Hi there,
I have one problem calculating an linear mixed model.
I have a repeated measurement project for several gases. These were measured in
3 different altitudes (sites) and three different positions within these sites
(plot). each I now wanted to find out if the gasfluxes rather depend on the
site variable or the plot variable. That for I created a colum named
"zu" that contains a name for every plot at each site.
I selected "month" as the ramdom effect and "zu" as fixed
effects.
By calculating the following model:
flux<-read.table("C:/F?r die Arbeit/DatenEcua/CSVDateien/PM.csv",
sep=",", header=T)
#Mixed Effects models mit temporal Pseudorepetition#
library(nlme)
library(lattice)
fixed= CO2~zu
random= ~month|nr
results<-groupedData(CO2~month |nr ,outer=~zu, flux)
results
plot(results)
plot(results,outer=T)
model1<-lme(CO2~zu-1,random=~month|nr, data=results, na.action=na.exclude)
summary(model1)
I get a result.
I am trying to compute the same model with another gas of the same original data
table, I get the ollowing error:
> model1<-lme(N2O~zu-1,random=~month|nr, data=results,
na.action=na.exclude)
Error in lme.formula(N2O ~ zu - 1, random = ~month | nr, data = results, :
nlminb problem, convergence error code = 1
message = iteration limit reached without convergence (9)
Could you help me with that problem? I already tried to transform the data into
log functions and I tried to calculate different subsets od the data. Sometimes
I works and sometimes I get the same error reply.
I would be graet if you could help me solve this problem!
Thank a lot!
Katrin
Here the Database:
site zu nr plot month CO2 N2O CH4 NO
B BQ 1 Q 5 344602.6924 5.130347965 -59.8957518 1.55065598
B BQ 2 Q 5 398901.7053 1.101199283 -271.0059474 1.488116402
B BQ 3 Q 5 454894.8994 8.696055188 -55.47626826 1.205838717
B BQ 4 Q 5 327387.374 7.096757818 -60.02169134 0.871854232
B BQ 5 Q 5 384996.0642 1.801588959 -80.04503625 1.935790284
B BQ 6 Q 5 422636.9806 14.07652557 -82.79209814 2.109318575
B BL 7 L 5 505346.8111 10.54944828 -32.92247366 2.401900921
B BL 8 L 5 327256.1889 4.54452141 -108.9732999 NA
B BL 9 L 5 297821.3081 5.790905912 -69.12999069 0.97480589
B BL 10 L 5 312800.8307 1.799366694 -37.87140656 1.867861474
B BL 11 L 5 276755.2239 16.39601357 -116.8598973 3.983788919
B BL 12 L 5 325992.6072 -1.662834798 -59.07928704 0.754559239
B BF 13 F 5 407045.5569 5.520809388 -69.10727005 0.217938814
B BF 14 F 5 252150.4253 0.808068555 -58.6850321 0.121090905
B BF 15 F 5 313959.6195 3.835605888 -54.55179174 0.037920753
B BF 16 F 5 434645.7327 20.46019005 -99.85724667 2.434052894
B BF 17 F 5 416709.795 8.075076552 -131.455198 3.872888994
B BF 18 F 5 516290.4874 14.85285242 -127.2814077 1.683358728
B BQ 1 Q 7 298659.4224 3.156305761 -113.8899137 2.26663945
B BQ 2 Q 7 373406.6274 2.192962923 -112.3176478 1.823378652
B BQ 3 Q 7 570586.4459 8.363801259 -28.99612608 1.699736881
B BQ 4 Q 7 282344.4747 4.603852092 -39.11868047 2.105567533
B BQ 5 Q 7 365304.795 38.2299814 -39.50095483 1.257537129
B BQ 6 Q 7 374278.1826 -3.108669512 -72.55479777 2.356678228
B BL 7 L 7 591279.0009 8.331596502 -58.67609711 7.167617014
B BL 8 L 7 281588.779 2.587431098 -137.6322706 4.522019435
B BL 9 L 7 308005.3214 2.252557185 -86.73860188 1.686565651
B BL 10 L 7 160381.235 9.466091319 -41.25831933 3.912095613
B BL 11 L 7 234260.8773 4.12114588 -120.199607 2.507914542
B BL 12 L 7 236250.0334 2.089088085 -52.13223363 1.020600881
B BF 13 F 7 434360.9711 3.847437137 -68.6534629 0.131454075
B BF 14 F 7 298024.1078 1.664335803 -54.33299935 0.121889317
B BF 15 F 7 373623.5483 2.626753072 -72.45378442 0.332207586
B BF 16 F 7 358698.7977 14.78020607 -129.9913462 3.894143995
B BF 17 F 7 331031.4196 5.282407857 -123.0539725 4.36586359
B BF 18 F 7 410232.3583 4.94196939 -126.6330716 2.468043
B BQ 1 Q 9 267131.948 0.693743289 -91.20160107 5.845685158
B BQ 2 Q 9 347012.0332 1.907191787 -104.6978508 2.109537836
B BQ 3 Q 9 441484.7339 0.357179417 -41.77793612 1.810074874
B BQ 4 Q 9 329870.5557 0.207696101 -23.42841154 NA
B BQ 5 Q 9 295282.9454 -0.664370153 -82.8476412 NA
B BQ 6 Q 9 349806.5449 2.316214574 -82.96986023 NA
B BL 7 L 9 495315.5833 16.69804123 -36.52884603 NA
B BL 8 L 9 293326.1803 -0.46360273 -77.76503268 NA
B BL 9 L 9 280897.0396 4.259026784 -67.52997398 NA
B BL 10 L 9 273802.2732 4.37174937 -69.79057644 NA
B BL 11 L 9 266321.1982 -1.210249322 -79.87773809 NA
B BL 12 L 9 295034.4267 5.313016506 -79.93989197 NA
B BF 13 F 9 287694.476 -14.08603906 -87.34605046 NA
B BF 14 F 9 150147.71 -1.267426121 NA NA
B BF 15 F 9 289132.3492 1.103916858 -74.37011766 NA
B BF 16 F 9 351149.3021 -0.293881607 -89.96232932 NA
B BF 17 F 9 352614.9732 5.994017799 -125.5061081 NA
B BF 18 F 9 399616.1053 9.589527174 -68.5147225 NA
B BQ 1 Q 11 280503.7569 -50.58760066 -90.38021713 NA
B BQ 2 Q 11 293710.5627 7.902843897 -116.6524653 NA
B BQ 3 Q 11 451838.2753 23.50800282 -56.28815463 NA
B BQ 4 Q 11 344441.1337 -18.34109996 -62.92569301 NA
B BQ 5 Q 11 351772.9847 -29.52765332 -73.60865736 NA
B BQ 6 Q 11 386758.6897 -26.44414125 -111.6795763 NA
B BL 7 L 11 429308.1079 11.19852187 -35.98078909 NA
B BL 8 L 11 346953.3208 -21.41961333 -140.7341425 NA
B BL 9 L 11 338975.8884 19.10970644 -70.98216801 NA
B BL 10 L 11 362907.5774 18.64681825 -54.95487765 NA
B BL 11 L 11 300056.7357 3.522430416 -95.30525857 NA
B BL 12 L 11 375219.8781 34.04354766 -56.01870038 NA
B BF 13 F 11 392943.346 9.187645487 -56.64532558 NA
B BF 14 F 11 331750.487 -12.54202051 -48.98036181 NA
B BF 15 F 11 272682.0851 4.116222435 -37.60221838 NA
B BF 16 F 11 419455.8105 26.83958406 -120.1459038 NA
B BF 17 F 11 432123.9983 0.272719687 -113.0702236 NA
B BF 18 F 11 410995.8718 41.04082046 -96.54930257 NA
B BQ 1 Q 1 265568.6893 3.510172555 -93.70942978 NA
B BQ 2 Q 1 333571.6882 -9.983293696 -50.98963578 NA
B BQ 3 Q 1 501446.3919 22.249509 -55.6321194 NA
B BQ 4 Q 1 364664.1624 7.919321017 -99.89940849 NA
B BQ 5 Q 1 486140.4341 8.281723693 -109.1909313 NA
B BQ 6 Q 1 450577.1881 5.739769043 -112.8815909 NA
B BL 7 L 1 622366.0698 5.487173212 -65.86476821 NA
B BL 8 L 1 339908.4682 -13.97024351 -146.32546 NA
B BL 9 L 1 295713.8329 5.685549125 -86.31624531 NA
B BL 10 L 1 395676.7897 5.281820558 -55.82924634 NA
B BL 11 L 1 366595.0726 1.659407083 -162.5968242 NA
B BL 12 L 1 416867.0995 3.810557063 -90.29655798 NA
B BF 13 F 1 314438.5402 2.8411981 -154.0131206 NA
B BF 14 F 1 185627.8465 11.8075452 -54.62604434 NA
B BF 15 F 1 221290.2432 15.04711038 19.69431551 NA
B BF 16 F 1 386502.7014 0.997079766 -163.5002682 NA
B BF 17 F 1 526462.9788 4.399531778 -167.1061972 NA
B BF 18 F 1 574336.5896 5.134255508 -150.5850682 NA
B BQ 1 Q 3 278373.6954 6.046238443 -137.8678693 NA
B BQ 2 Q 3 498021.4175 14.5333413 -241.5300724 NA
B BQ 3 Q 3 395954.0365 7.354889947 -55.33599669 NA
B BQ 4 Q 3 314204.6071 3.696872968 -52.28203735 NA
B BQ 5 Q 3 418576.9264 7.810549823 -66.20349419 NA
B BQ 6 Q 3 396513.0431 6.985682583 -101.126932 NA
B BL 7 L 3 392332.4598 4.597471231 -56.07098561 NA
B BL 8 L 3 361279.0531 2.625156352 -151.0328338 NA
B BL 9 L 3 297253.0133 3.904072434 -97.94231425 NA
B BL 10 L 3 280684.9472 7.841865119 -49.46604752 NA
B BL 11 L 3 295150.1724 6.621322217 -120.2023316 NA
B BL 12 L 3 330521.233 6.959753359 -63.40006278 NA
B BF 13 F 3 419386.9921 -2.143182678 -55.90770041 NA
B BF 14 F 3 242747.0994 1.891747982 -28.69867594 NA
B BF 15 F 3 325618.4606 2.110919504 -37.52428053 NA
B BF 16 F 3 392953.4766 9.883633132 -109.7706333 NA
B BF 17 F 3 491924.3633 9.366336044 -146.8305497 NA
B BF 18 F 3 458267.8421 15.99831381 -97.39613042 NA
E EQ 19 Q 5 437687.5104 27.10505578 -38.4455501 3.468761646
E EQ 20 Q 5 317148.037 8.720573201 -68.24265912 1.897641297
E EQ 21 Q 5 311498.4504 14.08898523 -19.4397309 2.650881857
E EQ 22 Q 5 338593.8119 9.472445444 -27.14303503 33.04995247
E EQ 23 Q 5 390015.8839 12.46032227 -38.89545149 2.233102893
E EQ 24 Q 5 306067.2904 19.54471966 -27.05356796 -0.14262195
E EL 25 L 5 416238.19 11.65637697 -94.23448728 9.080668731
E EL 26 L 5 208108.4147 10.19321203 -69.60296311 2.382742502
E EL 27 L 5 339647.7255 -0.97183572 -122.4048869 1.402311328
E EL 28 L 5 288481.5759 -0.637167439 -32.06926104 5.865051404
E EL 29 L 5 204281.9876 3.746554003 -10.51998403 NA
E EL 30 L 5 279390.8446 6.636055288 -66.15107737 0.326385238
E EF 31 F 5 294782.8285 -4.495020581 -64.75262127 0.028536747
E EF 32 F 5 343329.5448 -1.895485736 -9.013314182 0.170221478
E EF 33 F 5 253470.165 1.9246677 -68.26149709 -0.284105853
E EF 34 F 5 186078.192 1.657853386 -26.68696069 0.173663395
E EF 35 F 5 227336.5577 1.675629853 -28.38056339 1.170998624
E EF 36 F 5 141658.3005 3.078869443 -26.27788977 -0.579797211
E EQ 19 Q 7 272755.2825 18.57659657 -46.51774057 -0.88037175
E EQ 20 Q 7 229132.2362 3.903755458 -40.20460853 -0.207452614
E EQ 21 Q 7 444229.2736 100.1227126 -2.29496163 13.61571217
E EQ 22 Q 7 291539.4669 43.61205353 -15.83734504 -23.14953661
E EQ 23 Q 7 306134.5902 7.162156661 -26.96296318 -0.18887797
E EQ 24 Q 7 282680.5674 16.77789238 -0.869845947 -0.438230766
E EL 25 L 7 318161.5266 14.16689428 -78.52927217 -6.213021118
E EL 26 L 7 230066.6661 19.24644694 -22.70555867 -1.027671354
E EL 27 L 7 242602.6826 -3.483641655 -116.0568349 0.431848749
E EL 28 L 7 243664.8935 7.208268403 -31.01751489 -2.060042962
E EL 29 L 7 170340.4849 -3.177435798 -33.70874752 -0.262285911
E EL 30 L 7 264784.8771 -5.193467839 -80.52348079 -0.403333387
E EF 31 F 7 214989.607 4.734626127 -49.15888191 0.003164259
E EF 32 F 7 186354.9279 -9.346864863 -2.629273705 -0.21348897
E EF 33 F 7 138269.942 -7.91555647 -40.33508873 0.369788224
E EF 34 F 7 166859.2 -9.709279619 -44.02740772 -0.103917636
E EF 35 F 7 266133.5784 11.76463829 -35.33450687 -0.113463792
E EF 36 F 7 151754.2801 1.161070235 -41.80305104 0.031201839
E EQ 19 Q 9 244903.7129 26.62483866 -23.98853135 NA
E EQ 20 Q 9 258156.0002 14.59253463 NA NA
E EQ 21 Q 9 328661.0434 31.98053493 NA NA
E EQ 22 Q 9 320149.3402 17.86738594 -28.56193694 NA
E EQ 23 Q 9 393742.6034 36.98811177 -56.7042345 NA
E EQ 24 Q 9 362896.7185 17.26797853 -43.71044348 NA
E EL 25 L 9 355667.9706 4.802509489 -105.6784932 NA
E EL 26 L 9 216438.2418 8.512821675 -51.49252769 NA
E EL 27 L 9 237657.708 2.389432509 -121.9571142 NA
E EL 28 L 9 286873.5635 3.797702265 -45.7845775 NA
E EL 29 L 9 156137.5091 0.718437046 -27.14507587 NA
E EL 30 L 9 285860.0077 8.199470715 -81.04149868 NA
E EF 31 F 9 322903.7198 1.419045438 -41.21533482 NA
E EF 32 F 9 324121.3556 -3.894741547 -24.4533677 NA
E EF 33 F 9 233321.057 3.35347826 -42.53833716 NA
E EF 34 F 9 148476.9672 7.121485707 -56.53574437 NA
E EF 35 F 9 248947.8244 4.042384232 -49.30146271 NA
E EF 36 F 9 172993.6516 -1.653806335 -50.09212075 NA
E EQ 19 Q 11 274814.443 9.469369837 -45.99390463 NA
E EQ 20 Q 11 324949.8154 43.82760329 -29.62303852 NA
E EQ 21 Q 11 251066.3206 21.44050745 -86.05139742 NA
E EQ 22 Q 11 293791.9971 -15.57911762 -35.33575202 NA
E EQ 23 Q 11 392009.9513 1.393344587 -45.15188455 NA
E EQ 24 Q 11 337563.0655 12.72143981 -37.33629963 NA
E EL 25 L 11 420936.7667 9.906899337 -103.4135556 NA
E EL 26 L 11 193686.9197 0.068305192 -30.8896361 NA
E EL 27 L 11 288474.7571 25.77536478 -96.77219695 NA
E EL 28 L 11 157492.6296 -20.17234456 -36.95924579 NA
E EL 29 L 11 60523.11382 27.65447796 -30.88160839 NA
E EL 30 L 11 175036.2051 -20.09025848 -86.87808552 NA
E EF 31 F 11 NA NA NA NA
E EF 32 F 11 NA NA NA NA
E EF 33 F 11 NA NA NA NA
E EF 34 F 11 183188.9507 35.97062416 -35.56193395 NA
E EF 35 F 11 246384.0895 33.40341573 -67.63506793 NA
E EF 36 F 11 147603.5962 27.83174668 -60.13290225 NA
E EQ 19 Q 1 336768.3806 26.66867845 -56.4098021 NA
E EQ 20 Q 1 316706.1032 13.3908552 -79.02835934 NA
E EQ 21 Q 1 347010.0455 38.60963189 1.631682945 NA
E EQ 22 Q 1 337879.4035 13.69527512 -21.36278446 NA
E EQ 23 Q 1 501702.8114 39.94133869 -26.06933928 NA
E EQ 24 Q 1 343092.5797 37.33720882 -20.83879917 NA
E EL 25 L 1 387470.9828 9.06070241 -125.6349437 NA
E EL 26 L 1 295649.0586 6.514816852 -48.93121909 NA
E EL 27 L 1 366540.57 7.746968572 -104.9899743 NA
E EL 28 L 1 316825.1738 11.22350746 -89.01535144 NA
E EL 29 L 1 252345.5585 1.645241455 -47.25773887 NA
E EL 30 L 1 333648.1969 2.57337389 -43.19087467 NA
E EF 31 F 1 322019.9519 -6.329878113 -51.28834521 NA
E EF 32 F 1 328112.1425 3.078620685 -32.25127642 NA
E EF 33 F 1 226526.344 -1.819616914 -57.87310453 NA
E EF 34 F 1 129916.4123 1.469594652 -48.99413893 NA
E EF 35 F 1 259862.7515 0.444522496 -61.10068797 NA
E EF 36 F 1 157902.1244 -2.998666669 -27.18937 NA
E EQ 19 Q 3 351651.3333 28.31512383 -38.22829823 NA
E EQ 20 Q 3 235549.0364 4.262662187 -11.60083843 NA
E EQ 21 Q 3 272128.986 15.11516033 -8.778564344 NA
E EQ 22 Q 3 322798.9379 17.52417479 -19.03675421 NA
E EQ 23 Q 3 394282.54 39.48321929 -24.2129649 NA
E EQ 24 Q 3 320324.8348 38.58230504 -18.22994081 NA
E EL 25 L 3 300230.9277 34.78380885 -100.0707991 NA
E EL 26 L 3 233805.1596 -24.10938573 -38.95044405 NA
E EL 27 L 3 267326.1055 22.88092006 -114.9671662 NA
E EL 28 L 3 137337.7629 11.49473786 -7.652358645 NA
E EL 29 L 3 263481.6341 14.34988612 -9.188211298 NA
E EL 30 L 3 NA NA NA NA
E EF 31 F 3 243888.9949 4.699184165 -45.00683875 NA
E EF 32 F 3 289260.3653 -11.50249984 -22.80403864 NA
E EF 33 F 3 226480.4544 -17.53952775 -44.28170233 NA
E EF 34 F 3 173050.0547 3.74893295 -53.4491128 NA
E EF 35 F 3 316362.1625 -0.000225429 -39.45828416 NA
E EF 36 F 3 152689.2543 0.466840677 -12.30379247 NA
C CQ 37 Q 5 233447.3838 1.698347681 -30.4240848 0.205557406
C CQ 38 Q 5 299645.3208 -2.300055993 4.108490556 0.484104441
C CQ 39 Q 5 191069.7888 4.246910072 178.541461 0.152371675
C CQ 40 Q 5 142043.4657 0.970001242 -16.65360766 0.587082176
C CQ 41 Q 5 198556.5214 -2.854100817 -29.34185272 0.096061334
C CQ 42 Q 5 208761.9886 1.421267403 4.349974206 0.083585135
C CL 43 L 5 86321.2019 4.125038483 -17.95941806 -0.060347743
C CL 44 L 5 149809.9533 -1.61773299 -23.75283642 0.038286299
C CL 45 L 5 218952.6551 3.683227192 -38.77097021 0.239057667
C CL 46 L 5 199159.7551 -1.127856173 -20.99545137 NA
C CL 47 L 5 79423.98183 -0.148705209 -14.20212721 -0.433826663
C CL 48 L 5 122976.2074 2.159657773 -18.20710067 0.147837921
C CF 49 F 5 68974.53532 -2.592130106 -15.31767231 -0.000984646
C CF 50 F 5 75053.97098 1.773246448 -24.57803085 -0.035670744
C CF 51 F 5 98463.55231 6.648399553 -30.95838439 0.151869659
C CF 52 F 5 69665.25157 -0.817104642 -14.32622128 -0.047610825
C CF 53 F 5 81315.05259 -4.642101749 -20.14336396 -0.005823058
C CF 54 F 5 39047.46699 -1.093037666 -3.483435715 -0.022810059
C CQ 37 Q 7 187600.9762 7.709074098 -28.36994204 0.079260079
C CQ 38 Q 7 169039.0779 -1.425183751 -8.149242335 1.079821687
C CQ 39 Q 7 143754.8977 11.76230595 149.1904913 0.084726617
C CQ 40 Q 7 128466.7405 10.32005425 -7.142536489 0.668078461
C CQ 41 Q 7 261458.4529 10.95003122 -25.9032005 0.001863056
C CQ 42 Q 7 165996.1145 3.418332013 -12.07310953 0.341669045
C CL 43 L 7 178262.1621 10.06763253 -14.04103923 0.417123788
C CL 44 L 7 187939.3509 13.32472157 -13.43905618 0.033517522
C CL 45 L 7 332954.7239 8.818367175 -45.88927139 0.571550404
C CL 46 L 7 111378.2956 3.918372021 -4.428708963 0.020250484
C CL 47 L 7 49835.87255 5.953927743 3.755038387 -0.05062609
C CL 48 L 7 65718.89899 -6.665595745 -3.496851082 0.022849729
C CF 49 F 7 80231.92173 -5.236500341 -8.313698982 -0.007773235
C CF 50 F 7 91431.72964 -6.0354131 -7.396947693 -0.029410828
C CF 51 F 7 89330.08065 -29.51656881 -15.13143579 0.117210208
C CF 52 F 7 7296.400288 0.32230393 -4.131500872 -0.037952521
C CF 53 F 7 35754.30562 -30.34482158 -11.68602491 -0.034111879
C CF 54 F 7 34679.22455 -0.081100085 -5.696691656 0.005106775
C CQ 37 Q 9 294981.5637 4.591484923 8.492771735 NA
C CQ 38 Q 9 254988.1637 4.420898382 -29.87275175 NA
C CQ 39 Q 9 226872.9676 9.920104135 -5.391142625 NA
C CQ 40 Q 9 17945.58136 -2.021525091 -9.8149638 NA
C CQ 41 Q 9 176433.5106 0.170025903 -26.86935575 NA
C CQ 42 Q 9 136668.754 2.234463633 -11.99146342 NA
C CL 43 L 9 220018.1104 5.327233221 -19.73010472 NA
C CL 44 L 9 183205.4528 -0.029614085 -7.266432888 NA
C CL 45 L 9 280858.3036 8.321945099 -46.89012664 NA
C CL 46 L 9 152692.1356 0.276319558 -9.227991581 NA
C CL 47 L 9 90141.13197 -4.3580848 -11.96399734 NA
C CL 48 L 9 101584.2711 4.005523663 -11.84511055 NA
C CF 49 F 9 126176.8421 3.314405379 -9.778677705 NA
C CF 50 F 9 135227.4138 -1.73456201 -9.160919075 NA
C CF 51 F 9 115078.6621 -7.750113048 -37.26501057 NA
C CF 52 F 9 73533.33115 -1.572823229 -15.65848581 NA
C CF 53 F 9 136958.4236 -1.571429185 -26.26048193 NA
C CF 54 F 9 133556.2219 -0.785865458 -13.93038719 NA
C CQ 37 Q 11 279274.3323 10.51075065 -88.94596555 NA
C CQ 38 Q 11 231371.8905 14.38762209 -34.8588588 NA
C CQ 39 Q 11 221478.1022 10.01942551 -498.1044309 NA
C CQ 40 Q 11 272354.7421 5.85436933 -60.33078959 NA
C CQ 41 Q 11 373100.5278 5.492083675 -128.1302821 NA
C CQ 42 Q 11 288689.3196 3.705498139 -73.58184915 NA
C CL 43 L 11 274476.6217 11.02490604 -35.83441804 NA
C CL 44 L 11 285114.9004 2.694954562 -34.50214131 NA
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