Last updated on 2022-04-24 03:52:39 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.4.3 | 191.35 | 274.43 | 465.78 | ERROR | |
| r-devel-linux-x86_64-debian-gcc | 0.4.3 | 161.15 | 194.54 | 355.69 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 0.4.3 | 753.63 | NOTE | |||
| r-devel-linux-x86_64-fedora-gcc | 0.4.3 | 699.66 | OK | |||
| r-patched-linux-x86_64 | 0.4.3 | 169.83 | 243.62 | 413.45 | ERROR | |
| r-release-linux-x86_64 | 0.4.2 | 164.60 | 299.92 | 464.52 | ERROR | |
| r-release-macos-arm64 | 0.4.2 | ERROR | ||||
| r-release-macos-x86_64 | 0.4.2 | NOTE | ||||
| r-release-windows-x86_64 | 0.4.2 | 123.00 | 331.00 | 454.00 | NOTE | |
| r-oldrel-macos-arm64 | 0.4.2 | ERROR | ||||
| r-oldrel-macos-x86_64 | 0.4.2 | NOTE | ||||
| r-oldrel-windows-ix86+x86_64 | 0.4.3.1 | 293.00 | 729.00 | 1022.00 | NOTE |
Version: 0.4.3
Check: examples
Result: ERROR
Running examples in 'spNetwork-Ex.R' failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: aggregate_points
> ### Title: Events aggregation
> ### Aliases: aggregate_points
>
> ### ** Examples
>
> eventsgpkg <- system.file("extdata", "events.gpkg", package = "spNetwork", mustWork = TRUE)
> bike_accidents <- sf::st_read(eventsgpkg,layer="bike_accidents")
Warning in CPL_read_ogr(dsn, layer, query, as.character(options), quiet, :
GDAL Error 1: unable to open database file: this file is a WAL-enabled database. It cannot be opened because it is presumably read-only or in a read-only directory.
Error: Cannot open "/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/spNetwork/extdata/events.gpkg"; The source could be corrupt or not supported. See `st_drivers()` for a list of supported formats.
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 0.4.3
Check: tests
Result: ERROR
Running 'testthat.R' [80s/121s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> library(testthat)
> test_check("spNetwork")
Loading required package: spNetwork
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "start calculating the kernel values for the adaptive bandwidth..."
[1] " quadra 1/1"
[1] " build graph ..."
[1] " calculating NKDE values ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
*************************[1] "Splitting the data with the spatial grid ..."
[1] "start calculating the kernel values ..."
[1] " quadra 1/1"
[1] " build graph ..."
[1] " calculating NKDE values ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
*************************[1] "combining the results ..."
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "calculating the local bandwidth ..."
[1] "start calculating the kernel values for the adaptive bandwidth..."
[1] "starting the kernel calculations ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
*************************[1] "starting the kernel calculations ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
*************************[1] "combining the results ..."
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "start calculating the kernel values for the adaptive bandwidth..."
[1] "start calculating the kernel values ..."
[1] " quadra 1/1"
[1] " build graph ..."
[1] " calculating NKDE values ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
*************************[1] "combining the results ..."
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "start calculating the kernel values for the adaptive bandwidth..."
[1] "starting the kernel calculations ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
*************************[1] " build graph ..."
[1] " calculating NKDE values ..."
[1] "combining the results ..."
[1] "generating the starting points"
[1] "snapping the points to the lines (only once)"
[1] "starting the network part"
[1] "working on quadra : 1/1"
[1] "adding the points as vertices to nearest lines"
[1] "splitting the lines for the network"
[1] "generating the network"
[1] "calculating the distances on the network"
[1] "building the final listw object"
[1] "finally generating the listw object ..."
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "Calculating the correction factor if required"
[1] "Splittig the dataset within the grid ..."
[1] "start calculating the CV values ..."
|
| | 0%
|
|======================================================================| 100%[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "Calculating the correction factor if required"
[1] "start calculating the CV values ..."
|
| | 0%Reading layer `mtl_network' from data source
`/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/spNetwork/extdata/networks.gpkg'
using driver `GPKG'
Simple feature collection with 2945 features and 1 field
Geometry type: LINESTRING
Dimension: XY
Bounding box: xmin: 295675.9 ymin: 5039320 xmax: 301783.9 ymax: 5044799
Projected CRS: NAD83 / MTM zone 8
Reading layer `mtl_network' from data source
`/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/spNetwork/extdata/networks.gpkg'
using driver `GPKG'
Simple feature collection with 2945 features and 1 field
Geometry type: LINESTRING
Dimension: XY
Bounding box: xmin: 295675.9 ymin: 5039320 xmax: 301783.9 ymax: 5044799
Projected CRS: NAD83 / MTM zone 8
[1] "prior data preparation ..."
[1] "Calculating the correction factor if required"
[1] "start calculating the CV values ..."
|
| | 0%
|
|======================================================================| 100%[1] "prior data preparation ..."
[1] "Calculating the correction factor if required"
[1] "start calculating the CV values ..."
|
| | 0%
|
|======================================================================| 100%[1] "prior data preparation ..."
[1] "Calculating the correction factor if required"
[1] "start calculating the CV values ..."
|
| | 0%
|
|======================================================================| 100%[1] "prior data preparation ..."
[1] "Calculating the correction factor if required"
[1] "splitting the data by the grid..."
[1] "start calculating the CV values ..."
|
| | 0%
|
|============== | 20%
|
|============================ | 40%
|
|========================================== | 60%
|
|======================================================== | 80%
|
|======================================================================| 100%
|
| | 0%
|
|================== | 25%
|
|=================================== | 50%
|
|==================================================== | 75%
|
|======================================================================| 100%[1] "Preparing data ..."
[1] "Snapping points on lines ..."
[1] "Building graph ..."
[1] "Calculating k and g functions ..."
[1] "Calculating the simulations ..."
|
| | 0%
|
|============== | 20%
|
|============================ | 40%
|
|========================================== | 60%
|
|======================================================== | 80%
|
|======================================================================| 100%[1] "Preparing data ..."
[1] "Snapping points on lines ..."
[1] "Building graph ..."
[1] "Calculating k and g functions ..."
[1] "Calculating the simulations ..."
|
| | 0%
|
|============== | 20%
|
|============================ | 40%
|
|========================================== | 60%
|
|======================================================== | 80%
|
|======================================================================| 100%[1] "Preparing data ..."
[1] "Snapping points on lines ..."
[1] "Building graph ..."
[1] "Calculating k and g functions ..."
[1] "Calculating the simulations ..."
[1] "Preparing data ..."
[1] "Snapping points on lines ..."
[1] "Building graph ..."
[1] "Calculating k and g functions ..."
[1] "Calculating the simulations ..."
[1] "Preparing data ..."
[1] "Snapping points on lines ..."
[1] "Building graph ..."
[,1] [,2] [,3] [,4]
[1,] 0 6 4 2
[2,] 6 0 2 4
[3,] 4 2 0 2
[4,] 2 4 2 0
[1] "Calculating k and g functions ..."
[1] "Calculating the simulations ..."
|
| | 0%[1] "Preparing data ..."
[1] "Snapping points on lines ..."
[1] "Building graph ..."
[1] "Calculating k and g functions ..."
[1] "Calculating the simulations ..."
|
| | 0%
|
|============== | 20%
|
|============================ | 40%
|
|========================================== | 60%
|
|======================================================== | 80%
|
|======================================================================| 100%[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "Splitting the data with the spatial grid ..."
[1] "start calculating the kernel values ..."
[1] " quadra 1/1"
[1] " build graph ..."
[1] " calculating NKDE values ..."
|
| | 0%
|
|======================================================================| 100%[1] "combining the results ..."
Reading layer `small_mtl_network' from data source
`/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/spNetwork/extdata/networks.gpkg'
using driver `GPKG'
Simple feature collection with 1244 features and 2 fields
Geometry type: LINESTRING
Dimension: XY
Bounding box: xmin: 296766.1 ymin: 5040804 xmax: 300116.9 ymax: 5044066
Projected CRS: NAD83 / MTM zone 8
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "start calculating the kernel values ..."
[1] " quadra 1/1"
[1] " build graph ..."
[1] " calculating NKDE values ..."
|
| | 0%
|
|======================================================================| 100%[1] "combining the results ..."
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "start calculating the kernel values ..."
[1] " quadra 1/1"
[1] " build graph ..."
[1] " calculating NKDE values ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
[1] "combining the results ..."
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "start calculating the kernel values ..."
[1] " quadra 1/1"
[1] " build graph ..."
[1] " calculating NKDE values ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
[1] "combining the results ..."
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "start calculating the kernel values ..."
[1] " quadra 1/1"
[1] " build graph ..."
[1] " calculating NKDE values ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
[1] "combining the results ..."
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "starting the kernel calculations ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
[1] " build graph ..."
[1] " calculating NKDE values ..."
[1] "combining the results ..."
[ FAIL 2 | WARN 9 | SKIP 0 | PASS 69 ]
== Failed tests ================================================================
-- Error (test_bw_selection_sf.R:491:3): Testing that bw selection by cv-likelihood gives the same score in single and multicore --
<Rcpp::exception/C++Error/error/condition>
Error: Cannot open "/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/spNetwork/extdata/events.gpkg"; The source could be corrupt or not supported. See `st_drivers()` for a list of supported formats.
Backtrace:
x
1. +-sf::st_read(eventsgpkg, layer = "bike_accidents") at test_bw_selection_sf.R:491:2
2. \-sf:::st_read.character(eventsgpkg, layer = "bike_accidents")
3. \-sf:::CPL_read_ogr(...)
-- Error (test_bw_selection_sf.R:557:3): Testing that bw selection with Van Lieshout's Criterion gives the same score in single and multicore --
<Rcpp::exception/C++Error/error/condition>
Error: Cannot open "/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/spNetwork/extdata/events.gpkg"; The source could be corrupt or not supported. See `st_drivers()` for a list of supported formats.
Backtrace:
x
1. +-sf::st_read(eventsgpkg, layer = "bike_accidents") at test_bw_selection_sf.R:557:2
2. \-sf:::st_read.character(eventsgpkg, layer = "bike_accidents")
3. \-sf:::CPL_read_ogr(...)
[ FAIL 2 | WARN 9 | SKIP 0 | PASS 69 ]
Error: Test failures
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 0.4.3
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building 'Isochrones.Rmd' using rmarkdown
Linking to GEOS 3.10.2, GDAL 3.4.2, PROJ 9.0.0; sf_use_s2() is TRUE
Attaching package: 'smoothr'
The following object is masked from 'package:stats':
smooth
--- finished re-building 'Isochrones.Rmd'
--- re-building 'KNetworkFunctions.Rmd' using rmarkdown
Warning in CPL_read_ogr(dsn, layer, query, as.character(options), quiet, :
GDAL Error 1: unable to open database file: this file is a WAL-enabled database. It cannot be opened because it is presumably read-only or in a read-only directory.
Quitting from lines 58-76 (KNetworkFunctions.Rmd)
Error: processing vignette 'KNetworkFunctions.Rmd' failed with diagnostics:
Cannot open "/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/spNetwork/extdata/events.gpkg"; The source could be corrupt or not supported. See `st_drivers()` for a list of supported formats.
--- failed re-building 'KNetworkFunctions.Rmd'
--- re-building 'NKDE.Rmd' using rmarkdown
Warning in CPL_read_ogr(dsn, layer, query, as.character(options), quiet, :
GDAL Error 1: unable to open database file: this file is a WAL-enabled database. It cannot be opened because it is presumably read-only or in a read-only directory.
Quitting from lines 314-336 (NKDE.Rmd)
Error: processing vignette 'NKDE.Rmd' failed with diagnostics:
Cannot open "/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/spNetwork/extdata/events.gpkg"; The source could be corrupt or not supported. See `st_drivers()` for a list of supported formats.
--- failed re-building 'NKDE.Rmd'
--- re-building 'NetworkBuilding.Rmd' using rmarkdown
Warning in CPL_read_ogr(dsn, layer, query, as.character(options), quiet, :
GDAL Error 1: unable to open database file: this file is a WAL-enabled database. It cannot be opened because it is presumably read-only or in a read-only directory.
Quitting from lines 37-56 (NetworkBuilding.Rmd)
Error: processing vignette 'NetworkBuilding.Rmd' failed with diagnostics:
Cannot open "/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/spNetwork/extdata/events.gpkg"; The source could be corrupt or not supported. See `st_drivers()` for a list of supported formats.
--- failed re-building 'NetworkBuilding.Rmd'
--- re-building 'SpatialWeightMatrices.Rmd' using rmarkdown
--- finished re-building 'SpatialWeightMatrices.Rmd'
--- re-building 'TNKDE.Rmd' using rmarkdown
Warning in CPL_read_ogr(dsn, layer, query, as.character(options), quiet, :
GDAL Error 1: unable to open database file: this file is a WAL-enabled database. It cannot be opened because it is presumably read-only or in a read-only directory.
Quitting from lines 63-88 (TNKDE.Rmd)
Error: processing vignette 'TNKDE.Rmd' failed with diagnostics:
Cannot open "/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/spNetwork/extdata/events.gpkg"; The source could be corrupt or not supported. See `st_drivers()` for a list of supported formats.
--- failed re-building 'TNKDE.Rmd'
SUMMARY: processing the following files failed:
'KNetworkFunctions.Rmd' 'NKDE.Rmd' 'NetworkBuilding.Rmd' 'TNKDE.Rmd'
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 0.4.3
Check: examples
Result: ERROR
Running examples in ‘spNetwork-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: aggregate_points
> ### Title: Events aggregation
> ### Aliases: aggregate_points
>
> ### ** Examples
>
> eventsgpkg <- system.file("extdata", "events.gpkg", package = "spNetwork", mustWork = TRUE)
> bike_accidents <- sf::st_read(eventsgpkg,layer="bike_accidents")
Warning in CPL_read_ogr(dsn, layer, query, as.character(options), quiet, :
GDAL Error 1: unable to open database file: this file is a WAL-enabled database. It cannot be opened because it is presumably read-only or in a read-only directory.
Error: Cannot open "/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/spNetwork/extdata/events.gpkg"; The source could be corrupt or not supported. See `st_drivers()` for a list of supported formats.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 0.4.3
Check: tests
Result: ERROR
Running ‘testthat.R’ [54s/119s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> test_check("spNetwork")
Loading required package: spNetwork
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "start calculating the kernel values for the adaptive bandwidth..."
[1] " quadra 1/1"
[1] " build graph ..."
[1] " calculating NKDE values ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
*************************[1] "Splitting the data with the spatial grid ..."
[1] "start calculating the kernel values ..."
[1] " quadra 1/1"
[1] " build graph ..."
[1] " calculating NKDE values ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
*************************[1] "combining the results ..."
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "calculating the local bandwidth ..."
[1] "start calculating the kernel values for the adaptive bandwidth..."
[1] "starting the kernel calculations ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
*************************[1] "starting the kernel calculations ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
*************************[1] "combining the results ..."
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "start calculating the kernel values for the adaptive bandwidth..."
[1] "start calculating the kernel values ..."
[1] " quadra 1/1"
[1] " build graph ..."
[1] " calculating NKDE values ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
*************************[1] "combining the results ..."
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "start calculating the kernel values for the adaptive bandwidth..."
[1] "starting the kernel calculations ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
*************************[1] " build graph ..."
[1] " calculating NKDE values ..."
[1] "combining the results ..."
[1] "generating the starting points"
[1] "snapping the points to the lines (only once)"
[1] "starting the network part"
[1] "working on quadra : 1/1"
[1] "adding the points as vertices to nearest lines"
[1] "splitting the lines for the network"
[1] "generating the network"
[1] "calculating the distances on the network"
[1] "building the final listw object"
[1] "finally generating the listw object ..."
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "Calculating the correction factor if required"
[1] "Splittig the dataset within the grid ..."
[1] "start calculating the CV values ..."
|
| | 0%
|
|======================================================================| 100%[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "Calculating the correction factor if required"
[1] "start calculating the CV values ..."
|
| | 0%Reading layer `mtl_network' from data source
`/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/spNetwork/extdata/networks.gpkg'
using driver `GPKG'
Simple feature collection with 2945 features and 1 field
Geometry type: LINESTRING
Dimension: XY
Bounding box: xmin: 295675.9 ymin: 5039320 xmax: 301783.9 ymax: 5044799
Projected CRS: NAD83 / MTM zone 8
Reading layer `mtl_network' from data source
`/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/spNetwork/extdata/networks.gpkg'
using driver `GPKG'
Simple feature collection with 2945 features and 1 field
Geometry type: LINESTRING
Dimension: XY
Bounding box: xmin: 295675.9 ymin: 5039320 xmax: 301783.9 ymax: 5044799
Projected CRS: NAD83 / MTM zone 8
[1] "prior data preparation ..."
[1] "Calculating the correction factor if required"
[1] "start calculating the CV values ..."
|
| | 0%
|
|======================================================================| 100%[1] "prior data preparation ..."
[1] "Calculating the correction factor if required"
[1] "start calculating the CV values ..."
|
| | 0%
|
|======================================================================| 100%[1] "prior data preparation ..."
[1] "Calculating the correction factor if required"
[1] "start calculating the CV values ..."
|
| | 0%
|
|======================================================================| 100%[1] "prior data preparation ..."
[1] "Calculating the correction factor if required"
[1] "splitting the data by the grid..."
[1] "start calculating the CV values ..."
|
| | 0%
|
|============== | 20%
|
|============================ | 40%
|
|========================================== | 60%
|
|======================================================== | 80%
|
|======================================================================| 100%
|
| | 0%
|
|================== | 25%
|
|=================================== | 50%
|
|==================================================== | 75%
|
|======================================================================| 100%[1] "Preparing data ..."
[1] "Snapping points on lines ..."
[1] "Building graph ..."
[1] "Calculating k and g functions ..."
[1] "Calculating the simulations ..."
|
| | 0%
|
|============== | 20%
|
|============================ | 40%
|
|========================================== | 60%
|
|======================================================== | 80%
|
|======================================================================| 100%[1] "Preparing data ..."
[1] "Snapping points on lines ..."
[1] "Building graph ..."
[1] "Calculating k and g functions ..."
[1] "Calculating the simulations ..."
|
| | 0%
|
|============== | 20%
|
|============================ | 40%
|
|========================================== | 60%
|
|======================================================== | 80%
|
|======================================================================| 100%[1] "Preparing data ..."
[1] "Snapping points on lines ..."
[1] "Building graph ..."
[1] "Calculating k and g functions ..."
[1] "Calculating the simulations ..."
[1] "Preparing data ..."
[1] "Snapping points on lines ..."
[1] "Building graph ..."
[1] "Calculating k and g functions ..."
[1] "Calculating the simulations ..."
[1] "Preparing data ..."
[1] "Snapping points on lines ..."
[1] "Building graph ..."
[,1] [,2] [,3] [,4]
[1,] 0 6 4 2
[2,] 6 0 2 4
[3,] 4 2 0 2
[4,] 2 4 2 0
[1] "Calculating k and g functions ..."
[1] "Calculating the simulations ..."
|
| | 0%[1] "Preparing data ..."
[1] "Snapping points on lines ..."
[1] "Building graph ..."
[1] "Calculating k and g functions ..."
[1] "Calculating the simulations ..."
|
| | 0%
|
|============== | 20%
|
|============================ | 40%
|
|========================================== | 60%
|
|======================================================== | 80%
|
|======================================================================| 100%[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "Splitting the data with the spatial grid ..."
[1] "start calculating the kernel values ..."
[1] " quadra 1/1"
[1] " build graph ..."
[1] " calculating NKDE values ..."
|
| | 0%
|
|======================================================================| 100%[1] "combining the results ..."
Reading layer `small_mtl_network' from data source
`/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/spNetwork/extdata/networks.gpkg'
using driver `GPKG'
Simple feature collection with 1244 features and 2 fields
Geometry type: LINESTRING
Dimension: XY
Bounding box: xmin: 296766.1 ymin: 5040804 xmax: 300116.9 ymax: 5044066
Projected CRS: NAD83 / MTM zone 8
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "start calculating the kernel values ..."
[1] " quadra 1/1"
[1] " build graph ..."
[1] " calculating NKDE values ..."
|
| | 0%
|
|======================================================================| 100%[1] "combining the results ..."
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "start calculating the kernel values ..."
[1] " quadra 1/1"
[1] " build graph ..."
[1] " calculating NKDE values ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
[1] "combining the results ..."
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "start calculating the kernel values ..."
[1] " quadra 1/1"
[1] " build graph ..."
[1] " calculating NKDE values ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
[1] "combining the results ..."
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "start calculating the kernel values ..."
[1] " quadra 1/1"
[1] " build graph ..."
[1] " calculating NKDE values ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
[1] "combining the results ..."
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "starting the kernel calculations ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
[1] " build graph ..."
[1] " calculating NKDE values ..."
[1] "combining the results ..."
[ FAIL 2 | WARN 9 | SKIP 0 | PASS 69 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Error (test_bw_selection_sf.R:491:3): Testing that bw selection by cv-likelihood gives the same score in single and multicore ──
<Rcpp::exception/C++Error/error/condition>
Error: Cannot open "/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/spNetwork/extdata/events.gpkg"; The source could be corrupt or not supported. See `st_drivers()` for a list of supported formats.
Backtrace:
▆
1. ├─sf::st_read(eventsgpkg, layer = "bike_accidents") at test_bw_selection_sf.R:491:2
2. └─sf:::st_read.character(eventsgpkg, layer = "bike_accidents")
3. └─sf:::CPL_read_ogr(...)
── Error (test_bw_selection_sf.R:557:3): Testing that bw selection with Van Lieshout's Criterion gives the same score in single and multicore ──
<Rcpp::exception/C++Error/error/condition>
Error: Cannot open "/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/spNetwork/extdata/events.gpkg"; The source could be corrupt or not supported. See `st_drivers()` for a list of supported formats.
Backtrace:
▆
1. ├─sf::st_read(eventsgpkg, layer = "bike_accidents") at test_bw_selection_sf.R:557:2
2. └─sf:::st_read.character(eventsgpkg, layer = "bike_accidents")
3. └─sf:::CPL_read_ogr(...)
[ FAIL 2 | WARN 9 | SKIP 0 | PASS 69 ]
Error: Test failures
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 0.4.3
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘Isochrones.Rmd’ using rmarkdown
Linking to GEOS 3.10.2, GDAL 3.4.2, PROJ 9.0.0; sf_use_s2() is TRUE
Attaching package: 'smoothr'
The following object is masked from 'package:stats':
smooth
--- finished re-building ‘Isochrones.Rmd’
--- re-building ‘KNetworkFunctions.Rmd’ using rmarkdown
Warning in CPL_read_ogr(dsn, layer, query, as.character(options), quiet, :
GDAL Error 1: unable to open database file: this file is a WAL-enabled database. It cannot be opened because it is presumably read-only or in a read-only directory.
Quitting from lines 58-76 (KNetworkFunctions.Rmd)
Error: processing vignette ‘KNetworkFunctions.Rmd’ failed with diagnostics:
Cannot open "/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/spNetwork/extdata/events.gpkg"; The source could be corrupt or not supported. See `st_drivers()` for a list of supported formats.
--- failed re-building ‘KNetworkFunctions.Rmd’
--- re-building ‘NKDE.Rmd’ using rmarkdown
Warning in CPL_read_ogr(dsn, layer, query, as.character(options), quiet, :
GDAL Error 1: unable to open database file: this file is a WAL-enabled database. It cannot be opened because it is presumably read-only or in a read-only directory.
Quitting from lines 314-336 (NKDE.Rmd)
Error: processing vignette ‘NKDE.Rmd’ failed with diagnostics:
Cannot open "/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/spNetwork/extdata/events.gpkg"; The source could be corrupt or not supported. See `st_drivers()` for a list of supported formats.
--- failed re-building ‘NKDE.Rmd’
--- re-building ‘NetworkBuilding.Rmd’ using rmarkdown
Warning in CPL_read_ogr(dsn, layer, query, as.character(options), quiet, :
GDAL Error 1: unable to open database file: this file is a WAL-enabled database. It cannot be opened because it is presumably read-only or in a read-only directory.
Quitting from lines 37-56 (NetworkBuilding.Rmd)
Error: processing vignette ‘NetworkBuilding.Rmd’ failed with diagnostics:
Cannot open "/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/spNetwork/extdata/events.gpkg"; The source could be corrupt or not supported. See `st_drivers()` for a list of supported formats.
--- failed re-building ‘NetworkBuilding.Rmd’
--- re-building ‘SpatialWeightMatrices.Rmd’ using rmarkdown
--- finished re-building ‘SpatialWeightMatrices.Rmd’
--- re-building ‘TNKDE.Rmd’ using rmarkdown
Warning in CPL_read_ogr(dsn, layer, query, as.character(options), quiet, :
GDAL Error 1: unable to open database file: this file is a WAL-enabled database. It cannot be opened because it is presumably read-only or in a read-only directory.
Quitting from lines 63-88 (TNKDE.Rmd)
Error: processing vignette ‘TNKDE.Rmd’ failed with diagnostics:
Cannot open "/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/spNetwork/extdata/events.gpkg"; The source could be corrupt or not supported. See `st_drivers()` for a list of supported formats.
--- failed re-building ‘TNKDE.Rmd’
SUMMARY: processing the following files failed:
‘KNetworkFunctions.Rmd’ ‘NKDE.Rmd’ ‘NetworkBuilding.Rmd’ ‘TNKDE.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 0.4.3
Check: installed package size
Result: NOTE
installed size is 15.4Mb
sub-directories of 1Mb or more:
doc 1.1Mb
extdata 5.6Mb
libs 7.8Mb
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 0.4.3
Check: examples
Result: ERROR
Running examples in ‘spNetwork-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: aggregate_points
> ### Title: Events aggregation
> ### Aliases: aggregate_points
>
> ### ** Examples
>
> eventsgpkg <- system.file("extdata", "events.gpkg", package = "spNetwork", mustWork = TRUE)
> bike_accidents <- sf::st_read(eventsgpkg,layer="bike_accidents")
Warning in CPL_read_ogr(dsn, layer, query, as.character(options), quiet, :
GDAL Error 1: unable to open database file: this file is a WAL-enabled database. It cannot be opened because it is presumably read-only or in a read-only directory.
Error: Cannot open "/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/spNetwork/extdata/events.gpkg"; The source could be corrupt or not supported. See `st_drivers()` for a list of supported formats.
Execution halted
Flavor: r-patched-linux-x86_64
Version: 0.4.3
Check: tests
Result: ERROR
Running ‘testthat.R’ [66s/110s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> test_check("spNetwork")
Loading required package: spNetwork
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "start calculating the kernel values for the adaptive bandwidth..."
[1] " quadra 1/1"
[1] " build graph ..."
[1] " calculating NKDE values ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
*************************[1] "Splitting the data with the spatial grid ..."
[1] "start calculating the kernel values ..."
[1] " quadra 1/1"
[1] " build graph ..."
[1] " calculating NKDE values ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
*************************[1] "combining the results ..."
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "calculating the local bandwidth ..."
[1] "start calculating the kernel values for the adaptive bandwidth..."
[1] "starting the kernel calculations ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
*************************[1] "starting the kernel calculations ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
*************************[1] "combining the results ..."
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "start calculating the kernel values for the adaptive bandwidth..."
[1] "start calculating the kernel values ..."
[1] " quadra 1/1"
[1] " build graph ..."
[1] " calculating NKDE values ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
*************************[1] "combining the results ..."
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "start calculating the kernel values for the adaptive bandwidth..."
[1] "starting the kernel calculations ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
*************************[1] " build graph ..."
[1] " calculating NKDE values ..."
[1] "combining the results ..."
[1] "generating the starting points"
[1] "snapping the points to the lines (only once)"
[1] "starting the network part"
[1] "working on quadra : 1/1"
[1] "adding the points as vertices to nearest lines"
[1] "splitting the lines for the network"
[1] "generating the network"
[1] "calculating the distances on the network"
[1] "building the final listw object"
[1] "finally generating the listw object ..."
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "Calculating the correction factor if required"
[1] "Splittig the dataset within the grid ..."
[1] "start calculating the CV values ..."
|
| | 0%
|
|======================================================================| 100%[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "Calculating the correction factor if required"
[1] "start calculating the CV values ..."
|
| | 0%Reading layer `mtl_network' from data source
`/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/spNetwork/extdata/networks.gpkg'
using driver `GPKG'
Simple feature collection with 2945 features and 1 field
Geometry type: LINESTRING
Dimension: XY
Bounding box: xmin: 295675.9 ymin: 5039320 xmax: 301783.9 ymax: 5044799
Projected CRS: NAD83 / MTM zone 8
Reading layer `mtl_network' from data source
`/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/spNetwork/extdata/networks.gpkg'
using driver `GPKG'
Simple feature collection with 2945 features and 1 field
Geometry type: LINESTRING
Dimension: XY
Bounding box: xmin: 295675.9 ymin: 5039320 xmax: 301783.9 ymax: 5044799
Projected CRS: NAD83 / MTM zone 8
[1] "prior data preparation ..."
[1] "Calculating the correction factor if required"
[1] "start calculating the CV values ..."
|
| | 0%
|
|======================================================================| 100%[1] "prior data preparation ..."
[1] "Calculating the correction factor if required"
[1] "start calculating the CV values ..."
|
| | 0%
|
|======================================================================| 100%[1] "prior data preparation ..."
[1] "Calculating the correction factor if required"
[1] "start calculating the CV values ..."
|
| | 0%
|
|======================================================================| 100%[1] "prior data preparation ..."
[1] "Calculating the correction factor if required"
[1] "splitting the data by the grid..."
[1] "start calculating the CV values ..."
|
| | 0%
|
|============== | 20%
|
|============================ | 40%
|
|========================================== | 60%
|
|======================================================== | 80%
|
|======================================================================| 100%
|
| | 0%
|
|================== | 25%
|
|=================================== | 50%
|
|==================================================== | 75%
|
|======================================================================| 100%[1] "Preparing data ..."
[1] "Snapping points on lines ..."
[1] "Building graph ..."
[1] "Calculating k and g functions ..."
[1] "Calculating the simulations ..."
|
| | 0%
|
|============== | 20%
|
|============================ | 40%
|
|========================================== | 60%
|
|======================================================== | 80%
|
|======================================================================| 100%[1] "Preparing data ..."
[1] "Snapping points on lines ..."
[1] "Building graph ..."
[1] "Calculating k and g functions ..."
[1] "Calculating the simulations ..."
|
| | 0%
|
|============== | 20%
|
|============================ | 40%
|
|========================================== | 60%
|
|======================================================== | 80%
|
|======================================================================| 100%[1] "Preparing data ..."
[1] "Snapping points on lines ..."
[1] "Building graph ..."
[1] "Calculating k and g functions ..."
[1] "Calculating the simulations ..."
[1] "Preparing data ..."
[1] "Snapping points on lines ..."
[1] "Building graph ..."
[1] "Calculating k and g functions ..."
[1] "Calculating the simulations ..."
[1] "Preparing data ..."
[1] "Snapping points on lines ..."
[1] "Building graph ..."
[,1] [,2] [,3] [,4]
[1,] 0 6 4 2
[2,] 6 0 2 4
[3,] 4 2 0 2
[4,] 2 4 2 0
[1] "Calculating k and g functions ..."
[1] "Calculating the simulations ..."
|
| | 0%[1] "Preparing data ..."
[1] "Snapping points on lines ..."
[1] "Building graph ..."
[1] "Calculating k and g functions ..."
[1] "Calculating the simulations ..."
|
| | 0%
|
|============== | 20%
|
|============================ | 40%
|
|========================================== | 60%
|
|======================================================== | 80%
|
|======================================================================| 100%[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "Splitting the data with the spatial grid ..."
[1] "start calculating the kernel values ..."
[1] " quadra 1/1"
[1] " build graph ..."
[1] " calculating NKDE values ..."
|
| | 0%
|
|======================================================================| 100%[1] "combining the results ..."
Reading layer `small_mtl_network' from data source
`/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/spNetwork/extdata/networks.gpkg'
using driver `GPKG'
Simple feature collection with 1244 features and 2 fields
Geometry type: LINESTRING
Dimension: XY
Bounding box: xmin: 296766.1 ymin: 5040804 xmax: 300116.9 ymax: 5044066
Projected CRS: NAD83 / MTM zone 8
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "start calculating the kernel values ..."
[1] " quadra 1/1"
[1] " build graph ..."
[1] " calculating NKDE values ..."
|
| | 0%
|
|======================================================================| 100%[1] "combining the results ..."
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "start calculating the kernel values ..."
[1] " quadra 1/1"
[1] " build graph ..."
[1] " calculating NKDE values ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
[1] "combining the results ..."
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "start calculating the kernel values ..."
[1] " quadra 1/1"
[1] " build graph ..."
[1] " calculating NKDE values ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
[1] "combining the results ..."
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "start calculating the kernel values ..."
[1] " quadra 1/1"
[1] " build graph ..."
[1] " calculating NKDE values ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
[1] "combining the results ..."
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "starting the kernel calculations ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
[1] " build graph ..."
[1] " calculating NKDE values ..."
[1] "combining the results ..."
[ FAIL 2 | WARN 9 | SKIP 0 | PASS 69 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Error (test_bw_selection_sf.R:491:3): Testing that bw selection by cv-likelihood gives the same score in single and multicore ──
<Rcpp::exception/C++Error/error/condition>
Error: Cannot open "/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/spNetwork/extdata/events.gpkg"; The source could be corrupt or not supported. See `st_drivers()` for a list of supported formats.
Backtrace:
▆
1. ├─sf::st_read(eventsgpkg, layer = "bike_accidents") at test_bw_selection_sf.R:491:2
2. └─sf:::st_read.character(eventsgpkg, layer = "bike_accidents")
3. └─sf:::CPL_read_ogr(...)
── Error (test_bw_selection_sf.R:557:3): Testing that bw selection with Van Lieshout's Criterion gives the same score in single and multicore ──
<Rcpp::exception/C++Error/error/condition>
Error: Cannot open "/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/spNetwork/extdata/events.gpkg"; The source could be corrupt or not supported. See `st_drivers()` for a list of supported formats.
Backtrace:
▆
1. ├─sf::st_read(eventsgpkg, layer = "bike_accidents") at test_bw_selection_sf.R:557:2
2. └─sf:::st_read.character(eventsgpkg, layer = "bike_accidents")
3. └─sf:::CPL_read_ogr(...)
[ FAIL 2 | WARN 9 | SKIP 0 | PASS 69 ]
Error: Test failures
Execution halted
Flavor: r-patched-linux-x86_64
Version: 0.4.3
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘Isochrones.Rmd’ using rmarkdown
Linking to GEOS 3.10.2, GDAL 3.4.2, PROJ 9.0.0; sf_use_s2() is TRUE
Attaching package: 'smoothr'
The following object is masked from 'package:stats':
smooth
--- finished re-building ‘Isochrones.Rmd’
--- re-building ‘KNetworkFunctions.Rmd’ using rmarkdown
Warning in CPL_read_ogr(dsn, layer, query, as.character(options), quiet, :
GDAL Error 1: unable to open database file: this file is a WAL-enabled database. It cannot be opened because it is presumably read-only or in a read-only directory.
Quitting from lines 58-76 (KNetworkFunctions.Rmd)
Error: processing vignette ‘KNetworkFunctions.Rmd’ failed with diagnostics:
Cannot open "/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/spNetwork/extdata/events.gpkg"; The source could be corrupt or not supported. See `st_drivers()` for a list of supported formats.
--- failed re-building ‘KNetworkFunctions.Rmd’
--- re-building ‘NKDE.Rmd’ using rmarkdown
Warning in CPL_read_ogr(dsn, layer, query, as.character(options), quiet, :
GDAL Error 1: unable to open database file: this file is a WAL-enabled database. It cannot be opened because it is presumably read-only or in a read-only directory.
Quitting from lines 314-336 (NKDE.Rmd)
Error: processing vignette ‘NKDE.Rmd’ failed with diagnostics:
Cannot open "/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/spNetwork/extdata/events.gpkg"; The source could be corrupt or not supported. See `st_drivers()` for a list of supported formats.
--- failed re-building ‘NKDE.Rmd’
--- re-building ‘NetworkBuilding.Rmd’ using rmarkdown
Warning in CPL_read_ogr(dsn, layer, query, as.character(options), quiet, :
GDAL Error 1: unable to open database file: this file is a WAL-enabled database. It cannot be opened because it is presumably read-only or in a read-only directory.
Quitting from lines 37-56 (NetworkBuilding.Rmd)
Error: processing vignette ‘NetworkBuilding.Rmd’ failed with diagnostics:
Cannot open "/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/spNetwork/extdata/events.gpkg"; The source could be corrupt or not supported. See `st_drivers()` for a list of supported formats.
--- failed re-building ‘NetworkBuilding.Rmd’
--- re-building ‘SpatialWeightMatrices.Rmd’ using rmarkdown
--- finished re-building ‘SpatialWeightMatrices.Rmd’
--- re-building ‘TNKDE.Rmd’ using rmarkdown
Warning in CPL_read_ogr(dsn, layer, query, as.character(options), quiet, :
GDAL Error 1: unable to open database file: this file is a WAL-enabled database. It cannot be opened because it is presumably read-only or in a read-only directory.
Quitting from lines 63-88 (TNKDE.Rmd)
Error: processing vignette ‘TNKDE.Rmd’ failed with diagnostics:
Cannot open "/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/spNetwork/extdata/events.gpkg"; The source could be corrupt or not supported. See `st_drivers()` for a list of supported formats.
--- failed re-building ‘TNKDE.Rmd’
SUMMARY: processing the following files failed:
‘KNetworkFunctions.Rmd’ ‘NKDE.Rmd’ ‘NetworkBuilding.Rmd’ ‘TNKDE.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-patched-linux-x86_64
Version: 0.4.2
Check: examples
Result: ERROR
Running examples in ‘spNetwork-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: aggregate_points
> ### Title: Events aggregation
> ### Aliases: aggregate_points
>
> ### ** Examples
>
> eventsgpkg <- system.file("extdata", "events.gpkg", package = "spNetwork", mustWork = TRUE)
> bike_accidents <- sf::st_read(eventsgpkg,layer="bike_accidents")
Warning in CPL_read_ogr(dsn, layer, query, as.character(options), quiet, :
GDAL Error 1: unable to open database file: this file is a WAL-enabled database. It cannot be opened because it is presumably read-only or in a read-only directory.
Error: Cannot open "/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/spNetwork/extdata/events.gpkg"; The source could be corrupt or not supported. See `st_drivers()` for a list of supported formats.
Execution halted
Flavor: r-release-linux-x86_64
Version: 0.4.2
Check: tests
Result: ERROR
Running ‘testthat.R’ [65s/105s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> test_check("spNetwork")
Loading required package: spNetwork
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "start calculating the kernel values for the adaptive bandwidth..."
[1] " quadra 1/1"
[1] " build graph ..."
[1] " calculating NKDE values ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
*************************[1] "Splitting the data with the spatial grid ..."
[1] "start calculating the kernel values ..."
[1] " quadra 1/1"
[1] " build graph ..."
[1] " calculating NKDE values ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
*************************[1] "combining the results ..."
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "calculating the local bandwidth ..."
[1] "start calculating the kernel values for the adaptive bandwidth..."
[1] "starting the kernel calculations ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
*************************[1] "starting the kernel calculations ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
*************************[1] "combining the results ..."
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "start calculating the kernel values for the adaptive bandwidth..."
[1] "start calculating the kernel values ..."
[1] " quadra 1/1"
[1] " build graph ..."
[1] " calculating NKDE values ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
*************************[1] "combining the results ..."
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "start calculating the kernel values for the adaptive bandwidth..."
[1] "starting the kernel calculations ..."
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
*************************[1] " build graph ..."
[1] " calculating NKDE values ..."
[1] "combining the results ..."
[1] "generating the starting points"
[1] "snapping the points to the lines (only once)"
[1] "starting the network part"
[1] "working on quadra : 1/1"
[1] "adding the points as vertices to nearest lines"
[1] "splitting the lines for the network"
[1] "generating the network"
[1] "calculating the distances on the network"
[1] "building the final listw object"
[1] "finally generating the listw object ..."
[1] "checking inputs ..."
[1] "prior data preparation ..."
[1] "Calculating the correction factor if required"
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`/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/spNetwork/extdata/networks.gpkg'
using driver `GPKG'
Simple feature collection with 2945 features and 1 field
Geometry type: LINESTRING
Dimension: XY
Bounding box: xmin: 295675.9 ymin: 5039320 xmax: 301783.9 ymax: 5044799
Projected CRS: NAD83 / MTM zone 8
Reading layer `mtl_network' from data source
`/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/spNetwork/extdata/networks.gpkg'
using driver `GPKG'
Simple feature collection with 2945 features and 1 field
Geometry type: LINESTRING
Dimension: XY
Bounding box: xmin: 295675.9 ymin: 5039320 xmax: 301783.9 ymax: 5044799
Projected CRS: NAD83 / MTM zone 8
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`/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/spNetwork/extdata/networks.gpkg'
using driver `GPKG'
Simple feature collection with 1244 features and 2 fields
Geometry type: LINESTRING
Dimension: XY
Bounding box: xmin: 296766.1 ymin: 5040804 xmax: 300116.9 ymax: 5044066
Projected CRS: NAD83 / MTM zone 8
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[----|----|----|----|----|----|----|----|----|----|
**************************************************|
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**************************************************|
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[ FAIL 2 | WARN 9 | SKIP 0 | PASS 69 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Error (test_bw_selection_sf.R:491:3): Testing that bw selection by cv-likelihood gives the same score in single and multicore ──
<Rcpp::exception/C++Error/error/condition>
Error: Cannot open "/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/spNetwork/extdata/events.gpkg"; The source could be corrupt or not supported. See `st_drivers()` for a list of supported formats.
Backtrace:
▆
1. ├─sf::st_read(eventsgpkg, layer = "bike_accidents") at test_bw_selection_sf.R:491:2
2. └─sf:::st_read.character(eventsgpkg, layer = "bike_accidents")
3. └─sf:::CPL_read_ogr(...)
── Error (test_bw_selection_sf.R:557:3): Testing that bw selection with Van Lieshout's Criterion gives the same score in single and multicore ──
<Rcpp::exception/C++Error/error/condition>
Error: Cannot open "/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/spNetwork/extdata/events.gpkg"; The source could be corrupt or not supported. See `st_drivers()` for a list of supported formats.
Backtrace:
▆
1. ├─sf::st_read(eventsgpkg, layer = "bike_accidents") at test_bw_selection_sf.R:557:2
2. └─sf:::st_read.character(eventsgpkg, layer = "bike_accidents")
3. └─sf:::CPL_read_ogr(...)
[ FAIL 2 | WARN 9 | SKIP 0 | PASS 69 ]
Error: Test failures
Execution halted
Flavor: r-release-linux-x86_64
Version: 0.4.2
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
...
--- re-building ‘Isochrones.Rmd’ using rmarkdown
Linking to GEOS 3.10.2, GDAL 3.4.2, PROJ 9.0.0; sf_use_s2() is TRUE
Attaching package: 'smoothr'
The following object is masked from 'package:stats':
smooth
--- finished re-building ‘Isochrones.Rmd’
--- re-building ‘KNetworkFunctions.Rmd’ using rmarkdown
Warning: unable to open database file: this file is a WAL-enabled database. It cannot be opened because it is presumably read-only or in a read-only directory. (GDAL error 1)
Quitting from lines 58-76 (KNetworkFunctions.Rmd)
Error: processing vignette 'KNetworkFunctions.Rmd' failed with diagnostics:
Cannot open "/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/spNetwork/extdata/events.gpkg"; The source could be corrupt or not supported. See `st_drivers()` for a list of supported formats.
--- failed re-building ‘KNetworkFunctions.Rmd’
--- re-building ‘NKDE.Rmd’ using rmarkdown
Linking to GEOS 3.10.2, GDAL 3.4.2, PROJ 9.0.0; sf_use_s2() is TRUE
Warning: unable to open database file: this file is a WAL-enabled database. It cannot be opened because it is presumably read-only or in a read-only directory. (GDAL error 1)
Quitting from lines 314-336 (NKDE.Rmd)
Error: processing vignette 'NKDE.Rmd' failed with diagnostics:
Cannot open "/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/spNetwork/extdata/events.gpkg"; The source could be corrupt or not supported. See `st_drivers()` for a list of supported formats.
--- failed re-building ‘NKDE.Rmd’
--- re-building ‘NetworkBuilding.Rmd’ using rmarkdown
Linking to GEOS 3.10.2, GDAL 3.4.2, PROJ 9.0.0; sf_use_s2() is TRUE
Warning: unable to open database file: this file is a WAL-enabled database. It cannot be opened because it is presumably read-only or in a read-only directory. (GDAL error 1)
Quitting from lines 37-56 (NetworkBuilding.Rmd)
Error: processing vignette 'NetworkBuilding.Rmd' failed with diagnostics:
Cannot open "/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/spNetwork/extdata/events.gpkg"; The source could be corrupt or not supported. See `st_drivers()` for a list of supported formats.
--- failed re-building ‘NetworkBuilding.Rmd’
--- re-building ‘SpatialWeightMatrices.Rmd’ using rmarkdown
--- finished re-building ‘SpatialWeightMatrices.Rmd’
--- re-building ‘TNKDE.Rmd’ using rmarkdown
Linking to GEOS 3.10.2, GDAL 3.4.2, PROJ 9.0.0; sf_use_s2() is TRUE
Warning: unable to open database file: this file is a WAL-enabled database. It cannot be opened because it is presumably read-only or in a read-only directory. (GDAL error 1)
Quitting from lines 63-88 (TNKDE.Rmd)
Error: processing vignette 'TNKDE.Rmd' failed with diagnostics:
Cannot open "/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/spNetwork/extdata/events.gpkg"; The source could be corrupt or not supported. See `st_drivers()` for a list of supported formats.
--- failed re-building ‘TNKDE.Rmd’
SUMMARY: processing the following files failed:
‘KNetworkFunctions.Rmd’ ‘NKDE.Rmd’ ‘NetworkBuilding.Rmd’ ‘TNKDE.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-release-linux-x86_64
Version: 0.4.2
Check: installed package size
Result: NOTE
installed size is 18.0Mb
sub-directories of 1Mb or more:
doc 1.1Mb
extdata 5.6Mb
libs 10.4Mb
Flavors: r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64
Version: 0.4.2
Check: tests
Result: ERROR
Running ‘testthat.R’ [20s/29s]
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
[1] " build graph ..."
[1] " calculating NKDE values ..."
[1] "combining the results ..."
[ FAIL 1 | WARN 11 | SKIP 0 | PASS 70 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Failure (test_bw_selection_sf.R:608:3): Testing that bw selection with Van Lieshout's Criterion gives the same score in single and multicore ──
!test1 & test2 is not TRUE
`actual`: FALSE
`expected`: TRUE
[ FAIL 1 | WARN 11 | SKIP 0 | PASS 70 ]
Error: Test failures
Execution halted
Flavors: r-release-macos-arm64, r-oldrel-macos-arm64
Version: 0.4.3.1
Check: installed package size
Result: NOTE
installed size is 8.3Mb
sub-directories of 1Mb or more:
doc 1.1Mb
extdata 2.6Mb
libs 3.1Mb
Flavor: r-oldrel-windows-ix86+x86_64