Last updated on 2022-04-24 03:52:52 CEST.
| Package | ERROR | OK |
|---|---|---|
| mapme.biodiversity | 4 | 8 |
Current CRAN status: ERROR: 4, OK: 8
Version: 0.0.1
Check: examples
Result: ERROR
Running examples in 'mapme.biodiversity-Ex.R' failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: accessibility
> ### Title: Calculate accessibility statistics
> ### Aliases: accessibility
> ### Keywords: indicator
>
> ### ** Examples
>
> library(sf)
Linking to GEOS 3.10.2, GDAL 3.4.2, PROJ 9.0.0; sf_use_s2() is TRUE
> library(mapme.biodiversity)
> (aoi <- system.file("extdata", "sierra_de_neiba_478140_2.gpkg", package = "mapme.biodiversity") %>%
+ read_sf() %>%
+ init_portfolio(
+ years = 2022,
+ outdir = system.file("res", package = "mapme.biodiversity"),
+ tmpdir = system.file("tmp", package = "mapme.biodiversity"),
+ add_resources = FALSE,
+ cores = 1,
+ verbose = FALSE
+ ) %>%
+ get_resources("traveltime",
+ range_traveltime = c("5k_10k", "100k_200k", "500k_1mio", "1mio_5mio")
+ ) %>%
+ calc_indicators("accessibility", stats_accessibility = c("min", "max"), engine = "extract") %>%
+ tidyr::unnest(accessibility))
Warning in CPL_write_ogr(obj, dsn, layer, driver, as.character(dataset_options), :
GDAL Error 4: sqlite3_open(/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/mapme.biodiversity/res/traveltime/tileindex_traveltime.gpkg) failed: unable to open database file
Creating dataset /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/mapme.biodiversity/res/traveltime/tileindex_traveltime.gpkg failed.
Error in CPL_write_ogr(obj, dsn, layer, driver, as.character(dataset_options), :
Creation failed.
Calls: %>% ... write_sf -> st_write -> st_write.sf -> CPL_write_ogr
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 0.0.1
Check: tests
Result: ERROR
Running 'testthat.R' [40s/57s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> library(testthat)
> library(mapme.biodiversity)
> library(pbapply)
>
> pboptions(type = "none")
> test_check("mapme.biodiversity")
Argument 'vers_treecover' for resource 'treecover2000' was not specified. Setting to default value of 'GFC-2020-v1.8'.
Starting process to download resource 'treecover2000'........
Skipping existing files in output directory.
Creating dataset /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/mapme.biodiversity/res/treecover2000/tileindex_treecover2000.gpkg failed.
Starting process to download resource 'srtmdem'........
Argument 'range_traveltime' for resource 'traveltime' was not specified. Setting to default value of '20k_50k'.
Starting process to download resource 'traveltime'........
Starting process to download resource 'traveltime'........
The selected range 'not-available' is not available ranges for traveltime Available ranges are 5k_10k, 10k_20k, 20k_50k, 50k_100k, 100k_200k, 200k_500k, 500k_1mio, 1mio_5mio, 50k_50mio, 5k_110mio, 20k_110mio.
<simpleError in .get_traveltime_url(range_traveltime, filenames): No supoorted ranges have been specified.>
<simpleWarning: Download for resource traveltime failed. Returning unmodified portfolio object.>
Starting process to download resource 'traveltime'........
The selected ranges 'not-available', 'not-available2' are not available ranges for traveltime Available ranges are 5k_10k, 10k_20k, 20k_50k, 50k_100k, 100k_200k, 200k_500k, 500k_1mio, 1mio_5mio, 50k_50mio, 5k_110mio, 20k_110mio.
<simpleError in .get_traveltime_url(range_traveltime, filenames): No supoorted ranges have been specified.>
<simpleWarning: Download for resource traveltime failed. Returning unmodified portfolio object.>
Starting process to download resource 'traveltime'........
The selected range 'not-available' is not available ranges for traveltime Available ranges are 5k_10k, 10k_20k, 20k_50k, 50k_100k, 100k_200k, 200k_500k, 500k_1mio, 1mio_5mio, 50k_50mio, 5k_110mio, 20k_110mio.
Reduced to the available range of 20k_50k.
Starting process to download resource 'greenhouse'........
Starting process to download resource 'lossyear'........
<simpleError: Wrong version specified for lossyear resource. Select one of GFC-2015-v1.3.Wrong version specified for lossyear resource. Select one of GFC-2016-v1.4.Wrong version specified for lossyear resource. Select one of GFC-2017-v1.5.Wrong version specified for lossyear resource. Select one of GFC-2018-v1.6.Wrong version specified for lossyear resource. Select one of GFC-2019-v1.7.Wrong version specified for lossyear resource. Select one of GFC-2020-v1.8.>
<simpleWarning: Download for resource lossyear failed. Returning unmodified portfolio object.>
Argument 'vers_lossyear' for resource 'lossyear' was not specified. Setting to default value of 'GFC-2020-v1.8'.
Starting process to download resource 'lossyear'........
Starting process to download resource 'treecover2000'........
Skipping existing files in output directory.
Creating dataset /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/mapme.biodiversity/res/treecover2000/tileindex_treecover2000.gpkg failed.
Starting process to download resource 'treecover2000'........
<simpleError: Wrong version specified for treecover resource. Select one of GFC-2015-v1.3, GFC-2016-v1.4, GFC-2017-v1.5, GFC-2018-v1.6, GFC-2019-v1.7, GFC-2020-v1.8.>
<simpleWarning: Download for resource treecover2000 failed. Returning unmodified portfolio object.>
Argument 'vers_treecover' for resource 'treecover2000' was not specified. Setting to default value of 'GFC-2020-v1.8'.
Starting process to download resource 'treecover2000'........
Starting process to download resource 'worldpop'........
sh: 1: /no-valid-bin: not found
Creating dataset /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/mapme.biodiversity/res/chirps/tileindex_chirps.gpkg failed.
The following requested resource is already available: treecover2000.
Argument 'vers_treecover' for resource 'treecover2000' was not specified. Setting to default value of 'GFC-2020-v1.8'.
Some target years are not available for treecover.
Some target years are not available for treecover.
Checking URLs for existence. This may take a while...
Checking URLs for existence. This may take a while...
Skipping existing files in output directory.
Checking URLs for existence. This may take a while...
[ FAIL 3 | WARN 3 | SKIP 23 | PASS 102 ]
== Skipped tests ===============================================================
* On CRAN (23)
== Failed tests ================================================================
-- Error (test-calc_indicator.R:23:3): multiplication works --------------------
<Rcpp::exception/C++Error/error/condition>
Error in `CPL_write_ogr(obj, dsn, layer, driver, as.character(dataset_options),
as.character(layer_options), geom, dim, fids, config_options,
quiet, append, delete_dsn, delete_layer, write_geometries,
getOption("width"))`: Creation failed.
Backtrace:
x
1. \-mapme.biodiversity::get_resources(...) at test-calc_indicator.R:23:2
2. \-mapme.biodiversity:::.get_single_resource(x, resource, ...)
3. \-sf::write_sf(footprints, dsn = tindex_file)
4. +-sf::st_write(..., quiet = quiet, append = append, delete_layer = delete_layer)
5. \-sf:::st_write.sf(..., quiet = quiet, append = append, delete_layer = delete_layer)
6. \-sf:::CPL_write_ogr(...)
-- Error (test-get_resources.R:31:3): get_resources works ----------------------
<Rcpp::exception/C++Error/error/condition>
Error in `CPL_write_ogr(obj, dsn, layer, driver, as.character(dataset_options),
as.character(layer_options), geom, dim, fids, config_options,
quiet, append, delete_dsn, delete_layer, write_geometries,
getOption("width"))`: Creation failed.
Backtrace:
x
1. +-testthat::expect_message(...) at test-get_resources.R:31:2
2. | \-testthat:::expect_condition_matching(...)
3. | \-testthat:::quasi_capture(...)
4. | +-testthat .capture(...)
5. | | \-base::withCallingHandlers(...)
6. | \-rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. \-mapme.biodiversity::get_resources(...)
8. \-mapme.biodiversity:::.get_single_resource(x, resource, ...)
9. \-sf::write_sf(footprints, dsn = tindex_file)
10. +-sf::st_write(..., quiet = quiet, append = append, delete_layer = delete_layer)
11. \-sf:::st_write.sf(..., quiet = quiet, append = append, delete_layer = delete_layer)
12. \-sf:::CPL_write_ogr(...)
-- Error (test-portfolio.R:119:3): init_portfolio works ------------------------
<Rcpp::exception/C++Error/error/condition>
Error in `CPL_write_ogr(obj, dsn, layer, driver, as.character(dataset_options),
as.character(layer_options), geom, dim, fids, config_options,
quiet, append, delete_dsn, delete_layer, write_geometries,
getOption("width"))`: Creation failed.
Backtrace:
x
1. +-... %>% get_resources("chirps") at test-portfolio.R:119:2
2. \-mapme.biodiversity::get_resources(., "chirps")
3. \-mapme.biodiversity:::.get_single_resource(x, resource, ...)
4. \-sf::write_sf(footprints, dsn = tindex_file)
5. +-sf::st_write(..., quiet = quiet, append = append, delete_layer = delete_layer)
6. \-sf:::st_write.sf(..., quiet = quiet, append = append, delete_layer = delete_layer)
7. \-sf:::CPL_write_ogr(...)
[ FAIL 3 | WARN 3 | SKIP 23 | PASS 102 ]
Error: Test failures
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 0.0.1
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building 'terminology.Rmd' using rmarkdown
--- finished re-building 'terminology.Rmd'
--- re-building 'userguide.Rmd' using rmarkdown
Linking to GEOS 3.10.2, GDAL 3.4.2, PROJ 9.0.0; sf_use_s2() is TRUE
Attaching package: 'dplyr'
The following objects are masked from 'package:stats':
filter, lag
The following objects are masked from 'package:base':
intersect, setdiff, setequal, union
Quitting from lines 205-206 (userguide.Rmd)
Error: processing vignette 'userguide.Rmd' failed with diagnostics:
Creation failed.
--- failed re-building 'userguide.Rmd'
SUMMARY: processing the following file failed:
'userguide.Rmd'
Error: Vignette re-building failed.
Execution halted
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64
Version: 0.0.1
Check: examples
Result: ERROR
Running examples in ‘mapme.biodiversity-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: accessibility
> ### Title: Calculate accessibility statistics
> ### Aliases: accessibility
> ### Keywords: indicator
>
> ### ** Examples
>
> library(sf)
Linking to GEOS 3.10.2, GDAL 3.4.2, PROJ 9.0.0; sf_use_s2() is TRUE
> library(mapme.biodiversity)
> (aoi <- system.file("extdata", "sierra_de_neiba_478140_2.gpkg", package = "mapme.biodiversity") %>%
+ read_sf() %>%
+ init_portfolio(
+ years = 2022,
+ outdir = system.file("res", package = "mapme.biodiversity"),
+ tmpdir = system.file("tmp", package = "mapme.biodiversity"),
+ add_resources = FALSE,
+ cores = 1,
+ verbose = FALSE
+ ) %>%
+ get_resources("traveltime",
+ range_traveltime = c("5k_10k", "100k_200k", "500k_1mio", "1mio_5mio")
+ ) %>%
+ calc_indicators("accessibility", stats_accessibility = c("min", "max"), engine = "extract") %>%
+ tidyr::unnest(accessibility))
Warning in CPL_write_ogr(obj, dsn, layer, driver, as.character(dataset_options), :
GDAL Error 4: sqlite3_open(/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/mapme.biodiversity/res/traveltime/tileindex_traveltime.gpkg) failed: unable to open database file
Creating dataset /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/mapme.biodiversity/res/traveltime/tileindex_traveltime.gpkg failed.
Error in CPL_write_ogr(obj, dsn, layer, driver, as.character(dataset_options), :
Creation failed.
Calls: %>% ... write_sf -> st_write -> st_write.sf -> CPL_write_ogr
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 0.0.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [27s/60s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(mapme.biodiversity)
> library(pbapply)
>
> pboptions(type = "none")
> test_check("mapme.biodiversity")
Argument 'vers_treecover' for resource 'treecover2000' was not specified. Setting to default value of 'GFC-2020-v1.8'.
Starting process to download resource 'treecover2000'........
Skipping existing files in output directory.
Creating dataset /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/mapme.biodiversity/res/treecover2000/tileindex_treecover2000.gpkg failed.
Starting process to download resource 'srtmdem'........
Argument 'range_traveltime' for resource 'traveltime' was not specified. Setting to default value of '20k_50k'.
Starting process to download resource 'traveltime'........
Starting process to download resource 'traveltime'........
The selected range 'not-available' is not available ranges for traveltime Available ranges are 5k_10k, 10k_20k, 20k_50k, 50k_100k, 100k_200k, 200k_500k, 500k_1mio, 1mio_5mio, 50k_50mio, 5k_110mio, 20k_110mio.
<simpleError in .get_traveltime_url(range_traveltime, filenames): No supoorted ranges have been specified.>
<simpleWarning: Download for resource traveltime failed. Returning unmodified portfolio object.>
Starting process to download resource 'traveltime'........
The selected ranges 'not-available', 'not-available2' are not available ranges for traveltime Available ranges are 5k_10k, 10k_20k, 20k_50k, 50k_100k, 100k_200k, 200k_500k, 500k_1mio, 1mio_5mio, 50k_50mio, 5k_110mio, 20k_110mio.
<simpleError in .get_traveltime_url(range_traveltime, filenames): No supoorted ranges have been specified.>
<simpleWarning: Download for resource traveltime failed. Returning unmodified portfolio object.>
Starting process to download resource 'traveltime'........
The selected range 'not-available' is not available ranges for traveltime Available ranges are 5k_10k, 10k_20k, 20k_50k, 50k_100k, 100k_200k, 200k_500k, 500k_1mio, 1mio_5mio, 50k_50mio, 5k_110mio, 20k_110mio.
Reduced to the available range of 20k_50k.
Starting process to download resource 'greenhouse'........
Starting process to download resource 'lossyear'........
<simpleError: Wrong version specified for lossyear resource. Select one of GFC-2015-v1.3.Wrong version specified for lossyear resource. Select one of GFC-2016-v1.4.Wrong version specified for lossyear resource. Select one of GFC-2017-v1.5.Wrong version specified for lossyear resource. Select one of GFC-2018-v1.6.Wrong version specified for lossyear resource. Select one of GFC-2019-v1.7.Wrong version specified for lossyear resource. Select one of GFC-2020-v1.8.>
<simpleWarning: Download for resource lossyear failed. Returning unmodified portfolio object.>
Argument 'vers_lossyear' for resource 'lossyear' was not specified. Setting to default value of 'GFC-2020-v1.8'.
Starting process to download resource 'lossyear'........
Starting process to download resource 'treecover2000'........
Skipping existing files in output directory.
Creating dataset /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/mapme.biodiversity/res/treecover2000/tileindex_treecover2000.gpkg failed.
Starting process to download resource 'treecover2000'........
<simpleError: Wrong version specified for treecover resource. Select one of GFC-2015-v1.3, GFC-2016-v1.4, GFC-2017-v1.5, GFC-2018-v1.6, GFC-2019-v1.7, GFC-2020-v1.8.>
<simpleWarning: Download for resource treecover2000 failed. Returning unmodified portfolio object.>
Argument 'vers_treecover' for resource 'treecover2000' was not specified. Setting to default value of 'GFC-2020-v1.8'.
Starting process to download resource 'treecover2000'........
Starting process to download resource 'worldpop'........
sh: 1: /no-valid-bin: not found
Creating dataset /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/mapme.biodiversity/res/chirps/tileindex_chirps.gpkg failed.
The following requested resource is already available: treecover2000.
Argument 'vers_treecover' for resource 'treecover2000' was not specified. Setting to default value of 'GFC-2020-v1.8'.
Some target years are not available for treecover.
Some target years are not available for treecover.
Checking URLs for existence. This may take a while...
Checking URLs for existence. This may take a while...
Skipping existing files in output directory.
Checking URLs for existence. This may take a while...
[ FAIL 3 | WARN 3 | SKIP 23 | PASS 102 ]
══ Skipped tests ═══════════════════════════════════════════════════════════════
• On CRAN (23)
══ Failed tests ════════════════════════════════════════════════════════════════
── Error (test-calc_indicator.R:23:3): multiplication works ────────────────────
<Rcpp::exception/C++Error/error/condition>
Error in `CPL_write_ogr(obj, dsn, layer, driver, as.character(dataset_options),
as.character(layer_options), geom, dim, fids, config_options,
quiet, append, delete_dsn, delete_layer, write_geometries,
getOption("width"))`: Creation failed.
Backtrace:
▆
1. └─mapme.biodiversity::get_resources(...) at test-calc_indicator.R:23:2
2. └─mapme.biodiversity:::.get_single_resource(x, resource, ...)
3. └─sf::write_sf(footprints, dsn = tindex_file)
4. ├─sf::st_write(..., quiet = quiet, append = append, delete_layer = delete_layer)
5. └─sf:::st_write.sf(..., quiet = quiet, append = append, delete_layer = delete_layer)
6. └─sf:::CPL_write_ogr(...)
── Error (test-get_resources.R:31:3): get_resources works ──────────────────────
<Rcpp::exception/C++Error/error/condition>
Error in `CPL_write_ogr(obj, dsn, layer, driver, as.character(dataset_options),
as.character(layer_options), geom, dim, fids, config_options,
quiet, append, delete_dsn, delete_layer, write_geometries,
getOption("width"))`: Creation failed.
Backtrace:
▆
1. ├─testthat::expect_message(...) at test-get_resources.R:31:2
2. │ └─testthat:::expect_condition_matching(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─mapme.biodiversity::get_resources(...)
8. └─mapme.biodiversity:::.get_single_resource(x, resource, ...)
9. └─sf::write_sf(footprints, dsn = tindex_file)
10. ├─sf::st_write(..., quiet = quiet, append = append, delete_layer = delete_layer)
11. └─sf:::st_write.sf(..., quiet = quiet, append = append, delete_layer = delete_layer)
12. └─sf:::CPL_write_ogr(...)
── Error (test-portfolio.R:119:3): init_portfolio works ────────────────────────
<Rcpp::exception/C++Error/error/condition>
Error in `CPL_write_ogr(obj, dsn, layer, driver, as.character(dataset_options),
as.character(layer_options), geom, dim, fids, config_options,
quiet, append, delete_dsn, delete_layer, write_geometries,
getOption("width"))`: Creation failed.
Backtrace:
▆
1. ├─... %>% get_resources("chirps") at test-portfolio.R:119:2
2. └─mapme.biodiversity::get_resources(., "chirps")
3. └─mapme.biodiversity:::.get_single_resource(x, resource, ...)
4. └─sf::write_sf(footprints, dsn = tindex_file)
5. ├─sf::st_write(..., quiet = quiet, append = append, delete_layer = delete_layer)
6. └─sf:::st_write.sf(..., quiet = quiet, append = append, delete_layer = delete_layer)
7. └─sf:::CPL_write_ogr(...)
[ FAIL 3 | WARN 3 | SKIP 23 | PASS 102 ]
Error: Test failures
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 0.0.1
Check: examples
Result: ERROR
Running examples in ‘mapme.biodiversity-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: accessibility
> ### Title: Calculate accessibility statistics
> ### Aliases: accessibility
> ### Keywords: indicator
>
> ### ** Examples
>
> library(sf)
Linking to GEOS 3.10.2, GDAL 3.4.2, PROJ 9.0.0; sf_use_s2() is TRUE
> library(mapme.biodiversity)
> (aoi <- system.file("extdata", "sierra_de_neiba_478140_2.gpkg", package = "mapme.biodiversity") %>%
+ read_sf() %>%
+ init_portfolio(
+ years = 2022,
+ outdir = system.file("res", package = "mapme.biodiversity"),
+ tmpdir = system.file("tmp", package = "mapme.biodiversity"),
+ add_resources = FALSE,
+ cores = 1,
+ verbose = FALSE
+ ) %>%
+ get_resources("traveltime",
+ range_traveltime = c("5k_10k", "100k_200k", "500k_1mio", "1mio_5mio")
+ ) %>%
+ calc_indicators("accessibility", stats_accessibility = c("min", "max"), engine = "extract") %>%
+ tidyr::unnest(accessibility))
Warning in CPL_write_ogr(obj, dsn, layer, driver, as.character(dataset_options), :
GDAL Error 4: sqlite3_open(/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/mapme.biodiversity/res/traveltime/tileindex_traveltime.gpkg) failed: unable to open database file
Creating dataset /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/mapme.biodiversity/res/traveltime/tileindex_traveltime.gpkg failed.
Error in CPL_write_ogr(obj, dsn, layer, driver, as.character(dataset_options), :
Creation failed.
Calls: %>% ... write_sf -> st_write -> st_write.sf -> CPL_write_ogr
Execution halted
Flavor: r-patched-linux-x86_64
Version: 0.0.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [36s/65s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(mapme.biodiversity)
> library(pbapply)
>
> pboptions(type = "none")
> test_check("mapme.biodiversity")
Argument 'vers_treecover' for resource 'treecover2000' was not specified. Setting to default value of 'GFC-2020-v1.8'.
Starting process to download resource 'treecover2000'........
Skipping existing files in output directory.
Creating dataset /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/mapme.biodiversity/res/treecover2000/tileindex_treecover2000.gpkg failed.
Starting process to download resource 'srtmdem'........
<simpleError in open.connection(x, "rb"): Timeout was reached: [srtm.csi.cgiar.org] Resolving timed out after 10000 milliseconds>
<simpleWarning: Download for resource srtmdem failed. Returning unmodified portfolio object.>
Argument 'range_traveltime' for resource 'traveltime' was not specified. Setting to default value of '20k_50k'.
Starting process to download resource 'traveltime'........
Starting process to download resource 'traveltime'........
The selected range 'not-available' is not available ranges for traveltime Available ranges are 5k_10k, 10k_20k, 20k_50k, 50k_100k, 100k_200k, 200k_500k, 500k_1mio, 1mio_5mio, 50k_50mio, 5k_110mio, 20k_110mio.
<simpleError in .get_traveltime_url(range_traveltime, filenames): No supoorted ranges have been specified.>
<simpleWarning: Download for resource traveltime failed. Returning unmodified portfolio object.>
Starting process to download resource 'traveltime'........
The selected ranges 'not-available', 'not-available2' are not available ranges for traveltime Available ranges are 5k_10k, 10k_20k, 20k_50k, 50k_100k, 100k_200k, 200k_500k, 500k_1mio, 1mio_5mio, 50k_50mio, 5k_110mio, 20k_110mio.
<simpleError in .get_traveltime_url(range_traveltime, filenames): No supoorted ranges have been specified.>
<simpleWarning: Download for resource traveltime failed. Returning unmodified portfolio object.>
Starting process to download resource 'traveltime'........
The selected range 'not-available' is not available ranges for traveltime Available ranges are 5k_10k, 10k_20k, 20k_50k, 50k_100k, 100k_200k, 200k_500k, 500k_1mio, 1mio_5mio, 50k_50mio, 5k_110mio, 20k_110mio.
Reduced to the available range of 20k_50k.
Starting process to download resource 'greenhouse'........
Starting process to download resource 'lossyear'........
<simpleError: Wrong version specified for lossyear resource. Select one of GFC-2015-v1.3.Wrong version specified for lossyear resource. Select one of GFC-2016-v1.4.Wrong version specified for lossyear resource. Select one of GFC-2017-v1.5.Wrong version specified for lossyear resource. Select one of GFC-2018-v1.6.Wrong version specified for lossyear resource. Select one of GFC-2019-v1.7.Wrong version specified for lossyear resource. Select one of GFC-2020-v1.8.>
<simpleWarning: Download for resource lossyear failed. Returning unmodified portfolio object.>
Argument 'vers_lossyear' for resource 'lossyear' was not specified. Setting to default value of 'GFC-2020-v1.8'.
Starting process to download resource 'lossyear'........
Starting process to download resource 'treecover2000'........
Skipping existing files in output directory.
Creating dataset /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/mapme.biodiversity/res/treecover2000/tileindex_treecover2000.gpkg failed.
Starting process to download resource 'treecover2000'........
<simpleError: Wrong version specified for treecover resource. Select one of GFC-2015-v1.3, GFC-2016-v1.4, GFC-2017-v1.5, GFC-2018-v1.6, GFC-2019-v1.7, GFC-2020-v1.8.>
<simpleWarning: Download for resource treecover2000 failed. Returning unmodified portfolio object.>
Argument 'vers_treecover' for resource 'treecover2000' was not specified. Setting to default value of 'GFC-2020-v1.8'.
Starting process to download resource 'treecover2000'........
Starting process to download resource 'worldpop'........
sh: 1: /no-valid-bin: not found
Creating dataset /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/mapme.biodiversity/res/chirps/tileindex_chirps.gpkg failed.
The following requested resource is already available: treecover2000.
Argument 'vers_treecover' for resource 'treecover2000' was not specified. Setting to default value of 'GFC-2020-v1.8'.
Some target years are not available for treecover.
Some target years are not available for treecover.
Checking URLs for existence. This may take a while...
Checking URLs for existence. This may take a while...
Skipping existing files in output directory.
Checking URLs for existence. This may take a while...
[ FAIL 4 | WARN 4 | SKIP 23 | PASS 101 ]
══ Skipped tests ═══════════════════════════════════════════════════════════════
• On CRAN (23)
══ Failed tests ════════════════════════════════════════════════════════════════
── Error (test-calc_indicator.R:23:3): multiplication works ────────────────────
<Rcpp::exception/C++Error/error/condition>
Error in `CPL_write_ogr(obj, dsn, layer, driver, as.character(dataset_options),
as.character(layer_options), geom, dim, fids, config_options,
quiet, append, delete_dsn, delete_layer, write_geometries,
getOption("width"))`: Creation failed.
Backtrace:
▆
1. └─mapme.biodiversity::get_resources(...) at test-calc_indicator.R:23:2
2. └─mapme.biodiversity:::.get_single_resource(x, resource, ...)
3. └─sf::write_sf(footprints, dsn = tindex_file)
4. ├─sf::st_write(..., quiet = quiet, append = append, delete_layer = delete_layer)
5. └─sf:::st_write.sf(..., quiet = quiet, append = append, delete_layer = delete_layer)
6. └─sf:::CPL_write_ogr(...)
── Error (test-get_SRTMdem.R:28:3): .get_srtm works ────────────────────────────
Error in `basename(get_resources(portfolio, resources = "srtmdem"))`: a character vector argument expected
Backtrace:
▆
1. ├─testthat::expect_equal(...) at test-get_SRTMdem.R:28:2
2. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
3. │ └─rlang::eval_bare(expr, quo_get_env(quo))
4. └─base::basename(get_resources(portfolio, resources = "srtmdem"))
── Error (test-get_resources.R:31:3): get_resources works ──────────────────────
<Rcpp::exception/C++Error/error/condition>
Error in `CPL_write_ogr(obj, dsn, layer, driver, as.character(dataset_options),
as.character(layer_options), geom, dim, fids, config_options,
quiet, append, delete_dsn, delete_layer, write_geometries,
getOption("width"))`: Creation failed.
Backtrace:
▆
1. ├─testthat::expect_message(...) at test-get_resources.R:31:2
2. │ └─testthat:::expect_condition_matching(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─mapme.biodiversity::get_resources(...)
8. └─mapme.biodiversity:::.get_single_resource(x, resource, ...)
9. └─sf::write_sf(footprints, dsn = tindex_file)
10. ├─sf::st_write(..., quiet = quiet, append = append, delete_layer = delete_layer)
11. └─sf:::st_write.sf(..., quiet = quiet, append = append, delete_layer = delete_layer)
12. └─sf:::CPL_write_ogr(...)
── Error (test-portfolio.R:119:3): init_portfolio works ────────────────────────
<Rcpp::exception/C++Error/error/condition>
Error in `CPL_write_ogr(obj, dsn, layer, driver, as.character(dataset_options),
as.character(layer_options), geom, dim, fids, config_options,
quiet, append, delete_dsn, delete_layer, write_geometries,
getOption("width"))`: Creation failed.
Backtrace:
▆
1. ├─... %>% get_resources("chirps") at test-portfolio.R:119:2
2. └─mapme.biodiversity::get_resources(., "chirps")
3. └─mapme.biodiversity:::.get_single_resource(x, resource, ...)
4. └─sf::write_sf(footprints, dsn = tindex_file)
5. ├─sf::st_write(..., quiet = quiet, append = append, delete_layer = delete_layer)
6. └─sf:::st_write.sf(..., quiet = quiet, append = append, delete_layer = delete_layer)
7. └─sf:::CPL_write_ogr(...)
[ FAIL 4 | WARN 4 | SKIP 23 | PASS 101 ]
Error: Test failures
In addition: Warning message:
In for (hook_name in names(hooks)) { :
closing unused connection 4 (https://srtm.csi.cgiar.org/wp-content/uploads/files/srtm_5x5/TIFF/)
Execution halted
Flavor: r-patched-linux-x86_64
Version: 0.0.1
Check: examples
Result: ERROR
Running examples in ‘mapme.biodiversity-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: accessibility
> ### Title: Calculate accessibility statistics
> ### Aliases: accessibility
> ### Keywords: indicator
>
> ### ** Examples
>
> library(sf)
Linking to GEOS 3.10.2, GDAL 3.4.2, PROJ 9.0.0; sf_use_s2() is TRUE
> library(mapme.biodiversity)
> (aoi <- system.file("extdata", "sierra_de_neiba_478140_2.gpkg", package = "mapme.biodiversity") %>%
+ read_sf() %>%
+ init_portfolio(
+ years = 2022,
+ outdir = system.file("res", package = "mapme.biodiversity"),
+ tmpdir = system.file("tmp", package = "mapme.biodiversity"),
+ add_resources = FALSE,
+ cores = 1,
+ verbose = FALSE
+ ) %>%
+ get_resources("traveltime",
+ range_traveltime = c("5k_10k", "100k_200k", "500k_1mio", "1mio_5mio")
+ ) %>%
+ calc_indicators("accessibility", stats_accessibility = c("min", "max"), engine = "extract") %>%
+ tidyr::unnest(accessibility))
Warning in CPL_write_ogr(obj, dsn, layer, driver, as.character(dataset_options), :
GDAL Error 4: sqlite3_open(/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/mapme.biodiversity/res/traveltime/tileindex_traveltime.gpkg) failed: unable to open database file
Creating dataset /home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/mapme.biodiversity/res/traveltime/tileindex_traveltime.gpkg failed.
Error in CPL_write_ogr(obj, dsn, layer, driver, as.character(dataset_options), :
Creation failed.
Calls: %>% ... write_sf -> st_write -> st_write.sf -> CPL_write_ogr
Execution halted
Flavor: r-release-linux-x86_64
Version: 0.0.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [35s/50s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(mapme.biodiversity)
> library(pbapply)
>
> pboptions(type = "none")
> test_check("mapme.biodiversity")
Argument 'vers_treecover' for resource 'treecover2000' was not specified. Setting to default value of 'GFC-2020-v1.8'.
Starting process to download resource 'treecover2000'........
Skipping existing files in output directory.
Creating dataset /home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/mapme.biodiversity/res/treecover2000/tileindex_treecover2000.gpkg failed.
Starting process to download resource 'srtmdem'........
Argument 'range_traveltime' for resource 'traveltime' was not specified. Setting to default value of '20k_50k'.
Starting process to download resource 'traveltime'........
Starting process to download resource 'traveltime'........
The selected range 'not-available' is not available ranges for traveltime Available ranges are 5k_10k, 10k_20k, 20k_50k, 50k_100k, 100k_200k, 200k_500k, 500k_1mio, 1mio_5mio, 50k_50mio, 5k_110mio, 20k_110mio.
<simpleError in .get_traveltime_url(range_traveltime, filenames): No supoorted ranges have been specified.>
<simpleWarning: Download for resource traveltime failed. Returning unmodified portfolio object.>
Starting process to download resource 'traveltime'........
The selected ranges 'not-available', 'not-available2' are not available ranges for traveltime Available ranges are 5k_10k, 10k_20k, 20k_50k, 50k_100k, 100k_200k, 200k_500k, 500k_1mio, 1mio_5mio, 50k_50mio, 5k_110mio, 20k_110mio.
<simpleError in .get_traveltime_url(range_traveltime, filenames): No supoorted ranges have been specified.>
<simpleWarning: Download for resource traveltime failed. Returning unmodified portfolio object.>
Starting process to download resource 'traveltime'........
The selected range 'not-available' is not available ranges for traveltime Available ranges are 5k_10k, 10k_20k, 20k_50k, 50k_100k, 100k_200k, 200k_500k, 500k_1mio, 1mio_5mio, 50k_50mio, 5k_110mio, 20k_110mio.
Reduced to the available range of 20k_50k.
Starting process to download resource 'greenhouse'........
Starting process to download resource 'lossyear'........
<simpleError: Wrong version specified for lossyear resource. Select one of GFC-2015-v1.3.Wrong version specified for lossyear resource. Select one of GFC-2016-v1.4.Wrong version specified for lossyear resource. Select one of GFC-2017-v1.5.Wrong version specified for lossyear resource. Select one of GFC-2018-v1.6.Wrong version specified for lossyear resource. Select one of GFC-2019-v1.7.Wrong version specified for lossyear resource. Select one of GFC-2020-v1.8.>
<simpleWarning: Download for resource lossyear failed. Returning unmodified portfolio object.>
Argument 'vers_lossyear' for resource 'lossyear' was not specified. Setting to default value of 'GFC-2020-v1.8'.
Starting process to download resource 'lossyear'........
Starting process to download resource 'treecover2000'........
Skipping existing files in output directory.
Creating dataset /home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/mapme.biodiversity/res/treecover2000/tileindex_treecover2000.gpkg failed.
Starting process to download resource 'treecover2000'........
<simpleError: Wrong version specified for treecover resource. Select one of GFC-2015-v1.3, GFC-2016-v1.4, GFC-2017-v1.5, GFC-2018-v1.6, GFC-2019-v1.7, GFC-2020-v1.8.>
<simpleWarning: Download for resource treecover2000 failed. Returning unmodified portfolio object.>
Argument 'vers_treecover' for resource 'treecover2000' was not specified. Setting to default value of 'GFC-2020-v1.8'.
Starting process to download resource 'treecover2000'........
Starting process to download resource 'worldpop'........
sh: 1: /no-valid-bin: not found
Creating dataset /home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/mapme.biodiversity/res/chirps/tileindex_chirps.gpkg failed.
The following requested resource is already available: treecover2000.
Argument 'vers_treecover' for resource 'treecover2000' was not specified. Setting to default value of 'GFC-2020-v1.8'.
Some target years are not available for treecover.
Some target years are not available for treecover.
Checking URLs for existence. This may take a while...
Checking URLs for existence. This may take a while...
Skipping existing files in output directory.
Checking URLs for existence. This may take a while...
[ FAIL 3 | WARN 3 | SKIP 23 | PASS 102 ]
══ Skipped tests ═══════════════════════════════════════════════════════════════
• On CRAN (23)
══ Failed tests ════════════════════════════════════════════════════════════════
── Error (test-calc_indicator.R:23:3): multiplication works ────────────────────
<Rcpp::exception/C++Error/error/condition>
Error in `CPL_write_ogr(obj, dsn, layer, driver, as.character(dataset_options),
as.character(layer_options), geom, dim, fids, config_options,
quiet, append, delete_dsn, delete_layer, write_geometries,
getOption("width"))`: Creation failed.
Backtrace:
▆
1. └─mapme.biodiversity::get_resources(...) at test-calc_indicator.R:23:2
2. └─mapme.biodiversity:::.get_single_resource(x, resource, ...)
3. └─sf::write_sf(footprints, dsn = tindex_file)
4. ├─sf::st_write(..., quiet = quiet, append = append, delete_layer = delete_layer)
5. └─sf:::st_write.sf(..., quiet = quiet, append = append, delete_layer = delete_layer)
6. └─sf:::CPL_write_ogr(...)
── Error (test-get_resources.R:31:3): get_resources works ──────────────────────
<Rcpp::exception/C++Error/error/condition>
Error in `CPL_write_ogr(obj, dsn, layer, driver, as.character(dataset_options),
as.character(layer_options), geom, dim, fids, config_options,
quiet, append, delete_dsn, delete_layer, write_geometries,
getOption("width"))`: Creation failed.
Backtrace:
▆
1. ├─testthat::expect_message(...) at test-get_resources.R:31:2
2. │ └─testthat:::expect_condition_matching(...)
3. │ └─testthat:::quasi_capture(...)
4. │ ├─testthat .capture(...)
5. │ │ └─base::withCallingHandlers(...)
6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
7. └─mapme.biodiversity::get_resources(...)
8. └─mapme.biodiversity:::.get_single_resource(x, resource, ...)
9. └─sf::write_sf(footprints, dsn = tindex_file)
10. ├─sf::st_write(..., quiet = quiet, append = append, delete_layer = delete_layer)
11. └─sf:::st_write.sf(..., quiet = quiet, append = append, delete_layer = delete_layer)
12. └─sf:::CPL_write_ogr(...)
── Error (test-portfolio.R:119:3): init_portfolio works ────────────────────────
<Rcpp::exception/C++Error/error/condition>
Error in `CPL_write_ogr(obj, dsn, layer, driver, as.character(dataset_options),
as.character(layer_options), geom, dim, fids, config_options,
quiet, append, delete_dsn, delete_layer, write_geometries,
getOption("width"))`: Creation failed.
Backtrace:
▆
1. ├─... %>% get_resources("chirps") at test-portfolio.R:119:2
2. └─mapme.biodiversity::get_resources(., "chirps")
3. └─mapme.biodiversity:::.get_single_resource(x, resource, ...)
4. └─sf::write_sf(footprints, dsn = tindex_file)
5. ├─sf::st_write(..., quiet = quiet, append = append, delete_layer = delete_layer)
6. └─sf:::st_write.sf(..., quiet = quiet, append = append, delete_layer = delete_layer)
7. └─sf:::CPL_write_ogr(...)
[ FAIL 3 | WARN 3 | SKIP 23 | PASS 102 ]
Error: Test failures
Execution halted
Flavor: r-release-linux-x86_64
Version: 0.0.1
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
...
--- re-building ‘terminology.Rmd’ using rmarkdown
--- finished re-building ‘terminology.Rmd’
--- re-building ‘userguide.Rmd’ using rmarkdown
Linking to GEOS 3.10.2, GDAL 3.4.2, PROJ 9.0.0; sf_use_s2() is TRUE
Attaching package: 'dplyr'
The following objects are masked from 'package:stats':
filter, lag
The following objects are masked from 'package:base':
intersect, setdiff, setequal, union
Quitting from lines 205-206 (userguide.Rmd)
Error: processing vignette 'userguide.Rmd' failed with diagnostics:
Creation failed.
--- failed re-building ‘userguide.Rmd’
SUMMARY: processing the following file failed:
‘userguide.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-release-linux-x86_64