scale matching in mask(); fix channels() #80
HelenaLCr-universe.yaml
on: pull_request
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Build source pkg and vignettes
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Bioconductor Checks
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Matrix: R-universe testing / linux
Matrix: R-universe testing / macos
Matrix: R-universe testing / wasm
Matrix: R-universe testing / windows
Annotations
7 errors and 3 notices
|
R-universe testing / Build R-oldrel for MacOS:
spatialdataR#L0
Check: examples, Result: ERROR
Running examples in ‘spatialdataR-Ex.R’ failed
The error most likely occurred in:
> ### Name: SpatialDataAttrs
> ### Title: The 'SpatialDataAttrs' class
> ### Aliases: SpatialDataAttrs region region<- regions regions<- instances
> ### instances<- region_key region_key<- feature_key feature_key<-
> ### instance_key instance_key<- $,SpatialDataAttrs-method
> ### feature_key,SpatialDataPoint-method
> ### feature_key,SpatialDataAttrs-method
> ### feature_key<-,SpatialDataAttrs,character-method
> ### region_key,SingleCellExperiment-method
> ### region,SingleCellExperiment-method
> ### regions,SingleCellExperiment-method
> ### regions<-,SingleCellExperiment,character-method
> ### regions<-,SingleCellExperiment,NULL-method instance_key,list-method
> ### instance_key,SingleCellExperiment-method
> ### instance_key,SpatialDataFrame-method
> ### instance_key,SpatialDataLabel-method
> ### instance_key<-,SpatialDataAttrs,character-method
> ### instance_key<-,SingleCellExperiment,character-method
> ### instances,SpatialDataLabel-method instances,SpatialDataPoint-method
> ### instances,SpatialDataShape-method
> ### instances,SingleCellExperiment-method
> ### instances<-,SingleCellExperiment-method
>
> ### ** Examples
>
> x <- file.path("extdata", "blobs.zarr")
> x <- system.file(x, package="spatialdataR")
> x <- readSpatialData(x)
>
> # tables
> region(table(x))
[1] "blobs_labels"
> region_key(table(x))
[1] "region"
>
> # points
> instance_key(point(x))
[1] "instance_id"
> fk <- feature_key(point(x))
> base::table(point(x)[[fk]])
gene_a gene_b
90 110
>
> # transformations
> (z <- meta(label(x)))
class: SpatialDataAttrs
axes(2):
- name: y x
- type: space space
coordTrans(5):
- global: (identity)
- scale: (scale:[3,2])
- translation: (translation:[-50,10])
- affine: (affine:[[20,10,30],[50,40,60]])
- sequence: (scale:[3,2]), (translation:[-50,10])
datasets(1): 0
- 0: (scale:[1,1])
> CTname(z)
[1] "global" "scale" "translation" "affine" "sequence"
> CTtype(z)
[1] "identity" "scale" "translation" "affine" "sequence"
> CTdata(z, "scale")
[[1]]
[1] 3
[[2]]
[1] 2
>
> # constructor
> SpatialDataAttrs(type="frame")
class: SpatialDataAttrs
axes(2):
- name: x y
- type: space space
coordTrans(1):
- global: (identity)
> SpatialDataAttrs(type="array")
class: SpatialDataAttrs
axes(3):
- name: c y x
- type: channel space space
coordTrans(1):
- global: (identity)
datasets(1): 0
- 0: (scale:[1,1])
Error in FUN(X[[i]], ...) : subscript out of bounds
Calls: <Anonymous> ... unlist -> channels -> channels -> .ch -> unlist -> lapply
Execution halted
|
|
R-universe testing / Build R-release for Windows:
spatialdataR#L0
Check: examples, Result: ERROR
Running examples in 'spatialdataR-Ex.R' failed
The error most likely occurred in:
> ### Name: SpatialDataAttrs
> ### Title: The 'SpatialDataAttrs' class
> ### Aliases: SpatialDataAttrs region region<- regions regions<- instances
> ### instances<- region_key region_key<- feature_key feature_key<-
> ### instance_key instance_key<- $,SpatialDataAttrs-method
> ### feature_key,SpatialDataPoint-method
> ### feature_key,SpatialDataAttrs-method
> ### feature_key<-,SpatialDataAttrs,character-method
> ### region_key,SingleCellExperiment-method
> ### region,SingleCellExperiment-method
> ### regions,SingleCellExperiment-method
> ### regions<-,SingleCellExperiment,character-method
> ### regions<-,SingleCellExperiment,NULL-method instance_key,list-method
> ### instance_key,SingleCellExperiment-method
> ### instance_key,SpatialDataFrame-method
> ### instance_key,SpatialDataLabel-method
> ### instance_key<-,SpatialDataAttrs,character-method
> ### instance_key<-,SingleCellExperiment,character-method
> ### instances,SpatialDataLabel-method instances,SpatialDataPoint-method
> ### instances,SpatialDataShape-method
> ### instances,SingleCellExperiment-method
> ### instances<-,SingleCellExperiment-method
>
> ### ** Examples
>
> x <- file.path("extdata", "blobs.zarr")
> x <- system.file(x, package="spatialdataR")
> x <- readSpatialData(x)
>
> # tables
> region(table(x))
[1] "blobs_labels"
> region_key(table(x))
[1] "region"
>
> # points
> instance_key(point(x))
[1] "instance_id"
> fk <- feature_key(point(x))
> base::table(point(x)[[fk]])
gene_a gene_b
90 110
>
> # transformations
> (z <- meta(label(x)))
class: SpatialDataAttrs
axes(2):
- name: y x
- type: space space
coordTrans(5):
- global: (identity)
- scale: (scale:[3,2])
- translation: (translation:[-50,10])
- affine: (affine:[[20,10,30],[50,40,60]])
- sequence: (scale:[3,2]), (translation:[-50,10])
datasets(1): 0
- 0: (scale:[1,1])
> CTname(z)
[1] "global" "scale" "translation" "affine" "sequence"
> CTtype(z)
[1] "identity" "scale" "translation" "affine" "sequence"
> CTdata(z, "scale")
[[1]]
[1] 3
[[2]]
[1] 2
>
> # constructor
> SpatialDataAttrs(type="frame")
class: SpatialDataAttrs
axes(2):
- name: x y
- type: space space
coordTrans(1):
- global: (identity)
> SpatialDataAttrs(type="array")
class: SpatialDataAttrs
axes(3):
- name: c y x
- type: channel space space
coordTrans(1):
- global: (identity)
datasets(1): 0
- 0: (scale:[1,1])
Error in FUN(X[[i]], ...) : subscript out of bounds
Calls: <Anonymous> ... unlist -> channels -> channels -> .ch -> unlist -> lapply
Execution halted
|
|
R-universe testing / Build R-release for MacOS:
spatialdataR#L0
Check: examples, Result: ERROR
Running examples in ‘spatialdataR-Ex.R’ failed
The error most likely occurred in:
> ### Name: SpatialDataAttrs
> ### Title: The 'SpatialDataAttrs' class
> ### Aliases: SpatialDataAttrs region region<- regions regions<- instances
> ### instances<- region_key region_key<- feature_key feature_key<-
> ### instance_key instance_key<- $,SpatialDataAttrs-method
> ### feature_key,SpatialDataPoint-method
> ### feature_key,SpatialDataAttrs-method
> ### feature_key<-,SpatialDataAttrs,character-method
> ### region_key,SingleCellExperiment-method
> ### region,SingleCellExperiment-method
> ### regions,SingleCellExperiment-method
> ### regions<-,SingleCellExperiment,character-method
> ### regions<-,SingleCellExperiment,NULL-method instance_key,list-method
> ### instance_key,SingleCellExperiment-method
> ### instance_key,SpatialDataFrame-method
> ### instance_key,SpatialDataLabel-method
> ### instance_key<-,SpatialDataAttrs,character-method
> ### instance_key<-,SingleCellExperiment,character-method
> ### instances,SpatialDataLabel-method instances,SpatialDataPoint-method
> ### instances,SpatialDataShape-method
> ### instances,SingleCellExperiment-method
> ### instances<-,SingleCellExperiment-method
>
> ### ** Examples
>
> x <- file.path("extdata", "blobs.zarr")
> x <- system.file(x, package="spatialdataR")
> x <- readSpatialData(x)
>
> # tables
> region(table(x))
[1] "blobs_labels"
> region_key(table(x))
[1] "region"
>
> # points
> instance_key(point(x))
[1] "instance_id"
> fk <- feature_key(point(x))
> base::table(point(x)[[fk]])
gene_a gene_b
90 110
>
> # transformations
> (z <- meta(label(x)))
class: SpatialDataAttrs
axes(2):
- name: y x
- type: space space
coordTrans(5):
- global: (identity)
- scale: (scale:[3,2])
- translation: (translation:[-50,10])
- affine: (affine:[[20,10,30],[50,40,60]])
- sequence: (scale:[3,2]), (translation:[-50,10])
datasets(1): 0
- 0: (scale:[1,1])
> CTname(z)
[1] "global" "scale" "translation" "affine" "sequence"
> CTtype(z)
[1] "identity" "scale" "translation" "affine" "sequence"
> CTdata(z, "scale")
[[1]]
[1] 3
[[2]]
[1] 2
>
> # constructor
> SpatialDataAttrs(type="frame")
class: SpatialDataAttrs
axes(2):
- name: x y
- type: space space
coordTrans(1):
- global: (identity)
> SpatialDataAttrs(type="array")
class: SpatialDataAttrs
axes(3):
- name: c y x
- type: channel space space
coordTrans(1):
- global: (identity)
datasets(1): 0
- 0: (scale:[1,1])
Error in FUN(X[[i]], ...) : subscript out of bounds
Calls: <Anonymous> ... unlist -> channels -> channels -> .ch -> unlist -> lapply
Execution halted
|
|
R-universe testing / Build R-oldrel for Windows:
spatialdataR#L0
Check: examples, Result: ERROR
Running examples in 'spatialdataR-Ex.R' failed
The error most likely occurred in:
> ### Name: SpatialDataAttrs
> ### Title: The 'SpatialDataAttrs' class
> ### Aliases: SpatialDataAttrs region region<- regions regions<- instances
> ### instances<- region_key region_key<- feature_key feature_key<-
> ### instance_key instance_key<- $,SpatialDataAttrs-method
> ### feature_key,SpatialDataPoint-method
> ### feature_key,SpatialDataAttrs-method
> ### feature_key<-,SpatialDataAttrs,character-method
> ### region_key,SingleCellExperiment-method
> ### region,SingleCellExperiment-method
> ### regions,SingleCellExperiment-method
> ### regions<-,SingleCellExperiment,character-method
> ### regions<-,SingleCellExperiment,NULL-method instance_key,list-method
> ### instance_key,SingleCellExperiment-method
> ### instance_key,SpatialDataFrame-method
> ### instance_key,SpatialDataLabel-method
> ### instance_key<-,SpatialDataAttrs,character-method
> ### instance_key<-,SingleCellExperiment,character-method
> ### instances,SpatialDataLabel-method instances,SpatialDataPoint-method
> ### instances,SpatialDataShape-method
> ### instances,SingleCellExperiment-method
> ### instances<-,SingleCellExperiment-method
>
> ### ** Examples
>
> x <- file.path("extdata", "blobs.zarr")
> x <- system.file(x, package="spatialdataR")
> x <- readSpatialData(x)
>
> # tables
> region(table(x))
[1] "blobs_labels"
> region_key(table(x))
[1] "region"
>
> # points
> instance_key(point(x))
[1] "instance_id"
> fk <- feature_key(point(x))
> base::table(point(x)[[fk]])
gene_a gene_b
90 110
>
> # transformations
> (z <- meta(label(x)))
class: SpatialDataAttrs
axes(2):
- name: y x
- type: space space
coordTrans(5):
- global: (identity)
- scale: (scale:[3,2])
- translation: (translation:[-50,10])
- affine: (affine:[[20,10,30],[50,40,60]])
- sequence: (scale:[3,2]), (translation:[-50,10])
datasets(1): 0
- 0: (scale:[1,1])
> CTname(z)
[1] "global" "scale" "translation" "affine" "sequence"
> CTtype(z)
[1] "identity" "scale" "translation" "affine" "sequence"
> CTdata(z, "scale")
[[1]]
[1] 3
[[2]]
[1] 2
>
> # constructor
> SpatialDataAttrs(type="frame")
class: SpatialDataAttrs
axes(2):
- name: x y
- type: space space
coordTrans(1):
- global: (identity)
> SpatialDataAttrs(type="array")
class: SpatialDataAttrs
axes(3):
- name: c y x
- type: channel space space
coordTrans(1):
- global: (identity)
datasets(1): 0
- 0: (scale:[1,1])
Error in FUN(X[[i]], ...) : subscript out of bounds
Calls: <Anonymous> ... unlist -> channels -> channels -> .ch -> unlist -> lapply
Execution halted
|
|
R-universe testing / Build R-release for Linux:
spatialdataR#L0
Check: examples, Result: ERROR
Running examples in ‘spatialdataR-Ex.R’ failed
The error most likely occurred in:
> ### Name: SpatialDataAttrs
> ### Title: The 'SpatialDataAttrs' class
> ### Aliases: SpatialDataAttrs region region<- regions regions<- instances
> ### instances<- region_key region_key<- feature_key feature_key<-
> ### instance_key instance_key<- $,SpatialDataAttrs-method
> ### feature_key,SpatialDataPoint-method
> ### feature_key,SpatialDataAttrs-method
> ### feature_key<-,SpatialDataAttrs,character-method
> ### region_key,SingleCellExperiment-method
> ### region,SingleCellExperiment-method
> ### regions,SingleCellExperiment-method
> ### regions<-,SingleCellExperiment,character-method
> ### regions<-,SingleCellExperiment,NULL-method instance_key,list-method
> ### instance_key,SingleCellExperiment-method
> ### instance_key,SpatialDataFrame-method
> ### instance_key,SpatialDataLabel-method
> ### instance_key<-,SpatialDataAttrs,character-method
> ### instance_key<-,SingleCellExperiment,character-method
> ### instances,SpatialDataLabel-method instances,SpatialDataPoint-method
> ### instances,SpatialDataShape-method
> ### instances,SingleCellExperiment-method
> ### instances<-,SingleCellExperiment-method
>
> ### ** Examples
>
> x <- file.path("extdata", "blobs.zarr")
> x <- system.file(x, package="spatialdataR")
> x <- readSpatialData(x)
>
> # tables
> region(table(x))
[1] "blobs_labels"
> region_key(table(x))
[1] "region"
>
> # points
> instance_key(point(x))
[1] "instance_id"
> fk <- feature_key(point(x))
> base::table(point(x)[[fk]])
gene_a gene_b
90 110
>
> # transformations
> (z <- meta(label(x)))
class: SpatialDataAttrs
axes(2):
- name: y x
- type: space space
coordTrans(5):
- global: (identity)
- scale: (scale:[3,2])
- translation: (translation:[-50,10])
- affine: (affine:[[20,10,30],[50,40,60]])
- sequence: (scale:[3,2]), (translation:[-50,10])
datasets(1): 0
- 0: (scale:[1,1])
> CTname(z)
[1] "global" "scale" "translation" "affine" "sequence"
> CTtype(z)
[1] "identity" "scale" "translation" "affine" "sequence"
> CTdata(z, "scale")
[[1]]
[1] 3
[[2]]
[1] 2
>
> # constructor
> SpatialDataAttrs(type="frame")
class: SpatialDataAttrs
axes(2):
- name: x y
- type: space space
coordTrans(1):
- global: (identity)
> SpatialDataAttrs(type="array")
class: SpatialDataAttrs
axes(3):
- name: c y x
- type: channel space space
coordTrans(1):
- global: (identity)
datasets(1): 0
- 0: (scale:[1,1])
Error in FUN(X[[i]], ...) : subscript out of bounds
Calls: <Anonymous> ... unlist -> channels -> channels -> .ch -> unlist -> lapply
Execution halted
|
|
R-universe testing / Build R-devel for Windows:
spatialdataR#L0
Check: examples, Result: ERROR
Running examples in 'spatialdataR-Ex.R' failed
The error most likely occurred in:
> ### Name: SpatialDataAttrs
> ### Title: The 'SpatialDataAttrs' class
> ### Aliases: SpatialDataAttrs region region<- regions regions<- instances
> ### instances<- region_key region_key<- feature_key feature_key<-
> ### instance_key instance_key<- $,SpatialDataAttrs-method
> ### feature_key,SpatialDataPoint-method
> ### feature_key,SpatialDataAttrs-method
> ### feature_key<-,SpatialDataAttrs,character-method
> ### region_key,SingleCellExperiment-method
> ### region,SingleCellExperiment-method
> ### regions,SingleCellExperiment-method
> ### regions<-,SingleCellExperiment,character-method
> ### regions<-,SingleCellExperiment,NULL-method instance_key,list-method
> ### instance_key,SingleCellExperiment-method
> ### instance_key,SpatialDataFrame-method
> ### instance_key,SpatialDataLabel-method
> ### instance_key<-,SpatialDataAttrs,character-method
> ### instance_key<-,SingleCellExperiment,character-method
> ### instances,SpatialDataLabel-method instances,SpatialDataPoint-method
> ### instances,SpatialDataShape-method
> ### instances,SingleCellExperiment-method
> ### instances<-,SingleCellExperiment-method
>
> ### ** Examples
>
> x <- file.path("extdata", "blobs.zarr")
> x <- system.file(x, package="spatialdataR")
> x <- readSpatialData(x)
>
> # tables
> region(table(x))
[1] "blobs_labels"
> region_key(table(x))
[1] "region"
>
> # points
> instance_key(point(x))
[1] "instance_id"
> fk <- feature_key(point(x))
> base::table(point(x)[[fk]])
gene_a gene_b
90 110
>
> # transformations
> (z <- meta(label(x)))
class: SpatialDataAttrs
axes(2):
- name: y x
- type: space space
coordTrans(5):
- global: (identity)
- scale: (scale:[3,2])
- translation: (translation:[-50,10])
- affine: (affine:[[20,10,30],[50,40,60]])
- sequence: (scale:[3,2]), (translation:[-50,10])
datasets(1): 0
- 0: (scale:[1,1])
> CTname(z)
[1] "global" "scale" "translation" "affine" "sequence"
> CTtype(z)
[1] "identity" "scale" "translation" "affine" "sequence"
> CTdata(z, "scale")
[[1]]
[1] 3
[[2]]
[1] 2
>
> # constructor
> SpatialDataAttrs(type="frame")
class: SpatialDataAttrs
axes(2):
- name: x y
- type: space space
coordTrans(1):
- global: (identity)
> SpatialDataAttrs(type="array")
class: SpatialDataAttrs
axes(3):
- name: c y x
- type: channel space space
coordTrans(1):
- global: (identity)
datasets(1): 0
- 0: (scale:[1,1])
Error in FUN(X[[i]], ...) : subscript out of bounds
Calls: <Anonymous> ... unlist -> channels -> channels -> .ch -> unlist -> lapply
Execution halted
|
|
R-universe testing / Build R-devel for Linux:
spatialdataR#L0
Check: examples, Result: ERROR
Running examples in ‘spatialdataR-Ex.R’ failed
The error most likely occurred in:
> ### Name: SpatialDataAttrs
> ### Title: The 'SpatialDataAttrs' class
> ### Aliases: SpatialDataAttrs region region<- regions regions<- instances
> ### instances<- region_key region_key<- feature_key feature_key<-
> ### instance_key instance_key<- $,SpatialDataAttrs-method
> ### feature_key,SpatialDataPoint-method
> ### feature_key,SpatialDataAttrs-method
> ### feature_key<-,SpatialDataAttrs,character-method
> ### region_key,SingleCellExperiment-method
> ### region,SingleCellExperiment-method
> ### regions,SingleCellExperiment-method
> ### regions<-,SingleCellExperiment,character-method
> ### regions<-,SingleCellExperiment,NULL-method instance_key,list-method
> ### instance_key,SingleCellExperiment-method
> ### instance_key,SpatialDataFrame-method
> ### instance_key,SpatialDataLabel-method
> ### instance_key<-,SpatialDataAttrs,character-method
> ### instance_key<-,SingleCellExperiment,character-method
> ### instances,SpatialDataLabel-method instances,SpatialDataPoint-method
> ### instances,SpatialDataShape-method
> ### instances,SingleCellExperiment-method
> ### instances<-,SingleCellExperiment-method
>
> ### ** Examples
>
> x <- file.path("extdata", "blobs.zarr")
> x <- system.file(x, package="spatialdataR")
> x <- readSpatialData(x)
>
> # tables
> region(table(x))
[1] "blobs_labels"
> region_key(table(x))
[1] "region"
>
> # points
> instance_key(point(x))
[1] "instance_id"
> fk <- feature_key(point(x))
> base::table(point(x)[[fk]])
gene_a gene_b
90 110
>
> # transformations
> (z <- meta(label(x)))
class: SpatialDataAttrs
axes(2):
- name: y x
- type: space space
coordTrans(5):
- global: (identity)
- scale: (scale:[3,2])
- translation: (translation:[-50,10])
- affine: (affine:[[20,10,30],[50,40,60]])
- sequence: (scale:[3,2]), (translation:[-50,10])
datasets(1): 0
- 0: (scale:[1,1])
> CTname(z)
[1] "global" "scale" "translation" "affine" "sequence"
> CTtype(z)
[1] "identity" "scale" "translation" "affine" "sequence"
> CTdata(z, "scale")
[[1]]
[1] 3
[[2]]
[1] 2
>
> # constructor
> SpatialDataAttrs(type="frame")
class: SpatialDataAttrs
axes(2):
- name: x y
- type: space space
coordTrans(1):
- global: (identity)
> SpatialDataAttrs(type="array")
class: SpatialDataAttrs
axes(3):
- name: c y x
- type: channel space space
coordTrans(1):
- global: (identity)
datasets(1): 0
- 0: (scale:[1,1])
Error in FUN(X[[i]], ...) : subscript out of bounds
Calls: <Anonymous> ... unlist -> channels -> channels -> .ch -> unlist -> lapply
Execution halted
|
|
R-universe testing / Build R-release for Windows
NOTICE: windows-2025 requests are being redirected to windows-2025-vs2026 by June 15, 2026
|
|
R-universe testing / Build R-oldrel for Windows
NOTICE: windows-2025 requests are being redirected to windows-2025-vs2026 by June 15, 2026
|
|
R-universe testing / Build R-devel for Windows
NOTICE: windows-2025 requests are being redirected to windows-2025-vs2026 by June 15, 2026
|
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1.67 MB |
sha256:7888588430399a30b213f3adcdb81c6cc52f5a315108c850bd48ec9e6fbd5060
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package-windows-devel
|
1.83 MB |
sha256:ff59c7ff32afdbbcc1ad686ad4f271fd23574cfd777c355dc57791ac48b90071
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package-windows-oldrel
|
1.83 MB |
sha256:9838afc4aa6a96f00a2c9a874d2ac5e6b53c01f6d4a9ea575ccdca724a11f766
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package-windows-release
|
1.83 MB |
sha256:ae08da55468d72dc6bbdda05c21a7d880a5e8838bfd4466a6b9fff9f15cbcf44
|
|