Last updated on 2025-02-17 02:51:22 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.7.2 | 15.85 | 133.24 | 149.09 | OK | |
| r-devel-linux-x86_64-debian-gcc | 0.7.2 | 11.68 | 94.16 | 105.84 | OK | |
| r-devel-linux-x86_64-fedora-clang | 0.7.2 | 259.80 | ERROR | |||
| r-devel-linux-x86_64-fedora-gcc | 0.7.2 | 241.71 | ERROR | |||
| r-devel-macos-arm64 | 0.7.2 | 75.00 | OK | |||
| r-devel-macos-x86_64 | 0.7.2 | 162.00 | OK | |||
| r-devel-windows-x86_64 | 0.7.2 | 17.00 | 142.00 | 159.00 | OK | |
| r-patched-linux-x86_64 | 0.7.2 | 16.19 | 123.13 | 139.32 | OK | |
| r-release-linux-x86_64 | 0.7.2 | 15.34 | 125.46 | 140.80 | OK | |
| r-release-macos-arm64 | 0.7.2 | 75.00 | OK | |||
| r-release-macos-x86_64 | 0.7.2 | 157.00 | OK | |||
| r-release-windows-x86_64 | 0.7.2 | 19.00 | 146.00 | 165.00 | OK | |
| r-oldrel-macos-arm64 | 0.7.2 | 90.00 | OK | |||
| r-oldrel-macos-x86_64 | 0.7.2 | 184.00 | OK | |||
| r-oldrel-windows-x86_64 | 0.7.2 | 22.00 | 236.00 | 258.00 | OK |
Version: 0.7.2
Check: examples
Result: ERROR
Running examples in ‘semEff-Ex.R’ failed
The error most likely occurred in:
> ### Name: stdEff
> ### Title: Standardised Effects
> ### Aliases: stdEff
>
> ### ** Examples
>
> library(lme4)
Loading required package: Matrix
Attaching package: ‘lme4’
The following object is masked from ‘package:semEff’:
getData
>
> # Standardised (direct) effects for SEM
> m <- shipley.sem
> stdEff(m)
$DD
(Intercept) lat
-0.05600661 -0.68772025
$Date
(Intercept) DD
-0.01493651 -0.62813666
$Growth
(Intercept) Date
-0.2917507 0.3824224
$Live
(Intercept) Growth
0.3105220 0.3681961
> stdEff(m, cen.y = FALSE, std.y = FALSE) # x-only
$DD
(Intercept) lat
143.183138 -7.066909
$Date
(Intercept) DD
126.79703 -5.11375
$Growth
(Intercept) Date
48.955514 2.448161
$Live
(Intercept) Growth
5.452982 2.226862
> stdEff(m, std.x = FALSE, std.y = FALSE) # centred only
$DD
(Intercept) lat
-0.5755154 -0.8354729
$Date
(Intercept) DD
-0.1216002 -0.4976475
$Growth
(Intercept) Date
-1.8677067 0.3007147
$Live
(Intercept) Growth
1.8780467 0.3478536
> stdEff(m, cen.x = FALSE, cen.y = FALSE) # scaled only
$DD
(Intercept) lat
19.1373370 -0.6877202
$Date
(Intercept) DD
24.3624481 -0.6281367
$Growth
(Intercept) Date
1.6853620 0.3824224
$Live
(Intercept) Growth
-2.0214940 0.3681961
> stdEff(m, unique.eff = FALSE) # include multicollinearity
$DD
(Intercept) lat
-0.05600661 -0.68772025
$Date
(Intercept) DD
-0.01493651 -0.62813666
$Growth
(Intercept) Date
-0.2917507 0.3824224
$Live
(Intercept) Growth
0.3105220 0.3681961
> stdEff(m, R.squared = TRUE) # add R-squared
$DD
(Intercept) lat (R.squared) (R.squared.adj)
-0.05600661 -0.68772025 0.70800826 0.70747906
(R.squared.pred)
0.68356361
$Date
(Intercept) DD (R.squared) (R.squared.adj)
-0.01493651 -0.62813666 0.98555565 0.98553510
(R.squared.pred)
0.98202414
$Growth
(Intercept) Date (R.squared) (R.squared.adj)
-0.2917507 0.3824224 0.7938367 0.7934879
(R.squared.pred)
0.7552854
$Live
(Intercept) Growth (R.squared) (R.squared.adj)
0.3105220 0.3681961 0.2668652 0.2655971
(R.squared.pred)
NA
> stdEff(m, incl.raw = TRUE) # add unstandardised
$DD
(Intercept) lat (raw)_(Intercept) (raw)_lat
-0.05600661 -0.68772025 196.65237838 -0.83547294
$Date
(Intercept) DD (raw)_(Intercept) (raw)_DD
-0.01493651 -0.62813666 198.33816379 -0.49764747
$Growth
(Intercept) Date (raw)_(Intercept) (raw)_Date
-0.2917507 0.3824224 10.7892162 0.3007147
$Live
(Intercept) Growth (raw)_(Intercept) (raw)_Growth
0.3105220 0.3681961 -12.2260588 0.3478536
>
> # Demonstrate equality with effects from manually-standardised variables
> # (gaussian models only)
> m <- shipley.growth[[3]]
> d <- data.frame(scale(na.omit(shipley)))
> e1 <- stdEff(m, unique.eff = FALSE)
> e2 <- coef(summary(update(m, data = d)))[, 1]
Warning in optwrap(optimizer, devfun, getStart(start, rho$pp), lower = rho$lower, :
convergence code -2 from nloptwrap: NLOPT_INVALID_ARGS: Invalid arguments (e.g. lower bounds are bigger than upper bounds, an unknown algorithm was specified, etcetera).
Warning in checkConv(attr(opt, "derivs"), opt$par, ctrl = control$checkConv, :
Model failed to converge with max|grad| = 8.25548 (tol = 0.002, component 1)
> stopifnot(all.equal(e1, e2))
Error: e1 and e2 are not equal:
Mean relative difference: 0.1456697
Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc