Last updated on 2025-02-11 19:49:19 CET.
Package | ERROR | NOTE | OK |
---|---|---|---|
hydroloom | 1 | 4 | 8 |
ncdfgeom | 13 | ||
nhdplusTools | 1 | 10 | 2 |
sbtools | 2 | 11 |
Current CRAN status: ERROR: 1, NOTE: 4, OK: 8
Version: 1.1.0
Check: DESCRIPTION meta-information
Result: NOTE
Missing dependency on R >= 4.1.0 because package code uses the pipe
|> or function shorthand \(...) syntax added in R 4.1.0.
File(s) using such syntax:
‘add_divergence.R’ ‘add_levelpaths.R’ ‘add_pfafstetter.R’
‘add_streamorder-level.R’ ‘add_toids.R’ ‘disambiguate.R’
‘get_hydro_location.R’ ‘index_points_to_lines.R’
‘make_attribute_topology.R’ ‘make_index_ids.R’ ‘make_node_topology.R’
‘navigate_connected_paths.R’ ‘navigation_network.R’ ‘sort_network.R’
‘to_flownetwork.R’ ‘utils.R’
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64
Version: 1.1.0
Check: examples
Result: ERROR
Running examples in ‘hydroloom-Ex.R’ failed
The error most likely occurred in:
> ### Name: accumulate_downstream
> ### Title: Accumulate Variable Downstream
> ### Aliases: accumulate_downstream accumulate_downstream.data.frame
> ### accumulate_downstream.hy
>
> ### ** Examples
>
> x <- sf::read_sf(system.file("extdata/new_hope.gpkg", package = "hydroloom"))
Error: basic_string: construction from null is not valid
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 1.1.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [22s/14s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> # This file is part of the standard setup for testthat.
> # It is recommended that you do not modify it.
> #
> # Where should you do additional test configuration?
> # Learn more about the roles of various files in:
> # * https://r-pkgs.org/tests.html
> # * https://testthat.r-lib.org/reference/test_package.html#special-files
>
> library(testthat)
> library(hydroloom)
>
> test_check("hydroloom")
Starting 2 test processes
Error in `private$handle_error()`:
! testthat subprocess exited in file `test_add_pfafstetter.R`
Caused by error:
! R session crashed with exit code -11
Backtrace:
▆
1. └─testthat::test_check("hydroloom")
2. └─testthat::test_dir(...)
3. └─testthat:::test_files(...)
4. └─testthat:::test_files_parallel(...)
5. ├─withr::with_dir(...)
6. │ └─base::force(code)
7. ├─testthat::with_reporter(...)
8. │ └─base::tryCatch(...)
9. │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
10. │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
11. │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
12. └─testthat:::parallel_event_loop_chunky(queue, reporters, ".")
13. └─queue$poll(Inf)
14. └─base::lapply(...)
15. └─testthat (local) FUN(X[[i]], ...)
16. └─private$handle_error(msg, i)
17. └─rlang::abort(...)
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 1.1.0
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘advanced_network.Rmd’ using rmarkdown
Quitting from lines 44-52 [sort] (advanced_network.Rmd)
Error: processing vignette 'advanced_network.Rmd' failed with diagnostics:
basic_string: construction from null is not valid
--- failed re-building ‘advanced_network.Rmd’
--- re-building ‘flow-table.Rmd’ using rmarkdown
--- finished re-building ‘flow-table.Rmd’
--- re-building ‘hydroloom.Rmd’ using rmarkdown
** Processing: /data/gannet/ripley/R/packages/tests-devel/hydroloom.Rcheck/vign_test/hydroloom/vignettes/hydroloom_files/figure-html/node-1.png
384x384 pixels, 8 bits/pixel, 162 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 2469 bytes
Input file size = 3045 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 2144
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 2144
Output IDAT size = 2144 bytes (325 bytes decrease)
Output file size = 2222 bytes (823 bytes = 27.03% decrease)
** Processing: /data/gannet/ripley/R/packages/tests-devel/hydroloom.Rcheck/vign_test/hydroloom/vignettes/hydroloom_files/figure-html/node-2.png
384x384 pixels, 8 bits/pixel, 235 colors in palette
Reducing image to 8 bits/pixel, grayscale
Input IDAT size = 3578 bytes
Input file size = 4373 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 3129
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 3129
Output IDAT size = 3129 bytes (449 bytes decrease)
Output file size = 3207 bytes (1166 bytes = 26.66% decrease)
** Processing: /data/gannet/ripley/R/packages/tests-devel/hydroloom.Rcheck/vign_test/hydroloom/vignettes/hydroloom_files/figure-html/node1-1.png
288x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 7977 bytes
Input file size = 8055 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 6153
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 6153
Output IDAT size = 6153 bytes (1824 bytes decrease)
Output file size = 6231 bytes (1824 bytes = 22.64% decrease)
** Processing: /data/gannet/ripley/R/packages/tests-devel/hydroloom.Rcheck/vign_test/hydroloom/vignettes/hydroloom_files/figure-html/node2-1.png
288x384 pixels, 3x8 bits/pixel, RGB
Input IDAT size = 4574 bytes
Input file size = 4652 bytes
Trying:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 3473
zc = 9 zm = 8 zs = 1 f = 0
zc = 1 zm = 8 zs = 2 f = 0
zc = 9 zm = 8 zs = 3 f = 0
zc = 9 zm = 8 zs = 0 f = 5
zc = 9 zm = 8 zs = 1 f = 5
zc = 1 zm = 8 zs = 2 f = 5
zc = 9 zm = 8 zs = 3 f = 5
Selecting parameters:
zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 3473
Output IDAT size = 3473 bytes (1101 bytes decrease)
Output file size = 3551 bytes (1101 bytes = 23.67% decrease)
--- finished re-building ‘hydroloom.Rmd’
--- re-building ‘network_navigation.Rmd’ using rmarkdown
--- finished re-building ‘network_navigation.Rmd’
--- re-building ‘non-dendritic.Rmd’ using rmarkdown
--- finished re-building ‘non-dendritic.Rmd’
SUMMARY: processing the following file failed:
‘advanced_network.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Current CRAN status: OK: 13
Current CRAN status: ERROR: 1, NOTE: 10, OK: 2
Version: 1.3.0
Check: DESCRIPTION meta-information
Result: NOTE
Missing dependency on R >= 4.1.0 because package code uses the pipe
|> or function shorthand \(...) syntax added in R 4.1.0.
File(s) using such syntax:
‘A_nhdplusTools.R’ ‘arcrest_tools.R’ ‘get_geoconnex.R’
‘get_nhdplushr.R’ ‘index_nhdplus.R’ ‘rescale_catchments.R’
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64
Version: 1.3.0
Check: examples
Result: ERROR
Running examples in ‘nhdplusTools-Ex.R’ failed
The error most likely occurred in:
> ### Name: add_plus_network_attributes
> ### Title: Add NHDPlus Network Attributes to a provided network.
> ### Aliases: add_plus_network_attributes
>
> ### ** Examples
>
>
> source(system.file("extdata", "walker_data.R", package = "nhdplusTools"))
*** caught segfault ***
address 0xffffff08, cause 'memory not mapped'
Traceback:
1: CPL_read_ogr(dsn, layer, query, as.character(options), quiet, type, fid_column_name, drivers, wkt_filter, promote_to_multi, int64_as_string, dsn_exists, dsn_isdb, getOption("width"))
2: st_read.character(..., quiet = quiet, stringsAsFactors = stringsAsFactors, as_tibble = as_tibble)
3: st_read(..., quiet = quiet, stringsAsFactors = stringsAsFactors, as_tibble = as_tibble)
4: sf::read_sf(file.path(data_dir, f), "CatchmentSP")
5: eval(ei, envir)
6: eval(ei, envir)
7: withVisible(eval(ei, envir))
8: source(system.file("extdata", "walker_data.R", package = "nhdplusTools"))
An irrecoverable exception occurred. R is aborting now ...
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 1.3.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [20s/14s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library("testthat")
>
> test_check("nhdplusTools")
Loading required package: nhdplusTools
Starting 2 test processes
Error in `private$handle_error()`:
! testthat subprocess exited in file `test_02_subset_extras.R`
Caused by error:
! R session closed the process connection, killed
Backtrace:
▆
1. └─testthat::test_check("nhdplusTools")
2. └─testthat::test_dir(...)
3. └─testthat:::test_files(...)
4. └─testthat:::test_files_parallel(...)
5. ├─withr::with_dir(...)
6. │ └─base::force(code)
7. ├─testthat::with_reporter(...)
8. │ └─base::tryCatch(...)
9. │ └─base (local) tryCatchList(expr, classes, parentenv, handlers)
10. │ └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
11. │ └─base (local) doTryCatch(return(expr), name, parentenv, handler)
12. └─testthat:::parallel_event_loop_chunky(queue, reporters, ".")
13. └─queue$poll(Inf)
14. └─base::lapply(...)
15. └─testthat (local) FUN(X[[i]], ...)
16. └─private$handle_error(msg, i)
17. └─rlang::abort(...)
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 1.3.0
Check: installed package size
Result: NOTE
installed size is 6.5Mb
sub-directories of 1Mb or more:
data 1.6Mb
doc 4.2Mb
Flavors: r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64
Current CRAN status: NOTE: 2, OK: 11
Version: 1.3.2
Check: for unstated dependencies in ‘demo’
Result: NOTE
'library' or 'require' calls not declared from:
‘maps’ ‘sp’
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc