Last updated on 2026-10-07 17:51:49 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.0.3 | 12.19 | 106.61 | 118.80 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.0.4 | OK | ||||
| r-devel-linux-x86_64-fedora-clang | 1.0.4 | 8.00 | 75.07 | 83.07 | OK | |
| r-devel-linux-x86_64-fedora-gcc | 1.0.4 | 8.00 | 72.77 | 80.77 | OK | |
| r-devel-windows-x86_64 | 1.0.3 | 16.00 | 118.00 | 134.00 | OK | |
| r-patched-linux-x86_64 | 1.0.3 | 8.61 | 95.91 | 104.52 | OK | |
| r-release-linux-x86_64 | 1.0.3 | ERROR | ||||
| r-release-macos-arm64 | 1.0.4 | 3.00 | 30.00 | 33.00 | OK | |
| r-release-macos-x86_64 | 1.0.4 | 8.00 | 109.00 | 117.00 | OK | |
| r-release-windows-x86_64 | 1.0.3 | 13.00 | 131.00 | 144.00 | OK | |
| r-oldrel-macos-arm64 | 1.0.4 | 4.00 | 39.00 | 43.00 | OK | |
| r-oldrel-macos-x86_64 | 1.0.4 | 8.00 | 120.00 | 128.00 | OK | |
| r-oldrel-windows-x86_64 | 1.0.3 | 20.00 | 142.00 | 162.00 | ERROR |
Version: 1.0.3
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$T2,
+ alpha = 35, beta = 55,
+ design = list(nu = 1, m = 1,p = 1, sea = 1),
+ stvalue = list(sigma = 0.9, nu = 0.4, m = -1, p = 0.2, u = 0.4, w = 0.4),
+ upper = list(sigma = 5, nu = 1, m = 2, p = 0.5, u = 1, w = 1),
+ lower = list(sigma = 0, nu = 0, m = -2, p = 0.0, u = 0, w = 0),
+ control = list(maxit = 1e4),
+ nresamp = 3, na_action = "narm")
Error in names(x) <- value :
'names' attribute [7] must be the same length as the vector [0]
Calls: grotag_boot -> colnames<-
Execution halted
Flavor: r-release-linux-x86_64
Version: 1.0.3
Check: examples
Result: ERROR
Running examples in 'fishboot-Ex.R' failed
The error most likely occurred in:
> ### Name: grotag_boot
> ### Title: Bootstrapped tag-and-recapture growth analysis
> ### Aliases: grotag_boot
>
> ### ** Examples
>
> # Load example DB from fishmethods package
> data(bonito, package = "fishmethods")
>
> # Run the example cited on ?grotag
> fishmethods::grotag(L1 = bonito$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 97.5124180
K 0.1935571
$correlation
[,1] [,2] [,3] [,4] [,5] [,6]
[1,] 1.000000000 0.35142057 0.005507865 -0.36432847 -0.604872472 -0.07619602
[2,] 0.351420572 1.00000000 0.028362210 -0.25786764 -0.385221032 -0.01109868
[3,] 0.005507865 0.02836221 1.000000000 -0.34337800 0.009500816 -0.17215199
[4,] -0.364328468 -0.25786764 -0.343378003 1.00000000 0.256739157 -0.17737094
[5,] -0.604872472 -0.38522103 0.009500816 0.25673916 1.000000000 0.05372803
[6,] -0.076196022 -0.01109868 -0.172151990 -0.17737094 0.053728029 1.00000000
[7,] -0.079941392 -0.24182777 -0.072780845 0.02018474 -0.120394915 0.07908529
[8,] -0.370729488 -0.09370618 0.060163152 -0.04358250 0.070311966 0.03322343
[,7] [,8]
[1,] -0.07994139 -0.37072949
[2,] -0.24182777 -0.09370618
[3,] -0.07278085 0.06016315
[4,] 0.02018474 -0.04358250
[5,] -0.12039491 0.07031197
[6,] 0.07908529 0.03322343
[7,] 1.00000000 0.08063131
[8,] 0.08063131 1.00000000
$predicted
[1] 1.97457439 0.10992873 0.41543489 0.29020908 0.30618026 1.97605213
[7] 0.38277006 0.90961597 1.05288444 1.77439946 7.30682595 0.03561397
[13] 0.45950177 1.74247435 5.61893030 0.57347442 1.30490339 0.93631884
[19] 0.72806299 0.61180153 0.30261540 0.69203447 2.05188047 1.28761018
[25] 0.37081121 0.27662086 1.34304234 0.76119043 0.54475994 0.53100527
[31] 0.51560200 0.69428371 5.00175273 6.03624282 4.51531168 1.69452606
[37] 0.88381462 2.14902148 3.77081611 5.02834862 1.91286462 0.06615485
[43] 0.38922058 2.85676118 4.51531168 6.90915901 0.57753532 0.83032382
[49] 3.00423165 0.65546917 0.35268359 0.62243210 0.42144674 0.35814150
[55] 0.44927131 0.72740612 0.64430964 0.90989742 5.22461174 0.90416343
[61] 2.50738211 0.96204316 0.22263271 0.25598441 0.00000000 0.05450419
[67] 0.05974373 0.38627305 1.95046021 0.36385288 0.46196224 1.58043551
[73] 1.80258632 0.01710753 0.23715736 21.65836812 3.08502729 8.51415841
[79] 2.31533881 9.07016119 8.76800126 5.19532660 2.87854260 4.36974960
[85] 10.21014295 2.98690497 0.10188413 3.98153413 0.38922058 0.27356639
[91] 4.89447053 4.52531203 0.30111623 1.96582395 1.45559951 1.25792723
[97] 0.52971460 1.19968255 3.12938937 1.07045825 2.39897864 1.32776555
[103] 2.01931649 0.69947219 0.81984407 1.08408602 0.70242508 1.90555154
[109] 0.56928103 0.85294911 1.74266819 0.33822725 0.60252835 0.55234901
[115] 1.05664969 1.35661103 3.02621100 0.97621827 2.64676411 3.61107336
[121] 0.22123384 0.11469325 0.12199900 10.14258353 8.63571445 5.86162714
[127] 3.96978042 3.63203455 2.11552554 4.77659134 3.81884665 4.40954547
[133] 3.64240061 1.76478435 2.55318487 4.40428582 3.24706241 2.36671528
$residuals
[1] 1.725425612 0.090071275 -1.615434889 -0.290209083 -0.306180256
[6] -0.876052132 -0.382770055 -0.809615966 -0.252884443 -1.374399465
[11] -3.006825948 -1.735613973 -0.059501771 0.057525647 -0.418930305
[16] -1.873474418 0.395096606 -1.436318839 -1.128062987 -1.711801530
[21] -0.602615405 -1.692034475 -1.351880466 -3.187610182 -1.170811209
[26] -1.776620864 -0.943042343 -1.261190432 -0.444759942 -0.631005267
[31] -1.415602000 -0.294283715 0.598247271 1.263757175 3.184688323
[36] 0.305473936 -1.683814621 -1.049021479 1.229183890 -0.428348620
[41] -0.812864615 -0.066154849 0.010779418 -1.656761185 -2.015311677
[46] -1.609159010 -1.277535322 -1.530323824 1.795768348 -1.755469166
[51] -0.352683595 -0.622432095 -1.621446738 -0.558141498 -2.549271311
[56] -1.427406118 -1.944309637 -1.809897423 -1.124611744 -0.804163429
[61] -0.507382111 -0.962043165 -1.022632711 -0.855984406 -1.000000000
[66] -0.054504189 -0.059743725 -0.186273055 -1.450460212 -1.363852884
[71] -0.461962245 -1.880435506 -1.302586320 -1.517107534 -0.037157363
[76] 6.941631883 0.414972711 -6.214158407 -0.815338809 -2.870161186
[81] -6.568001255 -1.495326604 1.921457399 -0.469749600 1.389857052
[86] 1.213095028 -0.001884130 -1.481534126 0.010779418 0.726433611
[91] -1.394470532 -2.125312027 -0.101116234 -1.765823950 1.044400491
[96] -1.057927227 -1.329714598 -0.899682554 -1.929389374 0.429541745
[101] -0.398978643 -1.027765552 -1.219316495 0.500527805 -0.119844070
[106] 0.815913980 -0.402425083 -1.905551543 0.030718965 -0.852949112
[111] -1.242668189 -0.038227248 -0.202528350 -0.752349012 -1.856649688
[116] -0.756611027 -2.226210998 -1.976218271 -0.346764105 -1.511073356
[121] -0.421233843 0.385306753 -0.321999001 0.057416467 3.464285555
[126] -4.061627138 -1.469780425 0.867965449 -0.115525539 -1.376591342
[131] -1.318846655 -0.609545466 -1.242400609 1.335215645 -0.653184874
[136] -0.004285816 -0.547062409 1.433284718
>
> # Run the example using grotag_boot
> res <- grotag_boot(L1 = bonito$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-oldrel-windows-x86_64