Last updated on 2025-03-31 12:52:56 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.1.3.5 | 6.14 | 73.31 | 79.45 | ERROR | |
| r-devel-linux-x86_64-debian-gcc | 0.1.3.5 | 3.86 | 49.50 | 53.36 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 0.1.3.5 | 138.73 | ERROR | |||
| r-devel-linux-x86_64-fedora-gcc | 0.1.3.5 | 150.75 | ERROR | |||
| r-devel-macos-arm64 | 0.1.3.5 | 116.00 | OK | |||
| r-devel-macos-x86_64 | 0.1.3.5 | 220.00 | NOTE | |||
| r-devel-windows-x86_64 | 0.1.3.5 | 9.00 | 87.00 | 96.00 | ERROR | |
| r-patched-linux-x86_64 | 0.1.3.5 | 6.76 | 69.87 | 76.63 | ERROR | |
| r-release-linux-x86_64 | 0.1.3.5 | 5.26 | 68.61 | 73.87 | ERROR | |
| r-release-macos-arm64 | 0.1.3.5 | 127.00 | OK | |||
| r-release-macos-x86_64 | 0.1.3.5 | 220.00 | OK | |||
| r-release-windows-x86_64 | 0.1.3.5 | 8.00 | 94.00 | 102.00 | ERROR | |
| r-oldrel-macos-arm64 | 0.1.3.5 | OK | ||||
| r-oldrel-macos-x86_64 | 0.1.3.5 | 230.00 | OK | |||
| r-oldrel-windows-x86_64 | 0.1.3.5 | 12.00 | 97.00 | 109.00 | ERROR |
Version: 0.1.3.5
Check: DESCRIPTION meta-information
Result: NOTE
Missing dependency on R >= 4.1.0 because package code uses the pipe
|> or function shorthand \(...) syntax added in R 4.1.0.
File(s) using such syntax:
‘summary.spjctest.R’ ‘summary.spqtest.R’
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-macos-x86_64, r-devel-windows-x86_64, r-patched-linux-x86_64
Version: 0.1.3.5
Check: examples
Result: ERROR
Running examples in ‘spqdep-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: Q.map.test
> ### Title: Compute the QE and QI tests of Equivalence and Independence
> ### between maps
> ### Aliases: Q.map.test
>
> ### ** Examples
>
>
> # Case 1:
> N <- 200
> cx <- runif(N)
> cy <- runif(N)
> x <- cbind(cx,cy)
> listw <- spdep::nb2listw(spdep::knn2nb(
+ spdep::knearneigh(cbind(cx,cy), k = 4)))
> p <- c(1/6, 3/6, 2/6)
> rho = 0.5
> QY1 <- dgp.spq(p = p, listw = listw, rho = rho)
> rho = 0.8
> QY2 <- dgp.spq(p = p, listw = listw, rho = rho)
> dt = data.frame(QY1,QY2)
> m = 3
> r = 1
> formula <- ~ QY1 + QY2
> control <- list(dtmaxknn = 10)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="combinations", control = control)
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QE = 274.66, df = 9, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QI = 53.724, df = 81, p-value = 0.9916
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
> plot(qmap, ci=.6)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
> plot(qmap[[1]]$mh)
> summary(qmap[[1]]$mh)
Characteristics of m-surrounding:
Number of m-surrounding (R): 90
Length of m-surrounding (m): 3
Number no-symbolized observations: 12
List of no-symbolized observations:
8 62 66 69 80 85 117 122 130 146 191 199
List of the degree overlaping:
There are 2 m-surrounding that have intersection with 0 m-surrounding
There are 12 m-surrounding that have intersection with 1 m-surrounding
There are 76 m-surrounding that have intersection with 2 m-surrounding
Mean degree of overlaping: 1.8222
>
> control <- list(dtmaxknn = 20)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="permutations", control = control)
Warning in Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r, :
The ratio between the number of symbolized observations and the number of symbols is lower than 5.
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: permutations
Ratio Symbolized observations/Num symbols = 3.44
data: QY1 and QY2
QE = 297.2, df = 26, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: permutations
Ratio Symbolized observations/Num symbols = 3.44
data: QY1 and QY2
QI = 213.45, df = 676, p-value = 1
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
> plot(qmap[[1]]$mh)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="combinations")
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9.9
data: QY1 and QY2
QE = 298.05, df = 9, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9.9
data: QY1 and QY2
QI = 56.103, df = 81, p-value = 0.9842
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
> control <- list(dtmaxknn = 10)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="combinations", control = control)
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QE = 274.66, df = 9, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QI = 53.724, df = 81, p-value = 0.9916
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
>
> # Case 2:
> data(provinces_spain)
> # sf::sf_use_s2(FALSE)
> m = 3
> r = 1
>
> provinces_spain$Mal2Fml <- factor(provinces_spain$Mal2Fml > 100)
> levels(provinces_spain$Mal2Fml) = c("men","woman")
> provinces_spain$Coast <- factor(provinces_spain$Coast)
> levels(provinces_spain$Coast) = c("no","yes")
> formula <- ~ Coast + Mal2Fml
> qmap <- Q.map.test(formula = formula, data = provinces_spain, m = m, r = r,
+ type ="combinations")
Error in UseMethod("units") :
no applicable method for 'units' applied to an object of class "NULL"
Calls: Q.map.test -> m.surround -> rbind -> rbind -> units
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 0.1.3.5
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘user-guide.Rmd’ using rmarkdown
** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/spqdep.Rcheck/vign_test/spqdep/vignettes/user-guide_files/figure-html/unnamed-chunk-5-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 29175 bytes
Input file size = 29289 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 21545
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 21545
Output IDAT size = 21545 bytes (7630 bytes decrease)
Output file size = 21623 bytes (7666 bytes = 26.17% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/spqdep.Rcheck/vign_test/spqdep/vignettes/user-guide_files/figure-html/plot mh-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 29819 bytes
Input file size = 29933 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 27237
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 27237
Output IDAT size = 27237 bytes (2582 bytes decrease)
Output file size = 27315 bytes (2618 bytes = 8.75% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/spqdep.Rcheck/vign_test/spqdep/vignettes/user-guide_files/figure-html/plot mh prune-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 28643 bytes
Input file size = 28757 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 25872
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 25872
Output IDAT size = 25872 bytes (2771 bytes decrease)
Output file size = 25950 bytes (2807 bytes = 9.76% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/spqdep.Rcheck/vign_test/spqdep/vignettes/user-guide_files/figure-html/unnamed-chunk-10-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 28145 bytes
Input file size = 28259 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 20535
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 20535
Output IDAT size = 20535 bytes (7610 bytes decrease)
Output file size = 20613 bytes (7646 bytes = 27.06% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-clang/Work/PKGS/spqdep.Rcheck/vign_test/spqdep/vignettes/user-guide_files/figure-html/unnamed-chunk-10-2.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 21562 bytes
Input file size = 21664 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 16167
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 16167
Output IDAT size = 16167 bytes (5395 bytes decrease)
Output file size = 16245 bytes (5419 bytes = 25.01% decrease)
Quitting from user-guide.Rmd:272-279 [unnamed-chunk-11]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `UseMethod()`:
! no applicable method for 'units' applied to an object of class "NULL"
---
Backtrace:
▆
1. └─spqdep::Q.test(formula = f1, data = provinces_spain, m = 3, r = 1)
2. └─spqdep::m.surround(...)
3. └─base::rbind(mdtms, rowds)
4. └─units (local) rbind(deparse.level, ...)
5. └─base::units(dots[[1]])
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'user-guide.Rmd' failed with diagnostics:
no applicable method for 'units' applied to an object of class "NULL"
--- failed re-building ‘user-guide.Rmd’
SUMMARY: processing the following file failed:
‘user-guide.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 0.1.3.5
Check: examples
Result: ERROR
Running examples in ‘spqdep-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: Q.map.test
> ### Title: Compute the QE and QI tests of Equivalence and Independence
> ### between maps
> ### Aliases: Q.map.test
>
> ### ** Examples
>
>
> # Case 1:
> N <- 200
> cx <- runif(N)
> cy <- runif(N)
> x <- cbind(cx,cy)
> listw <- spdep::nb2listw(spdep::knn2nb(
+ spdep::knearneigh(cbind(cx,cy), k = 4)))
> p <- c(1/6, 3/6, 2/6)
> rho = 0.5
> QY1 <- dgp.spq(p = p, listw = listw, rho = rho)
> rho = 0.8
> QY2 <- dgp.spq(p = p, listw = listw, rho = rho)
> dt = data.frame(QY1,QY2)
> m = 3
> r = 1
> formula <- ~ QY1 + QY2
> control <- list(dtmaxknn = 10)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="combinations", control = control)
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QE = 288.39, df = 9, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QI = 72.266, df = 81, p-value = 0.7453
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
> plot(qmap, ci=.6)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
> plot(qmap[[1]]$mh)
> summary(qmap[[1]]$mh)
Characteristics of m-surrounding:
Number of m-surrounding (R): 90
Length of m-surrounding (m): 3
Number no-symbolized observations: 12
List of no-symbolized observations:
8 62 66 69 80 85 117 122 130 146 191 199
List of the degree overlaping:
There are 2 m-surrounding that have intersection with 0 m-surrounding
There are 12 m-surrounding that have intersection with 1 m-surrounding
There are 76 m-surrounding that have intersection with 2 m-surrounding
Mean degree of overlaping: 1.8222
>
> control <- list(dtmaxknn = 20)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="permutations", control = control)
Warning in Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r, :
The ratio between the number of symbolized observations and the number of symbols is lower than 5.
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: permutations
Ratio Symbolized observations/Num symbols = 3.44
data: QY1 and QY2
QE = 311.28, df = 26, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: permutations
Ratio Symbolized observations/Num symbols = 3.44
data: QY1 and QY2
QI = 214.29, df = 676, p-value = 1
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
> plot(qmap[[1]]$mh)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="combinations")
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9.9
data: QY1 and QY2
QE = 311.05, df = 9, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9.9
data: QY1 and QY2
QI = 70.978, df = 81, p-value = 0.7792
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
> control <- list(dtmaxknn = 10)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="combinations", control = control)
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QE = 288.39, df = 9, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QI = 72.266, df = 81, p-value = 0.7453
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
>
> # Case 2:
> data(provinces_spain)
> # sf::sf_use_s2(FALSE)
> m = 3
> r = 1
>
> provinces_spain$Mal2Fml <- factor(provinces_spain$Mal2Fml > 100)
> levels(provinces_spain$Mal2Fml) = c("men","woman")
> provinces_spain$Coast <- factor(provinces_spain$Coast)
> levels(provinces_spain$Coast) = c("no","yes")
> formula <- ~ Coast + Mal2Fml
> qmap <- Q.map.test(formula = formula, data = provinces_spain, m = m, r = r,
+ type ="combinations")
Error in UseMethod("units") :
no applicable method for 'units' applied to an object of class "NULL"
Calls: Q.map.test -> m.surround -> rbind -> rbind -> units
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 0.1.3.5
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘user-guide.Rmd’ using rmarkdown
** Processing: /home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/spqdep.Rcheck/vign_test/spqdep/vignettes/user-guide_files/figure-html/unnamed-chunk-5-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 29761 bytes
Input file size = 29875 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 22015
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 22015
Output IDAT size = 22015 bytes (7746 bytes decrease)
Output file size = 22093 bytes (7782 bytes = 26.05% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/spqdep.Rcheck/vign_test/spqdep/vignettes/user-guide_files/figure-html/plot mh-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 29819 bytes
Input file size = 29933 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 27237
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 27237
Output IDAT size = 27237 bytes (2582 bytes decrease)
Output file size = 27315 bytes (2618 bytes = 8.75% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/spqdep.Rcheck/vign_test/spqdep/vignettes/user-guide_files/figure-html/plot mh prune-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 28643 bytes
Input file size = 28757 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 25872
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 25872
Output IDAT size = 25872 bytes (2771 bytes decrease)
Output file size = 25950 bytes (2807 bytes = 9.76% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/spqdep.Rcheck/vign_test/spqdep/vignettes/user-guide_files/figure-html/unnamed-chunk-10-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 28007 bytes
Input file size = 28121 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 20426
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 20426
Output IDAT size = 20426 bytes (7581 bytes decrease)
Output file size = 20504 bytes (7617 bytes = 27.09% decrease)
** Processing: /home/hornik/tmp/R.check/r-devel-gcc/Work/PKGS/spqdep.Rcheck/vign_test/spqdep/vignettes/user-guide_files/figure-html/unnamed-chunk-10-2.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 21521 bytes
Input file size = 21623 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 16073
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 16073
Output IDAT size = 16073 bytes (5448 bytes decrease)
Output file size = 16151 bytes (5472 bytes = 25.31% decrease)
Quitting from user-guide.Rmd:272-279 [unnamed-chunk-11]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `UseMethod()`:
! no applicable method for 'units' applied to an object of class "NULL"
---
Backtrace:
▆
1. └─spqdep::Q.test(formula = f1, data = provinces_spain, m = 3, r = 1)
2. └─spqdep::m.surround(...)
3. └─base::rbind(mdtms, rowds)
4. └─units (local) rbind(deparse.level, ...)
5. └─base::units(dots[[1]])
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'user-guide.Rmd' failed with diagnostics:
no applicable method for 'units' applied to an object of class "NULL"
--- failed re-building ‘user-guide.Rmd’
SUMMARY: processing the following file failed:
‘user-guide.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 0.1.3.5
Check: examples
Result: ERROR
Running examples in ‘spqdep-Ex.R’ failed
The error most likely occurred in:
> ### Name: Q.map.test
> ### Title: Compute the QE and QI tests of Equivalence and Independence
> ### between maps
> ### Aliases: Q.map.test
>
> ### ** Examples
>
>
> # Case 1:
> N <- 200
> cx <- runif(N)
> cy <- runif(N)
> x <- cbind(cx,cy)
> listw <- spdep::nb2listw(spdep::knn2nb(
+ spdep::knearneigh(cbind(cx,cy), k = 4)))
> p <- c(1/6, 3/6, 2/6)
> rho = 0.5
> QY1 <- dgp.spq(p = p, listw = listw, rho = rho)
> rho = 0.8
> QY2 <- dgp.spq(p = p, listw = listw, rho = rho)
> dt = data.frame(QY1,QY2)
> m = 3
> r = 1
> formula <- ~ QY1 + QY2
> control <- list(dtmaxknn = 10)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="combinations", control = control)
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QE = 264.93, df = 9, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QI = 79.873, df = 81, p-value = 0.5146
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
> plot(qmap, ci=.6)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
> plot(qmap[[1]]$mh)
> summary(qmap[[1]]$mh)
Characteristics of m-surrounding:
Number of m-surrounding (R): 90
Length of m-surrounding (m): 3
Number no-symbolized observations: 12
List of no-symbolized observations:
8 62 66 69 80 85 117 122 130 146 191 199
List of the degree overlaping:
There are 2 m-surrounding that have intersection with 0 m-surrounding
There are 12 m-surrounding that have intersection with 1 m-surrounding
There are 76 m-surrounding that have intersection with 2 m-surrounding
Mean degree of overlaping: 1.8222
>
> control <- list(dtmaxknn = 20)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="permutations", control = control)
Warning in Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r, :
The ratio between the number of symbolized observations and the number of symbols is lower than 5.
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: permutations
Ratio Symbolized observations/Num symbols = 3.44
data: QY1 and QY2
QE = 290.15, df = 26, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: permutations
Ratio Symbolized observations/Num symbols = 3.44
data: QY1 and QY2
QI = 222.25, df = 676, p-value = 1
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
> plot(qmap[[1]]$mh)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="combinations")
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9.9
data: QY1 and QY2
QE = 286.93, df = 9, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9.9
data: QY1 and QY2
QI = 86.053, df = 81, p-value = 0.3295
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: No shared levels found between `names(values)` of the manual scale and the
data's fill values.
Warning: No shared levels found between `names(values)` of the manual scale and the
data's fill values.
Warning: No shared levels found between `names(values)` of the manual scale and the
data's fill values.
> control <- list(dtmaxknn = 10)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="combinations", control = control)
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QE = 264.93, df = 9, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QI = 79.873, df = 81, p-value = 0.5146
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
>
> # Case 2:
> data(provinces_spain)
> # sf::sf_use_s2(FALSE)
> m = 3
> r = 1
>
> provinces_spain$Mal2Fml <- factor(provinces_spain$Mal2Fml > 100)
> levels(provinces_spain$Mal2Fml) = c("men","woman")
> provinces_spain$Coast <- factor(provinces_spain$Coast)
> levels(provinces_spain$Coast) = c("no","yes")
> formula <- ~ Coast + Mal2Fml
> qmap <- Q.map.test(formula = formula, data = provinces_spain, m = m, r = r,
+ type ="combinations")
Error in UseMethod("units") :
no applicable method for 'units' applied to an object of class "NULL"
Calls: Q.map.test -> m.surround -> rbind -> rbind -> units
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 0.1.3.5
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘user-guide.Rmd’ using rmarkdown
Using optipng is skipped as output is variable
Using optipng is skipped as output is variable
Using optipng is skipped as output is variable
Using optipng is skipped as output is variable
Using optipng is skipped as output is variable
Quitting from user-guide.Rmd:272-279 [unnamed-chunk-11]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `UseMethod()`:
! no applicable method for 'units' applied to an object of class "NULL"
---
Backtrace:
▆
1. └─spqdep::Q.test(formula = f1, data = provinces_spain, m = 3, r = 1)
2. └─spqdep::m.surround(...)
3. └─base::rbind(mdtms, rowds)
4. └─units (local) rbind(deparse.level, ...)
5. └─base::units(dots[[1]])
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'user-guide.Rmd' failed with diagnostics:
no applicable method for 'units' applied to an object of class "NULL"
--- failed re-building ‘user-guide.Rmd’
SUMMARY: processing the following file failed:
‘user-guide.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc
Version: 0.1.3.5
Check: examples
Result: ERROR
Running examples in ‘spqdep-Ex.R’ failed
The error most likely occurred in:
> ### Name: Q.map.test
> ### Title: Compute the QE and QI tests of Equivalence and Independence
> ### between maps
> ### Aliases: Q.map.test
>
> ### ** Examples
>
>
> # Case 1:
> N <- 200
> cx <- runif(N)
> cy <- runif(N)
> x <- cbind(cx,cy)
> listw <- spdep::nb2listw(spdep::knn2nb(
+ spdep::knearneigh(cbind(cx,cy), k = 4)))
> p <- c(1/6, 3/6, 2/6)
> rho = 0.5
> QY1 <- dgp.spq(p = p, listw = listw, rho = rho)
> rho = 0.8
> QY2 <- dgp.spq(p = p, listw = listw, rho = rho)
> dt = data.frame(QY1,QY2)
> m = 3
> r = 1
> formula <- ~ QY1 + QY2
> control <- list(dtmaxknn = 10)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="combinations", control = control)
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QE = 275.74, df = 9, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QI = 75.034, df = 81, p-value = 0.6657
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
> plot(qmap, ci=.6)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
> plot(qmap[[1]]$mh)
> summary(qmap[[1]]$mh)
Characteristics of m-surrounding:
Number of m-surrounding (R): 90
Length of m-surrounding (m): 3
Number no-symbolized observations: 12
List of no-symbolized observations:
8 62 66 69 80 85 117 122 130 146 191 199
List of the degree overlaping:
There are 2 m-surrounding that have intersection with 0 m-surrounding
There are 12 m-surrounding that have intersection with 1 m-surrounding
There are 76 m-surrounding that have intersection with 2 m-surrounding
Mean degree of overlaping: 1.8222
>
> control <- list(dtmaxknn = 20)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="permutations", control = control)
Warning in Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r, :
The ratio between the number of symbolized observations and the number of symbols is lower than 5.
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: permutations
Ratio Symbolized observations/Num symbols = 3.44
data: QY1 and QY2
QE = 298.62, df = 26, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: permutations
Ratio Symbolized observations/Num symbols = 3.44
data: QY1 and QY2
QI = 229.99, df = 676, p-value = 1
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
> plot(qmap[[1]]$mh)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="combinations")
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9.9
data: QY1 and QY2
QE = 306.3, df = 9, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9.9
data: QY1 and QY2
QI = 67.395, df = 81, p-value = 0.8604
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
> control <- list(dtmaxknn = 10)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="combinations", control = control)
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QE = 275.74, df = 9, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QI = 75.034, df = 81, p-value = 0.6657
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
>
> # Case 2:
> data(provinces_spain)
> # sf::sf_use_s2(FALSE)
> m = 3
> r = 1
>
> provinces_spain$Mal2Fml <- factor(provinces_spain$Mal2Fml > 100)
> levels(provinces_spain$Mal2Fml) = c("men","woman")
> provinces_spain$Coast <- factor(provinces_spain$Coast)
> levels(provinces_spain$Coast) = c("no","yes")
> formula <- ~ Coast + Mal2Fml
> qmap <- Q.map.test(formula = formula, data = provinces_spain, m = m, r = r,
+ type ="combinations")
Error in UseMethod("units") :
no applicable method for 'units' applied to an object of class "NULL"
Calls: Q.map.test -> m.surround -> rbind -> rbind -> units
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 0.1.3.5
Check: examples
Result: ERROR
Running examples in 'spqdep-Ex.R' failed
The error most likely occurred in:
> ### Name: Q.map.test
> ### Title: Compute the QE and QI tests of Equivalence and Independence
> ### between maps
> ### Aliases: Q.map.test
>
> ### ** Examples
>
>
> # Case 1:
> N <- 200
> cx <- runif(N)
> cy <- runif(N)
> x <- cbind(cx,cy)
> listw <- spdep::nb2listw(spdep::knn2nb(
+ spdep::knearneigh(cbind(cx,cy), k = 4)))
> p <- c(1/6, 3/6, 2/6)
> rho = 0.5
> QY1 <- dgp.spq(p = p, listw = listw, rho = rho)
> rho = 0.8
> QY2 <- dgp.spq(p = p, listw = listw, rho = rho)
> dt = data.frame(QY1,QY2)
> m = 3
> r = 1
> formula <- ~ QY1 + QY2
> control <- list(dtmaxknn = 10)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="combinations", control = control)
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QE = 263.62, df = 9, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QI = 70.558, df = 81, p-value = 0.7898
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
> plot(qmap, ci=.6)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
> plot(qmap[[1]]$mh)
> summary(qmap[[1]]$mh)
Characteristics of m-surrounding:
Number of m-surrounding (R): 90
Length of m-surrounding (m): 3
Number no-symbolized observations: 12
List of no-symbolized observations:
8 62 66 69 80 85 117 122 130 146 191 199
List of the degree overlaping:
There are 2 m-surrounding that have intersection with 0 m-surrounding
There are 12 m-surrounding that have intersection with 1 m-surrounding
There are 76 m-surrounding that have intersection with 2 m-surrounding
Mean degree of overlaping: 1.8222
>
> control <- list(dtmaxknn = 20)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="permutations", control = control)
Warning in Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r, :
The ratio between the number of symbolized observations and the number of symbols is lower than 5.
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: permutations
Ratio Symbolized observations/Num symbols = 3.44
data: QY1 and QY2
QE = 280.02, df = 26, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: permutations
Ratio Symbolized observations/Num symbols = 3.44
data: QY1 and QY2
QI = 234.98, df = 676, p-value = 1
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: No shared levels found between `names(values)` of the manual scale and the
data's fill values.
Warning: No shared levels found between `names(values)` of the manual scale and the
data's fill values.
Warning: No shared levels found between `names(values)` of the manual scale and the
data's fill values.
> plot(qmap[[1]]$mh)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="combinations")
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9.9
data: QY1 and QY2
QE = 289.78, df = 9, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9.9
data: QY1 and QY2
QI = 71.538, df = 81, p-value = 0.7647
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
> control <- list(dtmaxknn = 10)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="combinations", control = control)
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QE = 263.62, df = 9, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QI = 70.558, df = 81, p-value = 0.7898
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
>
> # Case 2:
> data(provinces_spain)
> # sf::sf_use_s2(FALSE)
> m = 3
> r = 1
>
> provinces_spain$Mal2Fml <- factor(provinces_spain$Mal2Fml > 100)
> levels(provinces_spain$Mal2Fml) = c("men","woman")
> provinces_spain$Coast <- factor(provinces_spain$Coast)
> levels(provinces_spain$Coast) = c("no","yes")
> formula <- ~ Coast + Mal2Fml
> qmap <- Q.map.test(formula = formula, data = provinces_spain, m = m, r = r,
+ type ="combinations")
Error in UseMethod("units") :
no applicable method for 'units' applied to an object of class "NULL"
Calls: Q.map.test -> m.surround -> rbind -> rbind -> units
Execution halted
Flavor: r-devel-windows-x86_64
Version: 0.1.3.5
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building 'user-guide.Rmd' using rmarkdown
Quitting from user-guide.Rmd:272-279 [unnamed-chunk-11]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `UseMethod()`:
! no applicable method for 'units' applied to an object of class "NULL"
---
Backtrace:
▆
1. └─spqdep::Q.test(formula = f1, data = provinces_spain, m = 3, r = 1)
2. └─spqdep::m.surround(...)
3. └─base::rbind(mdtms, rowds)
4. └─units (local) rbind(deparse.level, ...)
5. └─base::units(dots[[1]])
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'user-guide.Rmd' failed with diagnostics:
no applicable method for 'units' applied to an object of class "NULL"
--- failed re-building 'user-guide.Rmd'
SUMMARY: processing the following file failed:
'user-guide.Rmd'
Error: Vignette re-building failed.
Execution halted
Flavors: r-devel-windows-x86_64, r-release-windows-x86_64, r-oldrel-windows-x86_64
Version: 0.1.3.5
Check: examples
Result: ERROR
Running examples in ‘spqdep-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: Q.map.test
> ### Title: Compute the QE and QI tests of Equivalence and Independence
> ### between maps
> ### Aliases: Q.map.test
>
> ### ** Examples
>
>
> # Case 1:
> N <- 200
> cx <- runif(N)
> cy <- runif(N)
> x <- cbind(cx,cy)
> listw <- spdep::nb2listw(spdep::knn2nb(
+ spdep::knearneigh(cbind(cx,cy), k = 4)))
> p <- c(1/6, 3/6, 2/6)
> rho = 0.5
> QY1 <- dgp.spq(p = p, listw = listw, rho = rho)
> rho = 0.8
> QY2 <- dgp.spq(p = p, listw = listw, rho = rho)
> dt = data.frame(QY1,QY2)
> m = 3
> r = 1
> formula <- ~ QY1 + QY2
> control <- list(dtmaxknn = 10)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="combinations", control = control)
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QE = 266.06, df = 9, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QI = 62.054, df = 81, p-value = 0.9418
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
> plot(qmap, ci=.6)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
> plot(qmap[[1]]$mh)
> summary(qmap[[1]]$mh)
Characteristics of m-surrounding:
Number of m-surrounding (R): 90
Length of m-surrounding (m): 3
Number no-symbolized observations: 12
List of no-symbolized observations:
8 62 66 69 80 85 117 122 130 146 191 199
List of the degree overlaping:
There are 2 m-surrounding that have intersection with 0 m-surrounding
There are 12 m-surrounding that have intersection with 1 m-surrounding
There are 76 m-surrounding that have intersection with 2 m-surrounding
Mean degree of overlaping: 1.8222
>
> control <- list(dtmaxknn = 20)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="permutations", control = control)
Warning in Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r, :
The ratio between the number of symbolized observations and the number of symbols is lower than 5.
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: permutations
Ratio Symbolized observations/Num symbols = 3.44
data: QY1 and QY2
QE = 279.36, df = 26, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: permutations
Ratio Symbolized observations/Num symbols = 3.44
data: QY1 and QY2
QI = 232.97, df = 676, p-value = 1
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
> plot(qmap[[1]]$mh)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="combinations")
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9.9
data: QY1 and QY2
QE = 289.85, df = 9, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9.9
data: QY1 and QY2
QI = 63.718, df = 81, p-value = 0.9215
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
> control <- list(dtmaxknn = 10)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="combinations", control = control)
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QE = 266.06, df = 9, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QI = 62.054, df = 81, p-value = 0.9418
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
>
> # Case 2:
> data(provinces_spain)
> # sf::sf_use_s2(FALSE)
> m = 3
> r = 1
>
> provinces_spain$Mal2Fml <- factor(provinces_spain$Mal2Fml > 100)
> levels(provinces_spain$Mal2Fml) = c("men","woman")
> provinces_spain$Coast <- factor(provinces_spain$Coast)
> levels(provinces_spain$Coast) = c("no","yes")
> formula <- ~ Coast + Mal2Fml
> qmap <- Q.map.test(formula = formula, data = provinces_spain, m = m, r = r,
+ type ="combinations")
Error in UseMethod("units") :
no applicable method for 'units' applied to an object of class "NULL"
Calls: Q.map.test -> m.surround -> rbind -> rbind -> units
Execution halted
Flavor: r-patched-linux-x86_64
Version: 0.1.3.5
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘user-guide.Rmd’ using rmarkdown
** Processing: /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/spqdep.Rcheck/vign_test/spqdep/vignettes/user-guide_files/figure-html/unnamed-chunk-5-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 29921 bytes
Input file size = 30035 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 22097
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 22097
Output IDAT size = 22097 bytes (7824 bytes decrease)
Output file size = 22175 bytes (7860 bytes = 26.17% decrease)
** Processing: /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/spqdep.Rcheck/vign_test/spqdep/vignettes/user-guide_files/figure-html/plot mh-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 29819 bytes
Input file size = 29933 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 27237
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 27237
Output IDAT size = 27237 bytes (2582 bytes decrease)
Output file size = 27315 bytes (2618 bytes = 8.75% decrease)
** Processing: /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/spqdep.Rcheck/vign_test/spqdep/vignettes/user-guide_files/figure-html/plot mh prune-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 28643 bytes
Input file size = 28757 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 25872
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 25872
Output IDAT size = 25872 bytes (2771 bytes decrease)
Output file size = 25950 bytes (2807 bytes = 9.76% decrease)
** Processing: /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/spqdep.Rcheck/vign_test/spqdep/vignettes/user-guide_files/figure-html/unnamed-chunk-10-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 28113 bytes
Input file size = 28227 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 20494
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 20494
Output IDAT size = 20494 bytes (7619 bytes decrease)
Output file size = 20572 bytes (7655 bytes = 27.12% decrease)
** Processing: /home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/spqdep.Rcheck/vign_test/spqdep/vignettes/user-guide_files/figure-html/unnamed-chunk-10-2.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 21609 bytes
Input file size = 21711 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 16203
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 16203
Output IDAT size = 16203 bytes (5406 bytes decrease)
Output file size = 16281 bytes (5430 bytes = 25.01% decrease)
Quitting from user-guide.Rmd:272-279 [unnamed-chunk-11]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `UseMethod()`:
! no applicable method for 'units' applied to an object of class "NULL"
---
Backtrace:
▆
1. └─spqdep::Q.test(formula = f1, data = provinces_spain, m = 3, r = 1)
2. └─spqdep::m.surround(...)
3. └─base::rbind(mdtms, rowds)
4. └─units (local) rbind(deparse.level, ...)
5. └─base::units(dots[[1]])
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'user-guide.Rmd' failed with diagnostics:
no applicable method for 'units' applied to an object of class "NULL"
--- failed re-building ‘user-guide.Rmd’
SUMMARY: processing the following file failed:
‘user-guide.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-patched-linux-x86_64
Version: 0.1.3.5
Check: examples
Result: ERROR
Running examples in ‘spqdep-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: Q.map.test
> ### Title: Compute the QE and QI tests of Equivalence and Independence
> ### between maps
> ### Aliases: Q.map.test
>
> ### ** Examples
>
>
> # Case 1:
> N <- 200
> cx <- runif(N)
> cy <- runif(N)
> x <- cbind(cx,cy)
> listw <- spdep::nb2listw(spdep::knn2nb(
+ spdep::knearneigh(cbind(cx,cy), k = 4)))
> p <- c(1/6, 3/6, 2/6)
> rho = 0.5
> QY1 <- dgp.spq(p = p, listw = listw, rho = rho)
> rho = 0.8
> QY2 <- dgp.spq(p = p, listw = listw, rho = rho)
> dt = data.frame(QY1,QY2)
> m = 3
> r = 1
> formula <- ~ QY1 + QY2
> control <- list(dtmaxknn = 10)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="combinations", control = control)
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QE = 268.03, df = 9, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QI = 84.35, df = 81, p-value = 0.3776
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
> plot(qmap, ci=.6)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
> plot(qmap[[1]]$mh)
> summary(qmap[[1]]$mh)
Characteristics of m-surrounding:
Number of m-surrounding (R): 90
Length of m-surrounding (m): 3
Number no-symbolized observations: 12
List of no-symbolized observations:
8 62 66 69 80 85 117 122 130 146 191 199
List of the degree overlaping:
There are 2 m-surrounding that have intersection with 0 m-surrounding
There are 12 m-surrounding that have intersection with 1 m-surrounding
There are 76 m-surrounding that have intersection with 2 m-surrounding
Mean degree of overlaping: 1.8222
>
> control <- list(dtmaxknn = 20)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="permutations", control = control)
Warning in Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r, :
The ratio between the number of symbolized observations and the number of symbols is lower than 5.
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: permutations
Ratio Symbolized observations/Num symbols = 3.44
data: QY1 and QY2
QE = 291.65, df = 26, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: permutations
Ratio Symbolized observations/Num symbols = 3.44
data: QY1 and QY2
QI = 205.49, df = 676, p-value = 1
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
> plot(qmap[[1]]$mh)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="combinations")
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9.9
data: QY1 and QY2
QE = 298.73, df = 9, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9.9
data: QY1 and QY2
QI = 81.312, df = 81, p-value = 0.4694
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
> control <- list(dtmaxknn = 10)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="combinations", control = control)
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QE = 268.03, df = 9, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QI = 84.35, df = 81, p-value = 0.3776
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
>
> # Case 2:
> data(provinces_spain)
> # sf::sf_use_s2(FALSE)
> m = 3
> r = 1
>
> provinces_spain$Mal2Fml <- factor(provinces_spain$Mal2Fml > 100)
> levels(provinces_spain$Mal2Fml) = c("men","woman")
> provinces_spain$Coast <- factor(provinces_spain$Coast)
> levels(provinces_spain$Coast) = c("no","yes")
> formula <- ~ Coast + Mal2Fml
> qmap <- Q.map.test(formula = formula, data = provinces_spain, m = m, r = r,
+ type ="combinations")
Error in UseMethod("units") :
no applicable method for 'units' applied to an object of class "NULL"
Calls: Q.map.test -> m.surround -> rbind -> rbind -> units
Execution halted
Flavor: r-release-linux-x86_64
Version: 0.1.3.5
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘user-guide.Rmd’ using rmarkdown
** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/spqdep.Rcheck/vign_test/spqdep/vignettes/user-guide_files/figure-html/unnamed-chunk-5-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 29836 bytes
Input file size = 29950 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 21973
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 21973
Output IDAT size = 21973 bytes (7863 bytes decrease)
Output file size = 22051 bytes (7899 bytes = 26.37% decrease)
** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/spqdep.Rcheck/vign_test/spqdep/vignettes/user-guide_files/figure-html/plot mh-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 29819 bytes
Input file size = 29933 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 27237
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 27237
Output IDAT size = 27237 bytes (2582 bytes decrease)
Output file size = 27315 bytes (2618 bytes = 8.75% decrease)
** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/spqdep.Rcheck/vign_test/spqdep/vignettes/user-guide_files/figure-html/plot mh prune-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 28643 bytes
Input file size = 28757 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 25872
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 25872
Output IDAT size = 25872 bytes (2771 bytes decrease)
Output file size = 25950 bytes (2807 bytes = 9.76% decrease)
** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/spqdep.Rcheck/vign_test/spqdep/vignettes/user-guide_files/figure-html/unnamed-chunk-10-1.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 28139 bytes
Input file size = 28253 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 20538
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 20538
Output IDAT size = 20538 bytes (7601 bytes decrease)
Output file size = 20616 bytes (7637 bytes = 27.03% decrease)
** Processing: /home/hornik/tmp/R.check/r-release-gcc/Work/PKGS/spqdep.Rcheck/vign_test/spqdep/vignettes/user-guide_files/figure-html/unnamed-chunk-10-2.png
288x288 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 21691 bytes
Input file size = 21793 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 16170
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 16170
Output IDAT size = 16170 bytes (5521 bytes decrease)
Output file size = 16248 bytes (5545 bytes = 25.44% decrease)
Quitting from user-guide.Rmd:272-279 [unnamed-chunk-11]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `UseMethod()`:
! no applicable method for 'units' applied to an object of class "NULL"
---
Backtrace:
▆
1. └─spqdep::Q.test(formula = f1, data = provinces_spain, m = 3, r = 1)
2. └─spqdep::m.surround(...)
3. └─base::rbind(mdtms, rowds)
4. └─units (local) rbind(deparse.level, ...)
5. └─base::units(dots[[1]])
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'user-guide.Rmd' failed with diagnostics:
no applicable method for 'units' applied to an object of class "NULL"
--- failed re-building ‘user-guide.Rmd’
SUMMARY: processing the following file failed:
‘user-guide.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-release-linux-x86_64
Version: 0.1.3.5
Check: examples
Result: ERROR
Running examples in 'spqdep-Ex.R' failed
The error most likely occurred in:
> ### Name: Q.map.test
> ### Title: Compute the QE and QI tests of Equivalence and Independence
> ### between maps
> ### Aliases: Q.map.test
>
> ### ** Examples
>
>
> # Case 1:
> N <- 200
> cx <- runif(N)
> cy <- runif(N)
> x <- cbind(cx,cy)
> listw <- spdep::nb2listw(spdep::knn2nb(
+ spdep::knearneigh(cbind(cx,cy), k = 4)))
> p <- c(1/6, 3/6, 2/6)
> rho = 0.5
> QY1 <- dgp.spq(p = p, listw = listw, rho = rho)
> rho = 0.8
> QY2 <- dgp.spq(p = p, listw = listw, rho = rho)
> dt = data.frame(QY1,QY2)
> m = 3
> r = 1
> formula <- ~ QY1 + QY2
> control <- list(dtmaxknn = 10)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="combinations", control = control)
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QE = 259.62, df = 9, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QI = 58.677, df = 81, p-value = 0.9709
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: No shared levels found between `names(values)` of the manual scale and the
data's fill values.
Warning: No shared levels found between `names(values)` of the manual scale and the
data's fill values.
Warning: No shared levels found between `names(values)` of the manual scale and the
data's fill values.
> plot(qmap, ci=.6)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
> plot(qmap[[1]]$mh)
> summary(qmap[[1]]$mh)
Characteristics of m-surrounding:
Number of m-surrounding (R): 90
Length of m-surrounding (m): 3
Number no-symbolized observations: 12
List of no-symbolized observations:
8 62 66 69 80 85 117 122 130 146 191 199
List of the degree overlaping:
There are 2 m-surrounding that have intersection with 0 m-surrounding
There are 12 m-surrounding that have intersection with 1 m-surrounding
There are 76 m-surrounding that have intersection with 2 m-surrounding
Mean degree of overlaping: 1.8222
>
> control <- list(dtmaxknn = 20)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="permutations", control = control)
Warning in Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r, :
The ratio between the number of symbolized observations and the number of symbols is lower than 5.
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: permutations
Ratio Symbolized observations/Num symbols = 3.44
data: QY1 and QY2
QE = 287.74, df = 26, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: permutations
Ratio Symbolized observations/Num symbols = 3.44
data: QY1 and QY2
QI = 212.8, df = 676, p-value = 1
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
> plot(qmap[[1]]$mh)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="combinations")
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9.9
data: QY1 and QY2
QE = 285.3, df = 9, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9.9
data: QY1 and QY2
QI = 71.477, df = 81, p-value = 0.7663
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: No shared levels found between `names(values)` of the manual scale and the
data's fill values.
Warning: No shared levels found between `names(values)` of the manual scale and the
data's fill values.
Warning: No shared levels found between `names(values)` of the manual scale and the
data's fill values.
> control <- list(dtmaxknn = 10)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="combinations", control = control)
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QE = 259.62, df = 9, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QI = 58.677, df = 81, p-value = 0.9709
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: No shared levels found between `names(values)` of the manual scale and the
data's fill values.
Warning: No shared levels found between `names(values)` of the manual scale and the
data's fill values.
Warning: No shared levels found between `names(values)` of the manual scale and the
data's fill values.
>
> # Case 2:
> data(provinces_spain)
> # sf::sf_use_s2(FALSE)
> m = 3
> r = 1
>
> provinces_spain$Mal2Fml <- factor(provinces_spain$Mal2Fml > 100)
> levels(provinces_spain$Mal2Fml) = c("men","woman")
> provinces_spain$Coast <- factor(provinces_spain$Coast)
> levels(provinces_spain$Coast) = c("no","yes")
> formula <- ~ Coast + Mal2Fml
> qmap <- Q.map.test(formula = formula, data = provinces_spain, m = m, r = r,
+ type ="combinations")
Error in UseMethod("units") :
no applicable method for 'units' applied to an object of class "NULL"
Calls: Q.map.test -> m.surround -> rbind -> rbind -> units
Execution halted
Flavor: r-release-windows-x86_64
Version: 0.1.3.5
Check: examples
Result: ERROR
Running examples in 'spqdep-Ex.R' failed
The error most likely occurred in:
> ### Name: Q.map.test
> ### Title: Compute the QE and QI tests of Equivalence and Independence
> ### between maps
> ### Aliases: Q.map.test
>
> ### ** Examples
>
>
> # Case 1:
> N <- 200
> cx <- runif(N)
> cy <- runif(N)
> x <- cbind(cx,cy)
> listw <- spdep::nb2listw(spdep::knn2nb(
+ spdep::knearneigh(cbind(cx,cy), k = 4)))
> p <- c(1/6, 3/6, 2/6)
> rho = 0.5
> QY1 <- dgp.spq(p = p, listw = listw, rho = rho)
> rho = 0.8
> QY2 <- dgp.spq(p = p, listw = listw, rho = rho)
> dt = data.frame(QY1,QY2)
> m = 3
> r = 1
> formula <- ~ QY1 + QY2
> control <- list(dtmaxknn = 10)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="combinations", control = control)
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QE = 266.96, df = 9, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QI = 44.951, df = 81, p-value = 0.9996
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
> plot(qmap, ci=.6)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
> plot(qmap[[1]]$mh)
> summary(qmap[[1]]$mh)
Characteristics of m-surrounding:
Number of m-surrounding (R): 90
Length of m-surrounding (m): 3
Number no-symbolized observations: 12
List of no-symbolized observations:
8 62 66 69 80 85 117 122 130 146 191 199
List of the degree overlaping:
There are 2 m-surrounding that have intersection with 0 m-surrounding
There are 12 m-surrounding that have intersection with 1 m-surrounding
There are 76 m-surrounding that have intersection with 2 m-surrounding
Mean degree of overlaping: 1.8222
>
> control <- list(dtmaxknn = 20)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="permutations", control = control)
Warning in Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r, :
The ratio between the number of symbolized observations and the number of symbols is lower than 5.
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: permutations
Ratio Symbolized observations/Num symbols = 3.44
data: QY1 and QY2
QE = 296.22, df = 26, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: permutations
Ratio Symbolized observations/Num symbols = 3.44
data: QY1 and QY2
QI = 227.27, df = 676, p-value = 1
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
> plot(qmap[[1]]$mh)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="combinations")
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9.9
data: QY1 and QY2
QE = 295.93, df = 9, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9.9
data: QY1 and QY2
QI = 51.285, df = 81, p-value = 0.996
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
> control <- list(dtmaxknn = 10)
> qmap <- Q.map.test(formula = formula, data = dt, coor = x, m = m, r = r,
+ type ="combinations", control = control)
> print(qmap)
[[1]]
Q-Map test of Equivalence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QE = 266.96, df = 9, p-value < 2.2e-16
alternative hypothesis: two.sided
[[2]]
Q-Map test of Independence for qualitative data.
Symbols type: combinations
Ratio Symbolized observations/Num symbols = 9
data: QY1 and QY2
QI = 44.951, df = 81, p-value = 0.9996
alternative hypothesis: two.sided
attr(,"class")
[1] "qmap" "list"
> plot(qmap)
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
Warning: Use of `data$symb` is discouraged.
ℹ Use `symb` instead.
>
> # Case 2:
> data(provinces_spain)
> # sf::sf_use_s2(FALSE)
> m = 3
> r = 1
>
> provinces_spain$Mal2Fml <- factor(provinces_spain$Mal2Fml > 100)
> levels(provinces_spain$Mal2Fml) = c("men","woman")
> provinces_spain$Coast <- factor(provinces_spain$Coast)
> levels(provinces_spain$Coast) = c("no","yes")
> formula <- ~ Coast + Mal2Fml
> qmap <- Q.map.test(formula = formula, data = provinces_spain, m = m, r = r,
+ type ="combinations")
Error in UseMethod("units") :
no applicable method for 'units' applied to an object of class "NULL"
Calls: Q.map.test -> m.surround -> rbind -> rbind -> units
Execution halted
Flavor: r-oldrel-windows-x86_64