505786757723,
-0.199075726922584,
> 0.0779145211225284, 0.0981591683724576, -0.0638533091192526,
> 0.771585236053205, -0.124873344480422, -0.143455357050914,
-0.982192613814533,
> 0.840325570227771, -0.0639597669819456, 0.272309718636627,
0.470621010682895,
> 0.000149945344883234, 0.0179651303218593, 0.586470204231886,
> 1.12661379530659, 0.587538739887084, -0.389219867379597, 0.231816913894395,
> -2.32942853843292, 0.229802002983503, 0.470621010682895, 7.7137219916985,
> 3.14411367083572, 0.0371415305209129, 0.109258089720235,
0.0744990417275174,
> 0.978949955731298, 0.0046627432182197, 0.0778534035355464,
-0.258075504911111,
> 0.428481177165365, 0.470621010682895, 0.0118295358531435,
0.601929630798962,
> 0.677233238299559, -0.620322188497616, 0.901650947775265,
0.229802002983503,
> 0.114385813284502, -0.287236365991277, 0.00362108510216535,
0.54836513813854,
> -0.360900820378516, 0.901102331983843, 0.303232126663717,
-0.389219867379597,
> -0.389219867379597, -0.0638533091192526, 0.0172621246134547,
> -0.0638533091192526, 0.036790744537595, 0.0267711437261105,
0.229802002983503,
> 2.31402345437609, 0.229802002983503, -0.620322188497616, 0.470621010682895,
> -0.0638533091192526, 0, -0.0638533091192526, 0.683308812634821,
> 0.598730940691975, 0.229802002983503, 0.697360153425382,
0.00772365161682687,
> -4.74600966429007, 0.593589435095411, -0.152099577506429,
0.0064938252361837,
> -0.108940122157535, 0.0514396263381645, 1.10452888209261,
0.229802002983503,
> -0.0638533091192526, 0, 0.0362637715949993, -2.79167649513235,
> 0.0221979095188955, 0.122798837911884, -3.07802860403649,
0.887963749928486,
> -0.0638533091192526, -2.59080601794078, -0.0638533091192526,
> -0.0720032601992142, 0.188653367126112, -0.390900634446388,
0.00626262322890335,
> 0.10449726079375, 0.190234594305548, 0.229802002983503, 0.470621010682895,
> 0.441447072301397, 0.710575973379983, 0.424723018059659,
0.0242933124111495,
> -0.0638533091192526, 0.221839916416526, 0.470621010682895,
-0.0108657434161119,
> 0.734169111179744, 0.465629851897761, 0.0252290916908343,
-0.0261736586703599,
> 0.470621010682895, 0.00872967160561454, 0.820007851307147,
-0.0638533091192526,
> 0.162601634884078, 0.15876421059534, 0.276805180633414, -0.386980840708979,
> 0.10228170638373, 0.0199458385530109, 0.470621010682895, 0.360613568422605,
> 0.0398196823378306, -0.389219867379597, -0.00269176292387149,
> 0.553663817786709, 0.00803266728255501, 0.470621010682895,
-0.389219867379597,
> 0.0531985700905557, -0.00966390653254687, 0.948851286517476,
> 0, -0.0889303986002686, -0.289482205789089, 0.470621010682895,
> -0.620322188497616, -1.33981685878991, 0.0183827591576367,
0.011135182844728,
> -0.0638533091192526, 2.32607985155626, -0.138083520720171,
0.00471455153770216,
> 0.158058381916342, 0.00450504854498247, 0.0789824876681455,
0.0704699239866158,
> -2.19086590383429, 0.0809155162971262, -0.0638533091192526,
0.0329404929656065,
> 0.0281676116282727, -0.389219867379597, 0.012790919597435,
-0.00704771101800125,
> 0.0403529797537856, 0.0558406758822688, 0.164832137315436,
-0.165567865123191,
> -0.11103429903157, -0.0355024172803945, 9.48260587090123e-05,
> 0.470621010682895, -0.0495357136064147, 0.229802002983503,
0.0637860580674806,
> -0.620322188497616, -0.0226657756569641, -0.389219867379597,
> -0.316625748304681, 0.229802002983503, 0, 0.364124775102099,
> -0.0310987139252845, 0.492424057922772, -0.224535737231339,
-0.133435578504748,
> 0.229802002983503, 0.184389526960601, -3.97960671764283, 0.223470481648489,
> -0.620322188497616, 1.57339312469411, -3.97007919079201, 0.028292556618311,
> -0.0208634007145496, 0.253055735744466, -0.0638533091192526,
> -1.93884051014153, 0.0301349400625612, -0.0638533091192526,
0.000295057056987376,
> 0, 0.286160612098488, 0.101207913446722, 0.374419900839882,
-0.106217410937095,
> 0.229802002983503, 2.31067381143729, 2.09201022549168, 0.00385297198146129,
> 0.0512938203984638, -1.74049624153457, 0.426702921643898,
-0.0638533091192526,
> 0.018935028523515, 0.23126745462646, 0.00767373530818363,
0.229802002983503,
> 3.84024898682852, -0.0638533091192526, 0.389584248100691,
0.0449003257302091,
> 1.02228506672615, 0.229802002983503, -0.0638533091192526,
-0.0829134652872339,
> 3.50596545804498, -0.389219867379597, 0.9170368554337, -0.0638533091192526,
> 0.393117195150408, 0.228802985129773, 0.380899253549764, 0.232617830598094,
> -0.389219867379597, 0.0459161417216973, 1.31722638132631,
-0.151301202089443,
> -0.116990991708309, 0.927131393095724, 0.287762794679405, 0.53782819173468,
> -0.389219867379597, 0, 0.778671412967675, -0.389219867379597,
> -0.0683403974328925, 0, 0.229802002983503, 0.473035927661744,
> -0.620322188497616, 0.994155024290692, 0.229802002983503,
0.470621010682895,
> -0.194201456791898, 0.735175033053973, 0, 8.3894395202509,
-2.71421951365695,
> 1.63476338054133, 0, -0.358533993792374, -0.180900357181005,
> 0.464964929465083, 0.828110705634323, 0.290014059095831,
0.0265807736784206,
> 0.913325706925416, -0.620322188497616, 0.482569085367064, 0,
> 0.999426501553857, -0.0638533091192526, -0.894190901951266,
0.0608976332239153,
> -0.389219867379597, 0.000920175777920006, 0.0444241832790267,
> -0.389219867379597, 1.77775509259178, 0.00731201645980821, 0,
> -0.620322188497616, 0.229802002983503, 5.07464022484589, 1.48600912617683,
> 0.037030406316896, 5.19861898546793, 0.614580107047209, 0.140671508556198,
> -0.0638533091192526, 0.470621010682895, 1.44599607789379,
0.229802002983503,
> 0.0337669838054181, -0.339507807487096, -0.227604499761264,
-0.0126140839785072,
> 0.329583322374931, -0.348480271857373, 0.229802002983503,
0.220851780815745,
> -0.00466286305694716, 0.470621010682895, 1.94004188027446,
0.00769634829635375,
> 0.229802002983503, 0.229802002983503, -0.0638533091192526,
0.00196933273638366,
> 0.362886861307995, -0.010895368171175, 0.00517992475169629,
0.0121875763733234,
> 0.229802002983503, -0.389219867379597, -0.000556322059116982,
> 0.229802002983503, 0.00260711445755056, -0.58609877956866, 0,
> 0.173845846564558, 0.050042474875399, -0.608356727049781, 1.29406201978428,
> -0.0207947874733201, 0.00589643228835565, 0.720668560955405,
> -0.0638533091192526, 0.0325689306223551, -0.620322188497616,
> -0.389219867379597, -0.0638533091192526, -0.620322188497616,
> 0.0384932081048732, -0.0349291605765668, 0.00798065241516178,
> -0.134723236994354, -0.0638533091192526, 0.281152548562933,
0.785134308633961,
> 0.00911501343278954, 0.0290625580516694, 0.229802002983503,
0.0364502381509222,
> 0.0200267754432485, 0.470621010682895, -2.30392713054924,
0.0133977174531081,
> 0.0313438687192373, -0.453629796591262, -0.444456614744397,
0.470621010682895,
> -0.00419309963021769, 0.229802002983503, 0.781666390558601,
0.263209713357162,
> -0.00288720581609739, 0.0157812058748433, 0.377266856994834,
> 0.211102246795362, -0.0244674117557579, 0.502934845080243,
0.470621010682895,
> -0.620322188497616, 0.119508324298399, 0.68156448564652,
-0.389219867379597,
> 0.344388633359758, 0.541519544456095, 0.348203898915403,
-0.617865773083779,
> -0.620322188497616, -0.389219867379597, -0.630469325697215,
-0.389219867379597,
> -0.00185171176208817, 0.470621010682895, -0.0638533091192526,
> 0.0384110765023374, -0.476268477810135, 0.0275459003440332,
-0.377613497242655,
> 0.480114279740138, 0.208177472628734, 0.0388621060580001,
0.314810488790625,
> -0.389219867379597, 0.622343433254446, 0.229802002983503, 0,
> 0.0116064532794852, 0.640880718848922, 0.0159256710348949,
0.0294218642201815,
> -0.11922554805783, 0.470621010682895, 0.0719964703043177,
0.176673405801693,
> -0.216160070123196, -0.620322188497616, 0.263287565296575,
0.334468720690456,
> -0.389219867379597, -0.389219867379597, 0, -0.0638533091192526,
> -0.0638533091192526, 0.328005934417359, 1.98345092754637,
-0.0638533091192526,
> -0.322569885555602, 0.343583272797935, -0.0131035846556284,
-0.0638533091192526,
> 0.332049938227108, 0.229802002983503, -0.184471568949188,
0.0738083137554319,
> 0.295094806935004, 2.00072915211246, 0.0524057350651284,
-0.394994587233133,
> 0.11082820395266, 0.0470433275207449, -0.0244714107059427,
-0.19392136026585,
> -0.389219867379597, 1.54447845601115, 0, 1.50461847711675,
0.470621010682895,
> -2.19230689436821, -2.15372326763204, 0.0602893383146939,
-0.350076259362557,
> -0.389219867379597, -0.0491349223300808, -0.347427839125497,
> -0.125793370606986, -0.389219867379597, 0.218492017287635,
-0.389219867379597,
> -2.19203559916863, 0.470621010682895, -0.0756276343860818,
-0.620322188497616,
> 0.039618360679447, 0.229802002983503, 0.342229794086586, 1.22342842687211,
> -0.0638533091192526, -0.389219867379597, 0, -0.121360237566266,
> 0.470621010682895, 0.203522177713664, -2.66081323726908, 0.164981226545032,
> 0.208989371873146, 0.178977127763616, 0.00534834375159016,
0.0259183781780568,
> -0.0638533091192526, -0.620322188497616, 3.77342257919255,
0.077694414226668,
> -0.0638533091192526, -2.76001789665019, 0.93498899883197,
0.229802002983503,
> 0.229802002983503, -0.189889234701173, -0.878128024239223,
0.229802002983503,
> -0.971246200836784, 0.00238384747429768, -0.620322188497616,
> 0.440261892604354, 3.76354782684596, 0.470621010682895, 3.86172131986622,
> 0.575298756860043, 12.9023010859722, 0.470621010682895, 0.378503973417637,
> 0.474891582933229, 0, -0.389219867379597, 0.520087612011093,
> 0.00160600701629905, -1.70670322718237, 0.229802002983503,
-0.0349116284595025,
> -0.389219867379597, 0.229802002983503, -0.0638533091192526,
0.0138641669555371,
> -1.76999545498462, 0.470621010682895, -0.0638533091192526,
0.470621010682895,
> 0.568835467760944, 0.196290116211879, 0.00657090150018764,
1.15108667563071,
> 0.229802002983503, 1.39616453144586, -0.0847185084207546,
-0.063387618790934,
> 0.470621010682895, 0.111214507604595, -0.0859882232308096,
0.229802002983503,
> 0.00453833599472268, 0.334589717726727, 0.470621010682895,
-0.390600326717378,
> 0.254343160688718, -0.951335732362531, -0.0638533091192526,
-0.389219867379597,
> 0.185995171841162, -0.0638533091192526, 0.0161178324221534,
-0.702070844948495,
> -0.466435025160672, 0.470621010682895, 0.470621010682895,
-0.383876151221017,
> -0.0638533091192526, -0.0638533091192526, 0.470621010682895,
> -0.389219867379597, -0.0123155655016255, -0.386709341729674,
> 0.229802002983503, -0.620322188497616, 0.187872106293471, 1.0998198175547,
> 0.229802002983503, -0.0111456829865045, -0.620322188497616,
-0.620322188497616,
> 0.0484181771965215, 0.29713373197861, 1.03416257683562, 0.470621010682895,
> -1.14286511426204, -0.620322188497616, -0.620322188497616,
3.57860778510592,
> 0.229802002983503, -0.62520946847561, 0.290707988341369,
0.0924839451700828,
> -0.292199030679553, 0.275232409230032, -0.0884019891746591,
-0.613845322077624,
> 0.470621010682895, 0.27263770155515, 0.229802002983503, 0.470621010682895,
> -0.616577036861926, -0.0638533091192526, 0.229802002983503,
0.103227620279027,
> 0.000325827725882409, -0.389219867379597, -0.0213033086486025,
> 1.1517268134498, -0.0027549233829829, -5.20036700047062,
-0.389219867379597,
> 1.38009140442044, 0.188112123387496, -0.389219867379597,
-0.0715310034898503,
> 0.229802002983503, -1.42113754281828, 0.0671280483594289,
-0.866540256758301,
> -0.389219867379597, -0.389219867379597, 0.112435457850701,
-0.162158911168545,
> 0.470621010682895, 0.470621010682895, 0.0211915910476394,
-0.00153721649859708,
> -0.0638533091192526, -0.102776844490052)
> 
>> dput(HM2)
> c(0.016497438441392, -0.0121005433105642, 0.0340103138875006,
> 0.0393128837416979, 0.144718671661076, 0.0775923152157973,
0.000894372752462123,
> 0.0129080340603581, -0.0022179741964203, 0.0540058630486591,
> 0.0383234745402589, -0.0142841740056228, -0.0113383036972718,
> 0.00764362896437113, 0.022570207227843, 0.0892462240318431,
0.060498120257716,
> 0.0432525311181986, 0.00222557516581898, 0.0493381989550945,
> -0.0116459907029527, -0.112480015005373, 0.0182691285457092,
> 0.0248597234825647, 0.00754701511666922, 0.0471476327719148,
> 0.0625841102244406, 0.0303698631973417, 0.00781124380799404,
> -0.0168950573556397, 0.0473901805181147, 0.00740505106540693,
> -0.0152639817574294, 0.00916841478852549, 0.0409730632910991,
> 0.0625866632066982, 0.00664005076885597, 0.0103946833001679,
> 0.0243728672440622, 0.0722309706115829, 0.0174699387206196,
-0.088714507487996,
> -0.00504535647738195, 0.00927272338803572, -0.00707755664004029,
> 0.209001332673238, 0.0280975011236682, 0.0185107628508926,
-0.0152895488479284,
> 0.0293166958720994, 0.0839281669393395, 0.0350355281775659,
-0.0214691529922399,
> -0.00698847060167527, 0.069853381162298, 0.00880702674287574,
> 0.0440111442331915, 0.0576762465158807, 0.0180025302908308,
0.0104372279684426,
> 0.0399937793788931, 0.0484415593089806, 0.0359627022827372,
0.0610406756211853,
> 0.0400425377047152, 0.00783749255154968, 0.0033626359803225,
> 0.0253846624900874, 0.028956317299215, 0.0220327419434368,
0.0055491218235435,
> 0.021359789760335, 0.0053563472471669, 0.00770764128276149,
0.120606533813112,
> 0.0338481150043749, 0.00480652155775551, -0.0208260153687132,
> 0.0264346940874102, 0.0254170849175835, 0.0549828722223003,
-0.0197153554154837,
> 0.0146319132316291, 0.0223773253300461, 0.046744336162787,
0.0439389840326429,
> 0.0730303072697907, 0.0157399337823011, 0.0189220332073482,
0.0332902036920697,
> -0.00629466834494764, 0.0674012192688983, 0.0200657055355507,
> 0.0101015050127517, 0.0425927774526406, 0.0282767872201141,
0.00648039037553307,
> 0.0515174537352363, 0.128342038159934, 0.0432170296083376,
0.01871577325763,
> 0.122157724187454, 0.0336635358211635, 0.0225239126708406,
0.0183439669703353,
> 0.134384074630845, 0.00984528984402488, -0.049573212443543,
0.0459003250172428,
> 0.0354638054442889, 0.0209690261585554, 0.0252976241664904,
-0.0211582204487595,
> 0.00564472281613363, 0.0148258737510351, 0.0428454717776024,
> 0.0315492077820927, 0.0628515089974484, 0.034599813272583,
0.00983450218873532,
> 0.0790661896510682, 0.076097511515163, 0.015596924720301,
0.010641549474715,
> 0.00626447132858588, -0.0752885625254798, 0.0263105739632706,
> 0.0336726716607009, 0.0873459584037158, 0.0137508559242068,
-0.00705208890843943,
> 0.0673463675870221, -0.000264192225152525, 0.0181803111819752,
> 0.0415821927667122, 0.0258248658300624, 0.0697171115138401,
0.0609029360829605,
> 0.0252388531172213, 0.0120346601757736, 0.0231724225476939,
0.00664147935356364,
> 0.00364229190085414, 0.0221357760157817, 0.00873744091784354,
> -0.0243757212939979, 0.0609405123073909, -0.0110205054092022,
> 0.0570746855530399, -0.0541885933947211, 0.0790835216830754,
> 0.0443624834606028, 0.010803474486455, 0.012658784733822,
0.0407444149396382,
> 0.0758344977136341, 0.0249648665726016, 0.0706224364244773,
0.0617623493482699,
> 0.0157667711676134, 0.159594212558186, 0.10429461374287,
0.0575594583605458,
> 0.0629746059562333, 0.187704355999386, -0.121475803700469,
0.0316944060343089,
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0.0387279347673063,
> -0.00326722366281047, 0.0611109647647912, 0.0724982521544455,
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> 0.0270242177828994, 0.0650551686301645, 0.01402255124967)
> 
> 
> very many thanks for your time and effort...
> yours sincerely
> 
> AKSHAY M KULKARNI
> 
> 
> ________________________________________
> From: R-help <r-help-bounces at r-project.org> on behalf of akshay
kulkarni <akshay_e4 at hotmail.com>
> Sent: Wednesday, March 20, 2019 1:32 PM
> To: R help Mailing  list
> Subject: [R] problem with nlsLM.....
> 
> dear members,
>                              Yesterday, Duncan identified a silly mistake
in an nls call...in the list of starting values, one of the names of the
variable was getting repeated. But I am experiencing the same problem again,
with a different formula:
> 
>> formulaDH3
> HM1 ~ (a + (b * ((HM2 + 0.3)^(1/3)))) * (c * log(HM3 + 27))
> 
> here HM1 is the response variable, and HM2 and HM3 are predictors.....
> 
>> nonlin_modDH3 <- nls(formulaDH3, start = list(a = 0.43143, b =
0.68173,c = 0.02954))
> Error in nlsModel(formula, mf, start, wts) :
>   singular gradient matrix at initial parameter estimates
>> nonlin_modDH3 <- nlsLM(formulaDH3, start = list(a = 0.43143, b =
0.68173,c = 0.02954))
> Error in nlsModel(formula, mf, start, wts) :
>   singular gradient matrix at initial parameter estimates
> 
> I am using nlsLM function from the minpack.lm package which says that it
will converge when nls fails with singular gradient matrix error...
> 
> 
> Is there again a silly mistake(pardon me again if there is one!), or is the
problem serious? If it is serious, any pointers towards a solution?
> 
> very many thanks for your time and effort....
> yours sincerely,
> AKSHAY M KULKARNI
> 
>         [[alternative HTML version deleted]]
> 
> ______________________________________________
> R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide
http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
> 
> 	[[alternative HTML version deleted]]
> 
> ______________________________________________
> R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide
http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
>

R help - Mar 2019 - problem with nlsLM.....

[R] problem with nlsLM.....

[R] Fw: problem with nlsLM.....

[R] problem with nlsLM.....

[R] problem with nlsLM.....

[R] Fw: problem with nlsLM.....