Last updated on 2025-05-12 12:49:09 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.0.0 | 9.96 | 96.99 | 106.95 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.0.0 | 8.05 | 67.98 | 76.03 | OK | |
| r-devel-linux-x86_64-fedora-clang | 1.0.0 | 166.33 | ERROR | |||
| r-devel-linux-x86_64-fedora-gcc | 1.0.0 | 173.45 | OK | |||
| r-devel-windows-x86_64 | 1.0.0 | 14.00 | 104.00 | 118.00 | OK | |
| r-patched-linux-x86_64 | 1.0.0 | 11.27 | 87.06 | 98.33 | ERROR | |
| r-release-linux-x86_64 | 1.0.0 | 10.93 | 94.48 | 105.41 | OK | |
| r-release-macos-arm64 | 1.0.0 | 49.00 | OK | |||
| r-release-macos-x86_64 | 1.0.0 | 99.00 | OK | |||
| r-release-windows-x86_64 | 1.0.0 | 13.00 | 106.00 | 119.00 | OK | |
| r-oldrel-macos-arm64 | 1.0.0 | 55.00 | OK | |||
| r-oldrel-macos-x86_64 | 1.0.0 | 103.00 | OK | |||
| r-oldrel-windows-x86_64 | 1.0.0 | 16.00 | 133.00 | 149.00 | OK |
Version: 1.0.0
Check: examples
Result: ERROR
Running examples in ‘fishboot-Ex.R’ failed
The error most likely occurred in:
> ### Name: grotag_boot
> ### Title: Bootstrapped tag-and-recapture growth analysis
> ### Aliases: grotag_boot
>
> ### ** Examples
>
> # Load example DB from fishmethods package
> data(bonito, package = "fishmethods")
>
> # Run the example cited on ?grotag
> fishmethods::grotag(L1 = bonito$L1,
+ L2 = bonito$L2,
+ T1 = bonito$T1,
+ T2 = bonito$T2,
+ alpha = 35, beta = 55,
+ design = list(nu = 1, m = 1,p = 1, sea = 1),
+ stvalue = list(sigma = 0.9, nu = 0.4, m = -1, p = 0.2, u = 0.4, w = 0.4),
+ upper = list(sigma = 5, nu = 1, m = 2, p = 0.5, u = 1, w = 1),
+ lower = list(sigma = 0, nu = 0, m = -2, p = 0.0, u = 0, w = 0),
+ control = list(maxit = 1e4))
$table
Estimate SE
Parameters NA NA
Mean growth rates ga 11.000 0.7900
Mean growth rates gb 7.480 0.8900
Seasonal variation u 0.660 0.1280
w 0.653 0.0230
Growth variability nu 0.353 0.0570
Measurement error s 0.757 0.0720
m -0.725 0.1100
Outliers p 0.000 0.1061
NA NA
-Log likelihood 205.300 NA
AIC 426.700 NA
$VBparms
Estimate
Parameters NA
Linf 97.5125604
K 0.1935566
$correlation
[,1] [,2] [,3] [,4] [,5] [,6]
[1,] 1.000000000 0.35141884 0.005507452 -0.36432796 -0.604872368 -0.07619590
[2,] 0.351418845 1.00000000 0.028362019 -0.25786612 -0.385220092 -0.01109824
[3,] 0.005507452 0.02836202 1.000000000 -0.34337793 0.009501294 -0.17215202
[4,] -0.364327957 -0.25786612 -0.343377933 1.00000000 0.256738653 -0.17737135
[5,] -0.604872368 -0.38522009 0.009501294 0.25673865 1.000000000 0.05372793
[6,] -0.076195900 -0.01109824 -0.172152021 -0.17737135 0.053727933 1.00000000
[7,] -0.079940932 -0.24182798 -0.072780972 0.02018429 -0.120395291 0.07908537
[8,] -0.370729431 -0.09370574 0.060163172 -0.04358248 0.070311902 0.03322338
[,7] [,8]
[1,] -0.07994093 -0.37072943
[2,] -0.24182798 -0.09370574
[3,] -0.07278097 0.06016317
[4,] 0.02018429 -0.04358248
[5,] -0.12039529 0.07031190
[6,] 0.07908537 0.03322338
[7,] 1.00000000 0.08063108
[8,] 0.08063108 1.00000000
$predicted
[1] 1.97457444 0.10992874 0.41543494 0.29020907 0.30618020 1.97605157
[7] 0.38276996 0.90961573 1.05288412 1.77439910 7.30682780 0.03561399
[13] 0.45950205 1.74247319 5.61892885 0.57347483 1.30490254 0.93631821
[19] 0.72806318 0.61180195 0.30261611 0.69203461 2.05188746 1.28761108
[25] 0.37081100 0.27662105 1.34304296 0.76119089 0.54476043 0.53100556
[31] 0.51560222 0.69428330 5.00175354 6.03624863 4.51531254 1.69452791
[37] 0.88381686 2.14902183 3.77081612 5.02834916 1.91286489 0.06615485
[43] 0.38922084 2.85676257 4.51531254 6.90915972 0.57753503 0.83032347
[49] 3.00423180 0.65546983 0.35268459 0.62243191 0.42144659 0.35814139
[55] 0.44927130 0.72740594 0.64430950 0.90989783 5.22461319 0.90416315
[61] 2.50738129 0.96204341 0.22263271 0.25598446 0.00000000 0.05450419
[67] 0.05974371 0.38627301 1.95046000 0.36385291 0.46196234 1.58043515
[73] 1.80258836 0.01710754 0.23715732 21.65837649 3.08502754 8.51415902
[79] 2.31533837 9.07016192 8.76800253 5.19532519 2.87854263 4.36975045
[85] 10.21014253 2.98690602 0.10188419 3.98153486 0.38922084 0.27356658
[91] 4.89447123 4.52531270 0.30111613 1.96582332 1.45560012 1.25792784
[97] 0.52971489 1.19968196 3.12938809 1.07045767 2.39897751 1.32776489
[103] 2.01931567 0.69947262 0.81984357 1.08408554 0.70242469 1.90555088
[109] 0.56928079 0.85294873 1.74266756 0.33822708 0.60252810 0.55234879
[115] 1.05664942 1.35661042 3.02620993 0.97621807 2.64676247 3.61107298
[121] 0.22123407 0.11469337 0.12199911 10.14258697 8.63571347 5.86162644
[127] 3.96977972 3.63203404 2.11552480 4.77658952 3.81884542 4.40954402
[133] 3.64239902 1.76478562 2.55318641 4.40428478 3.24706309 2.36671463
$residuals
[1] 1.725425556 0.090071265 -1.615434938 -0.290209066 -0.306180196
[6] -0.876051575 -0.382769959 -0.809615732 -0.252884124 -1.374399102
[11] -3.006827801 -1.735613994 -0.059502050 0.057526811 -0.418928848
[16] -1.873474835 0.395097457 -1.436318212 -1.128063181 -1.711801952
[21] -0.602616109 -1.692034611 -1.351887458 -3.187611076 -1.170810997
[26] -1.776621047 -0.943042961 -1.261190892 -0.444760434 -0.631005561
[31] -1.415602218 -0.294283298 0.598246457 1.263751366 3.184687458
[36] 0.305472088 -1.683816863 -1.049021825 1.229183875 -0.428349162
[41] -0.812864890 -0.066154846 0.010779162 -1.656762566 -2.015312542
[46] -1.609159715 -1.277535032 -1.530323466 1.795768196 -1.755469828
[51] -0.352684594 -0.622431909 -1.621446594 -0.558141391 -2.549271303
[56] -1.427405938 -1.944309501 -1.809897827 -1.124613186 -0.804163154
[61] -0.507381288 -0.962043406 -1.022632715 -0.855984459 -1.000000000
[66] -0.054504190 -0.059743711 -0.186273015 -1.450460004 -1.363852911
[71] -0.461962341 -1.880435151 -1.302588359 -1.517107541 -0.037157321
[76] 6.941623506 0.414972456 -6.214159024 -0.815338372 -2.870161917
[81] -6.568002528 -1.495325188 1.921457371 -0.469750449 1.389857474
[86] 1.213093975 -0.001884187 -1.481534863 0.010779162 0.726433423
[91] -1.394471229 -2.125312700 -0.101116127 -1.765823324 1.044399881
[96] -1.057927845 -1.329714892 -0.899681958 -1.929388087 0.429542328
[101] -0.398977506 -1.027764890 -1.219315668 0.500527379 -0.119843572
[106] 0.815914462 -0.402424694 -1.905550879 0.030719210 -0.852948727
[111] -1.242667561 -0.038227081 -0.202528097 -0.752348792 -1.856649419
[116] -0.756610424 -2.226209928 -1.976218066 -0.346762474 -1.511072983
[121] -0.421234067 0.385306634 -0.321999110 0.057413028 3.464286531
[126] -4.061626437 -1.469779719 0.867965961 -0.115524802 -1.376589524
[131] -1.318845421 -0.609544018 -1.242399017 1.335214384 -0.653186407
[136] -0.004284780 -0.547063090 1.433285369
>
> # Run the example using grotag_boot
> res <- grotag_boot(L1 = bonito$L1,
+ L2 = bonito$L2,
+ T1 = bonito$T1,
+ T2 = bonito$T2,
+ alpha = 35, beta = 55,
+ design = list(nu = 1, m = 1,p = 1, sea = 1),
+ stvalue = list(sigma = 0.9, nu = 0.4, m = -1, p = 0.2, u = 0.4, w = 0.4),
+ upper = list(sigma = 5, nu = 1, m = 2, p = 0.5, u = 1, w = 1),
+ lower = list(sigma = 0, nu = 0, m = -2, p = 0.0, u = 0, w = 0),
+ control = list(maxit = 1e4),
+ nresamp = 3, na_action = "narm")
Error in names(x) <- value :
'names' attribute [7] must be the same length as the vector [0]
Calls: grotag_boot -> colnames<-
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 1.0.0
Check: examples
Result: ERROR
Running examples in ‘fishboot-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: grotag_boot
> ### Title: Bootstrapped tag-and-recapture growth analysis
> ### Aliases: grotag_boot
>
> ### ** Examples
>
> # Load example DB from fishmethods package
> data(bonito, package = "fishmethods")
>
> # Run the example cited on ?grotag
> fishmethods::grotag(L1 = bonito$L1,
+ L2 = bonito$L2,
+ T1 = bonito$T1,
+ T2 = bonito$T2,
+ alpha = 35, beta = 55,
+ design = list(nu = 1, m = 1,p = 1, sea = 1),
+ stvalue = list(sigma = 0.9, nu = 0.4, m = -1, p = 0.2, u = 0.4, w = 0.4),
+ upper = list(sigma = 5, nu = 1, m = 2, p = 0.5, u = 1, w = 1),
+ lower = list(sigma = 0, nu = 0, m = -2, p = 0.0, u = 0, w = 0),
+ control = list(maxit = 1e4))
$table
Estimate SE
Parameters NA NA
Mean growth rates ga 11.000 0.7900
Mean growth rates gb 7.480 0.8900
Seasonal variation u 0.660 0.1280
w 0.653 0.0230
Growth variability nu 0.353 0.0570
Measurement error s 0.757 0.0720
m -0.725 0.1100
Outliers p 0.000 0.1061
NA NA
-Log likelihood 205.300 NA
AIC 426.700 NA
$VBparms
Estimate
Parameters NA
Linf 97.5125541
K 0.1935566
$correlation
[,1] [,2] [,3] [,4] [,5] [,6]
[1,] 1.00000000 0.35141892 0.005507470 -0.36432798 -0.604872370 -0.07619591
[2,] 0.35141892 1.00000000 0.028362028 -0.25786619 -0.385220133 -0.01109826
[3,] 0.00550747 0.02836203 1.000000000 -0.34337794 0.009501275 -0.17215202
[4,] -0.36432798 -0.25786619 -0.343377936 1.00000000 0.256738672 -0.17737134
[5,] -0.60487237 -0.38522013 0.009501275 0.25673867 1.000000000 0.05372794
[6,] -0.07619591 -0.01109826 -0.172152020 -0.17737134 0.053727937 1.00000000
[7,] -0.07994095 -0.24182797 -0.072780967 0.02018431 -0.120395274 0.07908537
[8,] -0.37072943 -0.09370576 0.060163171 -0.04358248 0.070311903 0.03322338
[,7] [,8]
[1,] -0.07994095 -0.37072943
[2,] -0.24182797 -0.09370576
[3,] -0.07278097 0.06016317
[4,] 0.02018431 -0.04358248
[5,] -0.12039527 0.07031190
[6,] 0.07908537 0.03322338
[7,] 1.00000000 0.08063109
[8,] 0.08063109 1.00000000
$predicted
[1] 1.97457444 0.10992873 0.41543494 0.29020907 0.30618020 1.97605160
[7] 0.38276996 0.90961574 1.05288414 1.77439912 7.30682772 0.03561399
[13] 0.45950204 1.74247324 5.61892891 0.57347482 1.30490258 0.93631824
[19] 0.72806317 0.61180193 0.30261608 0.69203460 2.05188715 1.28761104
[25] 0.37081101 0.27662104 1.34304293 0.76119087 0.54476041 0.53100555
[31] 0.51560221 0.69428332 5.00175351 6.03624838 4.51531250 1.69452783
[37] 0.88381676 2.14902181 3.77081612 5.02834914 1.91286488 0.06615485
[43] 0.38922083 2.85676251 4.51531250 6.90915968 0.57753504 0.83032348
[49] 3.00423180 0.65546980 0.35268455 0.62243192 0.42144660 0.35814140
[55] 0.44927130 0.72740595 0.64430951 0.90989781 5.22461312 0.90416317
[61] 2.50738132 0.96204340 0.22263271 0.25598446 0.00000000 0.05450419
[67] 0.05974371 0.38627302 1.95046001 0.36385291 0.46196234 1.58043517
[73] 1.80258827 0.01710754 0.23715732 21.65837612 3.08502753 8.51415900
[79] 2.31533839 9.07016188 8.76800247 5.19532525 2.87854263 4.36975041
[85] 10.21014254 2.98690598 0.10188418 3.98153483 0.38922083 0.27356657
[91] 4.89447120 4.52531267 0.30111613 1.96582335 1.45560009 1.25792782
[97] 0.52971488 1.19968198 3.12938814 1.07045770 2.39897756 1.32776492
[103] 2.01931570 0.69947260 0.81984359 1.08408556 0.70242471 1.90555091
[109] 0.56928080 0.85294874 1.74266759 0.33822709 0.60252811 0.55234880
[115] 1.05664943 1.35661045 3.02620997 0.97621807 2.64676255 3.61107300
[121] 0.22123406 0.11469336 0.12199911 10.14258682 8.63571351 5.86162647
[127] 3.96977975 3.63203406 2.11552483 4.77658960 3.81884548 4.40954408
[133] 3.64239909 1.76478556 2.55318634 4.40428483 3.24706306 2.36671466
$residuals
[1] 1.725425558 0.090071265 -1.615434936 -0.290209066 -0.306180198
[6] -0.876051599 -0.382769964 -0.809615742 -0.252884138 -1.374399118
[11] -3.006827719 -1.735613993 -0.059502038 0.057526760 -0.418928911
[16] -1.873474816 0.395097420 -1.436318240 -1.128063172 -1.711801933
[21] -0.602616078 -1.692034605 -1.351887150 -3.187611037 -1.170811006
[26] -1.776621039 -0.943042934 -1.261190871 -0.444760413 -0.631005548
[31] -1.415602208 -0.294283316 0.598246493 1.263751622 3.184687496
[36] 0.305472170 -1.683816764 -1.049021810 1.229183876 -0.428349138
[41] -0.812864878 -0.066154846 0.010779173 -1.656762505 -2.015312504
[46] -1.609159684 -1.277535044 -1.530323482 1.795768203 -1.755469799
[51] -0.352684550 -0.622431917 -1.621446600 -0.558141396 -2.549271303
[56] -1.427405946 -1.944309507 -1.809897809 -1.124613122 -0.804163166
[61] -0.507381324 -0.962043395 -1.022632715 -0.855984457 -1.000000000
[66] -0.054504190 -0.059743712 -0.186273017 -1.450460013 -1.363852910
[71] -0.461962337 -1.880435166 -1.302588269 -1.517107541 -0.037157323
[76] 6.941623876 0.414972467 -6.214158996 -0.815338392 -2.870161885
[81] -6.568002471 -1.495325250 1.921457372 -0.469750412 1.389857456
[86] 1.213094022 -0.001884185 -1.481534830 0.010779173 0.726433431
[91] -1.394471198 -2.125312669 -0.101116132 -1.765823351 1.044399908
[96] -1.057927817 -1.329714879 -0.899681985 -1.929388144 0.429542302
[101] -0.398977556 -1.027764919 -1.219315705 0.500527398 -0.119843594
[106] 0.815914440 -0.402424711 -1.905550908 0.030719199 -0.852948744
[111] -1.242667588 -0.038227089 -0.202528108 -0.752348802 -1.856649430
[116] -0.756610451 -2.226209975 -1.976218075 -0.346762546 -1.511072999
[121] -0.421234057 0.385306639 -0.321999105 0.057413180 3.464286488
[126] -4.061626468 -1.469779750 0.867965939 -0.115524835 -1.376589604
[131] -1.318845476 -0.609544081 -1.242399087 1.335214440 -0.653186339
[136] -0.004284825 -0.547063060 1.433285341
>
> # Run the example using grotag_boot
> res <- grotag_boot(L1 = bonito$L1,
+ L2 = bonito$L2,
+ T1 = bonito$T1,
+ T2 = bonito$T2,
+ alpha = 35, beta = 55,
+ design = list(nu = 1, m = 1,p = 1, sea = 1),
+ stvalue = list(sigma = 0.9, nu = 0.4, m = -1, p = 0.2, u = 0.4, w = 0.4),
+ upper = list(sigma = 5, nu = 1, m = 2, p = 0.5, u = 1, w = 1),
+ lower = list(sigma = 0, nu = 0, m = -2, p = 0.0, u = 0, w = 0),
+ control = list(maxit = 1e4),
+ nresamp = 3, na_action = "narm")
Error in names(x) <- value :
'names' attribute [7] must be the same length as the vector [0]
Calls: grotag_boot -> colnames<-
Execution halted
Flavor: r-patched-linux-x86_64