CRAN Package Check Results for Maintainer ‘David Blodgett <dblodgett at usgs.gov>’

Last updated on 2025-12-19 23:50:20 CET.

Package	ERROR	OK
hydroloom	3	10
ncdfgeom		13
nhdplusTools	1	12
sbtools		13

Package hydroloom

Current CRAN status: ERROR: 3, OK: 10

Version: 1.1.1
Check: examples
Result: ERROR Running examples in ‘hydroloom-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: disambiguate_indexes > ### Title: Disambiguate Flowline Indexes > ### Aliases: disambiguate_indexes > > ### ** Examples > > if(require(nhdplusTools)) { + source(system.file("extdata", "sample_flines.R", package = "nhdplusTools")) + + hydro_location <- sf::st_sf(id = c(1, 2, 3), + geom = sf::st_sfc(list(sf::st_point(c(-76.86934, 39.49328)), + sf::st_point(c(-76.91711, 39.40884)), + sf::st_point(c(-76.88081, 39.36354))), + crs = 4326), + totda = c(23.6, 7.3, 427.9), + nameid = c("Patapsco", "", "Falls Run River")) + + indexes <- index_points_to_lines(sample_flines, + hydro_location, + search_radius = units::set_units(0.2, "degrees"), + max_matches = 10) + + disambiguate_indexes(indexes, + dplyr::select(sample_flines, COMID, TotDASqKM), + dplyr::select(hydro_location, id, totda)) + + result <- disambiguate_indexes(indexes, + dplyr::select(sample_flines, COMID, GNIS_NAME), + dplyr::select(hydro_location, id, nameid)) + + result[result$point_id == 1, ] + + result[result$point_id == 2, ] + + result[result$point_id == 3, ] + } Loading required package: nhdplusTools Attaching package: ‘nhdplusTools’ The following object is masked from ‘package:hydroloom’: make_node_topology Warning in index_points_to_lines.hy(x, points, search_radius = search_radius, : converting to LINESTRING, this may be slow, check results Error in `[.data.table`(matched, , `:=`(N, seq_len(.N)), by = list(point_id)) : attempt access index 4/4 in VECTOR_ELT Calls: index_points_to_lines ... index_points_to_lines.hy -> left_join -> matcher_dt -> [ -> [.data.table Execution halted Flavor: r-devel-linux-x86_64-debian-gcc

Version: 1.1.1
Check: tests
Result: ERROR Running ‘testthat.R’ [47s/25s] 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. > test_check_hy_graph.R: | | | 0% > test_check_hy_graph.R: | |========================================================== | 83% > test_check_hy_graph.R: found loop at 3 > test_check_hy_graph.R: found loop at 3 > test_check_hy_graph.R: found loop at 3 > test_check_hy_graph.R: | | | 0% > test_check_hy_graph.R: | |========================================================== | 83% > test_check_hy_graph.R: found loop at 3 > test_check_hy_graph.R: | | | 0% | |=================================== | 50% > test_check_hy_graph.R: | | | 0% | |=================================== | 50% > test_check_hy_graph.R: | | | 0% | |======================================================================| 100% > test_check_hy_graph.R: | | | 0% | |======================================================================| 100% > test_check_hy_graph.R: | | | 0% | |========= | 13% > test_check_hy_graph.R: | |=================== | 27% > test_check_hy_graph.R: | |============================ | 40% > test_check_hy_graph.R: | |====================================== | 54% > test_check_hy_graph.R: | |=============================================== | 67% > test_check_hy_graph.R: | |======================================================== | 80% > test_check_hy_graph.R: | |================================================================== | 94% | |======================================================================| 100% > test_check_hy_graph.R: | | | 0% > test_check_hy_graph.R: | |===== | 8% > test_check_hy_graph.R: | |=========== | 15% > test_check_hy_graph.R: | |================ | 23% > test_check_hy_graph.R: | |===================== | 30% > test_check_hy_graph.R: | |========================== | 38% > test_check_hy_graph.R: | > test_check_hy_graph.R: |================================ | 45% > test_check_hy_graph.R: | |===================================== | 53% > test_check_hy_graph.R: | |========================================== | 60% > test_check_hy_graph.R: | > test_check_hy_graph.R: |=============================================== | 68% > test_check_hy_graph.R: | |===================================================== | 75% > test_check_hy_graph.R: | |========================================================== | 83% > test_check_hy_graph.R: | > test_check_hy_graph.R: |=============================================================== | 90% > test_check_hy_graph.R: | |===================================================================== | 98% | |======================================================================| 100% > test_check_hy_graph.R: | | | 0% > test_check_hy_graph.R: | |========= | 13% > test_check_hy_graph.R: | |================== | 26% > test_check_hy_graph.R: | |=========================== | 38% > test_check_hy_graph.R: | |==================================== | 51% > test_check_hy_graph.R: | |============================================= | 64% > test_check_hy_graph.R: | |====================================================== | 77% > test_check_hy_graph.R: | |=============================================================== | 90% > test_check_hy_graph.R: | |======================================================================| 100% > test_check_hy_graph.R: | | | 0% | |======================================================================| 100% Saving _problems/test_get_hydro_location-13.R > test_hydroloom.R: no hy class attribute > test_hydroloom.R: some na toids > test_hydroloom.R: no original names attribute > test_hydroloom.R: no hy class attribute Saving _problems/test_index-17.R Saving _problems/test_index-77.R Saving _problems/test_index-132.R Saving _problems/test_index-156.R Saving _problems/test_index-211.R Saving _problems/test_index-245.R Saving _problems/test_index-269.R [ FAIL 8 | WARN 4 | SKIP 1 | PASS 343 ] ══ Skipped tests (1) ═══════════════════════════════════════════════════════════ • On CRAN (1): 'test_add_levelpaths.R:158:3' ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test_get_hydro_location.R:13:3'): get location ────────────────────── Error in ``[.data.table`(matched, , `:=`(N, seq_len(.N)), by = list(point_id))`: attempt access index 4/4 in VECTOR_ELT Backtrace: ▆ 1. ├─hydroloom::index_points_to_lines(sample_flines, points) at test_get_hydro_location.R:13:3 2. └─hydroloom:::index_points_to_lines.data.frame(sample_flines, points) 3. ├─hydroloom::index_points_to_lines(...) 4. └─hydroloom:::index_points_to_lines.hy(...) 5. ├─dplyr::left_join(...) 6. └─hydroloom:::matcher_dt(x, points, search_radius, max_matches = max_matches) 7. ├─matched[, `:=`(N, seq_len(.N)), by = list(point_id)] 8. └─data.table:::`[.data.table`(...) ── Error ('test_index.R:16:3'): index to waterbodies ─────────────────────────── Error in ``[.data.table`(matched, , `:=`(N, seq_len(.N)), by = list(point_id))`: attempt access index 4/4 in VECTOR_ELT Backtrace: ▆ 1. ├─testthat::expect_warning(...) at test_index.R:16:3 2. │ └─testthat:::expect_condition_matching_(...) 3. │ └─testthat:::quasi_capture(...) 4. │ ├─testthat (local) .capture(...) 5. │ │ └─base::withCallingHandlers(...) 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) 7. └─hydroloom::index_points_to_waterbodies(wb, gage_l) 8. └─hydroloom:::matcher_dt(waterbodies, st_coordinates(points), search_radius) 9. ├─matched[, `:=`(N, seq_len(.N)), by = list(point_id)] 10. └─data.table:::`[.data.table`(...) ── Error ('test_index.R:72:3'): point indexing to nearest existing node works as expected ── Error in ``[.data.table`(matched, , `:=`(N, seq_len(.N)), by = list(point_id))`: attempt access index 4/4 in VECTOR_ELT Backtrace: ▆ 1. ├─testthat::expect_equal(...) at test_index.R:72:3 2. │ └─testthat::quasi_label(enquo(object), label) 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) 4. ├─hydroloom::index_points_to_lines(flines_in, point) 5. └─hydroloom:::index_points_to_lines.data.frame(flines_in, point) 6. ├─hydroloom::index_points_to_lines(...) 7. └─hydroloom:::index_points_to_lines.hy(...) 8. ├─dplyr::left_join(...) 9. └─hydroloom:::matcher_dt(x, points, search_radius, max_matches = max_matches) 10. ├─matched[, `:=`(N, seq_len(.N)), by = list(point_id)] 11. └─data.table:::`[.data.table`(...) ── Error ('test_index.R:128:5'): point indexing works without measures ───────── Error in ``[.data.table`(matched, , `:=`(N, seq_len(.N)), by = list(point_id))`: attempt access index 4/4 in VECTOR_ELT Backtrace: ▆ 1. ├─testthat::expect_equal(...) at test_index.R:128:5 2. │ └─testthat::quasi_label(enquo(object), label) 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) 4. ├─hydroloom::index_points_to_lines(flines_in, point) 5. └─hydroloom:::index_points_to_lines.data.frame(flines_in, point) 6. ├─hydroloom::index_points_to_lines(...) 7. └─hydroloom:::index_points_to_lines.hy(...) 8. ├─dplyr::left_join(...) 9. └─hydroloom:::matcher_dt(x, points, search_radius, max_matches = max_matches) 10. ├─matched[, `:=`(N, seq_len(.N)), by = list(point_id)] 11. └─data.table:::`[.data.table`(...) ── Error ('test_index.R:147:3'): point indexing to for multiple points works ─── Error in ``[.data.table`(matched, , `:=`(N, seq_len(.N)), by = list(point_id))`: attempt access index 4/4 in VECTOR_ELT Backtrace: ▆ 1. ├─testthat::expect_equal(...) at test_index.R:147:3 2. │ └─testthat::quasi_label(enquo(object), label) 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) 4. ├─hydroloom::index_points_to_lines(flines_in, point, search_radius = sr) 5. └─hydroloom:::index_points_to_lines.data.frame(...) 6. ├─hydroloom::index_points_to_lines(...) 7. └─hydroloom:::index_points_to_lines.hy(...) 8. ├─dplyr::left_join(...) 9. └─hydroloom:::matcher_dt(x, points, search_radius, max_matches = max_matches) 10. ├─matched[, `:=`(N, seq_len(.N)), by = list(point_id)] 11. └─data.table:::`[.data.table`(...) ── Error ('test_index.R:210:3'): multipart indexing ──────────────────────────── Error in ``[.data.table`(matched, , `:=`(N, seq_len(.N)), by = list(point_id))`: attempt access index 4/4 in VECTOR_ELT Backtrace: ▆ 1. ├─testthat::capture_warnings(...) at test_index.R:210:3 2. │ └─base::withCallingHandlers(...) 3. ├─hydroloom::index_points_to_lines(lines, points, search_radius = 500) 4. └─hydroloom:::index_points_to_lines.data.frame(lines, points, search_radius = 500) 5. ├─hydroloom::index_points_to_lines(...) 6. └─hydroloom:::index_points_to_lines.hy(...) 7. ├─dplyr::left_join(...) 8. └─hydroloom:::matcher_dt(x, points, search_radius, max_matches = max_matches) 9. ├─matched[, `:=`(N, seq_len(.N)), by = list(point_id)] 10. └─data.table:::`[.data.table`(...) ── Error ('test_index.R:241:3'): no duplicates when using precision ──────────── Error in ``[.data.table`(matched, , `:=`(N, seq_len(.N)), by = list(point_id))`: attempt access index 4/4 in VECTOR_ELT Backtrace: ▆ 1. ├─dplyr::filter(...) at test_index.R:241:3 2. ├─hydroloom::index_points_to_lines(...) 3. └─hydroloom:::index_points_to_lines.data.frame(...) 4. ├─hydroloom::index_points_to_lines(...) 5. └─hydroloom:::index_points_to_lines.hy(...) 6. ├─dplyr::left_join(...) 7. └─hydroloom:::matcher_dt(x, points, search_radius, max_matches = max_matches) 8. ├─matched[, `:=`(N, seq_len(.N)), by = list(point_id)] 9. └─data.table:::`[.data.table`(...) ── Error ('test_index.R:266:3'): disambiguate ────────────────────────────────── Error in ``[.data.table`(matched, , `:=`(N, seq_len(.N)), by = list(point_id))`: attempt access index 4/4 in VECTOR_ELT Backtrace: ▆ 1. ├─hydroloom::index_points_to_lines(...) at test_index.R:266:3 2. └─hydroloom:::index_points_to_lines.data.frame(...) 3. ├─hydroloom::index_points_to_lines(...) 4. └─hydroloom:::index_points_to_lines.hy(...) 5. ├─dplyr::left_join(...) 6. └─hydroloom:::matcher_dt(x, points, search_radius, max_matches = max_matches) 7. ├─matched[, `:=`(N, seq_len(.N)), by = list(point_id)] 8. └─data.table:::`[.data.table`(...) [ FAIL 8 | WARN 4 | SKIP 1 | PASS 343 ] Error: ! Test failures. Execution halted Flavor: r-devel-linux-x86_64-debian-gcc

Version: 1.1.1
Check: examples
Result: ERROR Running examples in ‘hydroloom-Ex.R’ failed The error most likely occurred in: > ### Name: disambiguate_indexes > ### Title: Disambiguate Flowline Indexes > ### Aliases: disambiguate_indexes > > ### ** Examples > > if(require(nhdplusTools)) { + source(system.file("extdata", "sample_flines.R", package = "nhdplusTools")) + + hydro_location <- sf::st_sf(id = c(1, 2, 3), + geom = sf::st_sfc(list(sf::st_point(c(-76.86934, 39.49328)), + sf::st_point(c(-76.91711, 39.40884)), + sf::st_point(c(-76.88081, 39.36354))), + crs = 4326), + totda = c(23.6, 7.3, 427.9), + nameid = c("Patapsco", "", "Falls Run River")) + + indexes <- index_points_to_lines(sample_flines, + hydro_location, + search_radius = units::set_units(0.2, "degrees"), + max_matches = 10) + + disambiguate_indexes(indexes, + dplyr::select(sample_flines, COMID, TotDASqKM), + dplyr::select(hydro_location, id, totda)) + + result <- disambiguate_indexes(indexes, + dplyr::select(sample_flines, COMID, GNIS_NAME), + dplyr::select(hydro_location, id, nameid)) + + result[result$point_id == 1, ] + + result[result$point_id == 2, ] + + result[result$point_id == 3, ] + } Loading required package: nhdplusTools Attaching package: ‘nhdplusTools’ The following object is masked from ‘package:hydroloom’: make_node_topology Warning in index_points_to_lines.hy(x, points, search_radius = search_radius, : converting to LINESTRING, this may be slow, check results Error in `[.data.table`(matched, , `:=`(N, seq_len(.N)), by = list(point_id)) : attempt access index 4/4 in VECTOR_ELT Calls: index_points_to_lines ... index_points_to_lines.hy -> left_join -> matcher_dt -> [ -> [.data.table Execution halted Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc

Version: 1.1.1
Check: tests
Result: ERROR Running ‘testthat.R’ [137s/113s] 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. > test_check_hy_graph.R: | > test_check_hy_graph.R: | | 0% > test_check_hy_graph.R: found loop at 3 > test_check_hy_graph.R: found loop at 3 > test_check_hy_graph.R: | |========================================================== | 83% > test_check_hy_graph.R: | | | 0% > test_check_hy_graph.R: | |========================================================== | 83% > test_check_hy_graph.R: found loop at 3 > test_check_hy_graph.R: found loop at 3 > test_check_hy_graph.R: | | | 0% > test_check_hy_graph.R: | |=================================== | 50% > test_check_hy_graph.R: | > test_check_hy_graph.R: | | 0% | |=================================== | 50% > test_check_hy_graph.R: | > test_check_hy_graph.R: | | 0% | |======================================================================| 100% > test_check_hy_graph.R: | | | 0% > test_check_hy_graph.R: | |======================================================================| 100% > test_check_hy_graph.R: | > test_check_hy_graph.R: | | 0% > test_check_hy_graph.R: | |========= | 13% > test_check_hy_graph.R: | |=================== | 27% > test_check_hy_graph.R: | > test_check_hy_graph.R: |============================ | 40% > test_check_hy_graph.R: | > test_check_hy_graph.R: |====================================== | 54% > test_check_hy_graph.R: | |=============================================== | 67% > test_check_hy_graph.R: | > test_check_hy_graph.R: |======================================================== | 80% > test_check_hy_graph.R: | > test_check_hy_graph.R: |================================================================== | 94% > test_check_hy_graph.R: | > test_check_hy_graph.R: |======================================================================| 100% > test_check_hy_graph.R: | | | 0% > test_check_hy_graph.R: | > test_check_hy_graph.R: |===== | 8% > test_check_hy_graph.R: | > test_check_hy_graph.R: |=========== | 15% > test_check_hy_graph.R: | > test_check_hy_graph.R: |================ | 23% > test_check_hy_graph.R: | |===================== | 30% > test_check_hy_graph.R: | |========================== | 38% > test_check_hy_graph.R: | |================================ | 45% > test_check_hy_graph.R: | |===================================== | 53% > test_check_hy_graph.R: | |========================================== | 60% > test_check_hy_graph.R: | |=============================================== | 68% > test_check_hy_graph.R: | |===================================================== | 75% > test_check_hy_graph.R: | > test_check_hy_graph.R: |========================================================== | 83% > test_check_hy_graph.R: | > test_check_hy_graph.R: |=============================================================== | 90% > test_check_hy_graph.R: | > test_check_hy_graph.R: |===================================================================== | 98% > test_check_hy_graph.R: | |======================================================================| 100% > test_check_hy_graph.R: | | | 0% > test_check_hy_graph.R: | > test_check_hy_graph.R: |========= | 13% > test_check_hy_graph.R: | |================== | 26% > test_check_hy_graph.R: | |=========================== | 38% > test_check_hy_graph.R: | > test_check_hy_graph.R: |==================================== | 51% > test_check_hy_graph.R: | |============================================= | 64% > test_check_hy_graph.R: | > test_check_hy_graph.R: |====================================================== | 77% > test_check_hy_graph.R: | |=============================================================== | 90% > test_check_hy_graph.R: | |======================================================================| 100% > test_check_hy_graph.R: | | | 0% > test_check_hy_graph.R: | |======================================================================| 100% Saving _problems/test_get_hydro_location-13.R > test_hydroloom.R: no hy class attribute > test_hydroloom.R: some na toids > test_hydroloom.R: no original names attribute > test_hydroloom.R: no hy class attribute Saving _problems/test_index-17.R Saving _problems/test_index-77.R Saving _problems/test_index-132.R Saving _problems/test_index-156.R Saving _problems/test_index-211.R Saving _problems/test_index-245.R Saving _problems/test_index-269.R [ FAIL 8 | WARN 4 | SKIP 1 | PASS 343 ] ══ Skipped tests (1) ═══════════════════════════════════════════════════════════ • On CRAN (1): 'test_add_levelpaths.R:158:3' ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test_get_hydro_location.R:13:3'): get location ────────────────────── Error in ``[.data.table`(matched, , `:=`(N, seq_len(.N)), by = list(point_id))`: attempt access index 4/4 in VECTOR_ELT Backtrace: ▆ 1. ├─hydroloom::index_points_to_lines(sample_flines, points) at test_get_hydro_location.R:13:3 2. └─hydroloom:::index_points_to_lines.data.frame(sample_flines, points) 3. ├─hydroloom::index_points_to_lines(...) 4. └─hydroloom:::index_points_to_lines.hy(...) 5. ├─dplyr::left_join(...) 6. └─hydroloom:::matcher_dt(x, points, search_radius, max_matches = max_matches) 7. ├─matched[, `:=`(N, seq_len(.N)), by = list(point_id)] 8. └─data.table:::`[.data.table`(...) ── Error ('test_index.R:16:3'): index to waterbodies ─────────────────────────── Error in ``[.data.table`(matched, , `:=`(N, seq_len(.N)), by = list(point_id))`: attempt access index 4/4 in VECTOR_ELT Backtrace: ▆ 1. ├─testthat::expect_warning(...) at test_index.R:16:3 2. │ └─testthat:::expect_condition_matching_(...) 3. │ └─testthat:::quasi_capture(...) 4. │ ├─testthat (local) .capture(...) 5. │ │ └─base::withCallingHandlers(...) 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) 7. └─hydroloom::index_points_to_waterbodies(wb, gage_l) 8. └─hydroloom:::matcher_dt(waterbodies, st_coordinates(points), search_radius) 9. ├─matched[, `:=`(N, seq_len(.N)), by = list(point_id)] 10. └─data.table:::`[.data.table`(...) ── Error ('test_index.R:72:3'): point indexing to nearest existing node works as expected ── Error in ``[.data.table`(matched, , `:=`(N, seq_len(.N)), by = list(point_id))`: attempt access index 4/4 in VECTOR_ELT Backtrace: ▆ 1. ├─testthat::expect_equal(...) at test_index.R:72:3 2. │ └─testthat::quasi_label(enquo(object), label) 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) 4. ├─hydroloom::index_points_to_lines(flines_in, point) 5. └─hydroloom:::index_points_to_lines.data.frame(flines_in, point) 6. ├─hydroloom::index_points_to_lines(...) 7. └─hydroloom:::index_points_to_lines.hy(...) 8. ├─dplyr::left_join(...) 9. └─hydroloom:::matcher_dt(x, points, search_radius, max_matches = max_matches) 10. ├─matched[, `:=`(N, seq_len(.N)), by = list(point_id)] 11. └─data.table:::`[.data.table`(...) ── Error ('test_index.R:128:5'): point indexing works without measures ───────── Error in ``[.data.table`(matched, , `:=`(N, seq_len(.N)), by = list(point_id))`: attempt access index 4/4 in VECTOR_ELT Backtrace: ▆ 1. ├─testthat::expect_equal(...) at test_index.R:128:5 2. │ └─testthat::quasi_label(enquo(object), label) 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) 4. ├─hydroloom::index_points_to_lines(flines_in, point) 5. └─hydroloom:::index_points_to_lines.data.frame(flines_in, point) 6. ├─hydroloom::index_points_to_lines(...) 7. └─hydroloom:::index_points_to_lines.hy(...) 8. ├─dplyr::left_join(...) 9. └─hydroloom:::matcher_dt(x, points, search_radius, max_matches = max_matches) 10. ├─matched[, `:=`(N, seq_len(.N)), by = list(point_id)] 11. └─data.table:::`[.data.table`(...) ── Error ('test_index.R:147:3'): point indexing to for multiple points works ─── Error in ``[.data.table`(matched, , `:=`(N, seq_len(.N)), by = list(point_id))`: attempt access index 4/4 in VECTOR_ELT Backtrace: ▆ 1. ├─testthat::expect_equal(...) at test_index.R:147:3 2. │ └─testthat::quasi_label(enquo(object), label) 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) 4. ├─hydroloom::index_points_to_lines(flines_in, point, search_radius = sr) 5. └─hydroloom:::index_points_to_lines.data.frame(...) 6. ├─hydroloom::index_points_to_lines(...) 7. └─hydroloom:::index_points_to_lines.hy(...) 8. ├─dplyr::left_join(...) 9. └─hydroloom:::matcher_dt(x, points, search_radius, max_matches = max_matches) 10. ├─matched[, `:=`(N, seq_len(.N)), by = list(point_id)] 11. └─data.table:::`[.data.table`(...) ── Error ('test_index.R:210:3'): multipart indexing ──────────────────────────── Error in ``[.data.table`(matched, , `:=`(N, seq_len(.N)), by = list(point_id))`: attempt access index 4/4 in VECTOR_ELT Backtrace: ▆ 1. ├─testthat::capture_warnings(...) at test_index.R:210:3 2. │ └─base::withCallingHandlers(...) 3. ├─hydroloom::index_points_to_lines(lines, points, search_radius = 500) 4. └─hydroloom:::index_points_to_lines.data.frame(lines, points, search_radius = 500) 5. ├─hydroloom::index_points_to_lines(...) 6. └─hydroloom:::index_points_to_lines.hy(...) 7. ├─dplyr::left_join(...) 8. └─hydroloom:::matcher_dt(x, points, search_radius, max_matches = max_matches) 9. ├─matched[, `:=`(N, seq_len(.N)), by = list(point_id)] 10. └─data.table:::`[.data.table`(...) ── Error ('test_index.R:241:3'): no duplicates when using precision ──────────── Error in ``[.data.table`(matched, , `:=`(N, seq_len(.N)), by = list(point_id))`: attempt access index 4/4 in VECTOR_ELT Backtrace: ▆ 1. ├─dplyr::filter(...) at test_index.R:241:3 2. ├─hydroloom::index_points_to_lines(...) 3. └─hydroloom:::index_points_to_lines.data.frame(...) 4. ├─hydroloom::index_points_to_lines(...) 5. └─hydroloom:::index_points_to_lines.hy(...) 6. ├─dplyr::left_join(...) 7. └─hydroloom:::matcher_dt(x, points, search_radius, max_matches = max_matches) 8. ├─matched[, `:=`(N, seq_len(.N)), by = list(point_id)] 9. └─data.table:::`[.data.table`(...) ── Error ('test_index.R:266:3'): disambiguate ────────────────────────────────── Error in ``[.data.table`(matched, , `:=`(N, seq_len(.N)), by = list(point_id))`: attempt access index 4/4 in VECTOR_ELT Backtrace: ▆ 1. ├─hydroloom::index_points_to_lines(...) at test_index.R:266:3 2. └─hydroloom:::index_points_to_lines.data.frame(...) 3. ├─hydroloom::index_points_to_lines(...) 4. └─hydroloom:::index_points_to_lines.hy(...) 5. ├─dplyr::left_join(...) 6. └─hydroloom:::matcher_dt(x, points, search_radius, max_matches = max_matches) 7. ├─matched[, `:=`(N, seq_len(.N)), by = list(point_id)] 8. └─data.table:::`[.data.table`(...) [ FAIL 8 | WARN 4 | SKIP 1 | PASS 343 ] Error: ! Test failures. Execution halted Flavor: r-devel-linux-x86_64-fedora-clang

Version: 1.1.1
Check: tests
Result: ERROR Running ‘testthat.R’ [123s/94s] 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. > test_check_hy_graph.R: | | | 0% > test_check_hy_graph.R: found loop at 3 > test_check_hy_graph.R: | |========================================================== | 83% > test_check_hy_graph.R: found loop at 3 > test_check_hy_graph.R: | > test_check_hy_graph.R: found loop at 3 > test_check_hy_graph.R: found loop at 3 > test_check_hy_graph.R: | | 0% > test_check_hy_graph.R: | |========================================================== | 83% > test_check_hy_graph.R: | | | 0% > test_check_hy_graph.R: | |=================================== | 50% > test_check_hy_graph.R: | | | 0% | |=================================== | 50% > test_check_hy_graph.R: | | | 0% | |======================================================================| 100% > test_check_hy_graph.R: | | | 0% | |======================================================================| 100% > test_check_hy_graph.R: | > test_check_hy_graph.R: | | 0% > test_check_hy_graph.R: | > test_check_hy_graph.R: |========= | 13% > test_check_hy_graph.R: | |=================== | 27% > test_check_hy_graph.R: | |============================ | 40% > test_check_hy_graph.R: | |====================================== | 54% > test_check_hy_graph.R: | |=============================================== | 67% > test_check_hy_graph.R: | |======================================================== | 80% > test_check_hy_graph.R: | > test_check_hy_graph.R: |================================================================== | 94% > test_check_hy_graph.R: | |======================================================================| 100% > test_check_hy_graph.R: | > test_check_hy_graph.R: | | 0% > test_check_hy_graph.R: | > test_check_hy_graph.R: |===== | 8% > test_check_hy_graph.R: | |=========== | 15% > test_check_hy_graph.R: | |================ | 23% > test_check_hy_graph.R: | > test_check_hy_graph.R: |===================== | 30% > test_check_hy_graph.R: | > test_check_hy_graph.R: |========================== | 38% > test_check_hy_graph.R: | > test_check_hy_graph.R: |================================ | 45% > test_check_hy_graph.R: | > test_check_hy_graph.R: |===================================== | 53% > test_check_hy_graph.R: | > test_check_hy_graph.R: |========================================== | 60% > test_check_hy_graph.R: | |=============================================== | 68% > test_check_hy_graph.R: | > test_check_hy_graph.R: |===================================================== | 75% > test_check_hy_graph.R: | > test_check_hy_graph.R: |========================================================== | 83% > test_check_hy_graph.R: | > test_check_hy_graph.R: |=============================================================== | 90% > test_check_hy_graph.R: | > test_check_hy_graph.R: |===================================================================== | 98% > test_check_hy_graph.R: | > test_check_hy_graph.R: |======================================================================| 100% > test_check_hy_graph.R: > test_check_hy_graph.R: | | | 0% > test_check_hy_graph.R: | > test_check_hy_graph.R: |========= | 13% > test_check_hy_graph.R: | > test_check_hy_graph.R: |================== | 26% > test_check_hy_graph.R: | > test_check_hy_graph.R: |=========================== | 38% > test_check_hy_graph.R: | > test_check_hy_graph.R: |==================================== | 51% > test_check_hy_graph.R: | > test_check_hy_graph.R: |============================================= | 64% > test_check_hy_graph.R: | |====================================================== | 77% > test_check_hy_graph.R: | |=============================================================== | 90% > test_check_hy_graph.R: | > test_check_hy_graph.R: |======================================================================| 100% > test_check_hy_graph.R: | | | 0% > test_check_hy_graph.R: | > test_check_hy_graph.R: |======================================================================| 100% Saving _problems/test_get_hydro_location-13.R > test_hydroloom.R: no hy class attribute > test_hydroloom.R: some na toids > test_hydroloom.R: no original names attribute > test_hydroloom.R: no hy class attribute Saving _problems/test_index-17.R Saving _problems/test_index-77.R Saving _problems/test_index-132.R Saving _problems/test_index-156.R Saving _problems/test_index-211.R Saving _problems/test_index-245.R Saving _problems/test_index-269.R [ FAIL 8 | WARN 4 | SKIP 1 | PASS 343 ] ══ Skipped tests (1) ═══════════════════════════════════════════════════════════ • On CRAN (1): 'test_add_levelpaths.R:158:3' ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test_get_hydro_location.R:13:3'): get location ────────────────────── Error in ``[.data.table`(matched, , `:=`(N, seq_len(.N)), by = list(point_id))`: attempt access index 4/4 in VECTOR_ELT Backtrace: ▆ 1. ├─hydroloom::index_points_to_lines(sample_flines, points) at test_get_hydro_location.R:13:3 2. └─hydroloom:::index_points_to_lines.data.frame(sample_flines, points) 3. ├─hydroloom::index_points_to_lines(...) 4. └─hydroloom:::index_points_to_lines.hy(...) 5. ├─dplyr::left_join(...) 6. └─hydroloom:::matcher_dt(x, points, search_radius, max_matches = max_matches) 7. ├─matched[, `:=`(N, seq_len(.N)), by = list(point_id)] 8. └─data.table:::`[.data.table`(...) ── Error ('test_index.R:16:3'): index to waterbodies ─────────────────────────── Error in ``[.data.table`(matched, , `:=`(N, seq_len(.N)), by = list(point_id))`: attempt access index 4/4 in VECTOR_ELT Backtrace: ▆ 1. ├─testthat::expect_warning(...) at test_index.R:16:3 2. │ └─testthat:::expect_condition_matching_(...) 3. │ └─testthat:::quasi_capture(...) 4. │ ├─testthat (local) .capture(...) 5. │ │ └─base::withCallingHandlers(...) 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) 7. └─hydroloom::index_points_to_waterbodies(wb, gage_l) 8. └─hydroloom:::matcher_dt(waterbodies, st_coordinates(points), search_radius) 9. ├─matched[, `:=`(N, seq_len(.N)), by = list(point_id)] 10. └─data.table:::`[.data.table`(...) ── Error ('test_index.R:72:3'): point indexing to nearest existing node works as expected ── Error in ``[.data.table`(matched, , `:=`(N, seq_len(.N)), by = list(point_id))`: attempt access index 4/4 in VECTOR_ELT Backtrace: ▆ 1. ├─testthat::expect_equal(...) at test_index.R:72:3 2. │ └─testthat::quasi_label(enquo(object), label) 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) 4. ├─hydroloom::index_points_to_lines(flines_in, point) 5. └─hydroloom:::index_points_to_lines.data.frame(flines_in, point) 6. ├─hydroloom::index_points_to_lines(...) 7. └─hydroloom:::index_points_to_lines.hy(...) 8. ├─dplyr::left_join(...) 9. └─hydroloom:::matcher_dt(x, points, search_radius, max_matches = max_matches) 10. ├─matched[, `:=`(N, seq_len(.N)), by = list(point_id)] 11. └─data.table:::`[.data.table`(...) ── Error ('test_index.R:128:5'): point indexing works without measures ───────── Error in ``[.data.table`(matched, , `:=`(N, seq_len(.N)), by = list(point_id))`: attempt access index 4/4 in VECTOR_ELT Backtrace: ▆ 1. ├─testthat::expect_equal(...) at test_index.R:128:5 2. │ └─testthat::quasi_label(enquo(object), label) 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) 4. ├─hydroloom::index_points_to_lines(flines_in, point) 5. └─hydroloom:::index_points_to_lines.data.frame(flines_in, point) 6. ├─hydroloom::index_points_to_lines(...) 7. └─hydroloom:::index_points_to_lines.hy(...) 8. ├─dplyr::left_join(...) 9. └─hydroloom:::matcher_dt(x, points, search_radius, max_matches = max_matches) 10. ├─matched[, `:=`(N, seq_len(.N)), by = list(point_id)] 11. └─data.table:::`[.data.table`(...) ── Error ('test_index.R:147:3'): point indexing to for multiple points works ─── Error in ``[.data.table`(matched, , `:=`(N, seq_len(.N)), by = list(point_id))`: attempt access index 4/4 in VECTOR_ELT Backtrace: ▆ 1. ├─testthat::expect_equal(...) at test_index.R:147:3 2. │ └─testthat::quasi_label(enquo(object), label) 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) 4. ├─hydroloom::index_points_to_lines(flines_in, point, search_radius = sr) 5. └─hydroloom:::index_points_to_lines.data.frame(...) 6. ├─hydroloom::index_points_to_lines(...) 7. └─hydroloom:::index_points_to_lines.hy(...) 8. ├─dplyr::left_join(...) 9. └─hydroloom:::matcher_dt(x, points, search_radius, max_matches = max_matches) 10. ├─matched[, `:=`(N, seq_len(.N)), by = list(point_id)] 11. └─data.table:::`[.data.table`(...) ── Error ('test_index.R:210:3'): multipart indexing ──────────────────────────── Error in ``[.data.table`(matched, , `:=`(N, seq_len(.N)), by = list(point_id))`: attempt access index 4/4 in VECTOR_ELT Backtrace: ▆ 1. ├─testthat::capture_warnings(...) at test_index.R:210:3 2. │ └─base::withCallingHandlers(...) 3. ├─hydroloom::index_points_to_lines(lines, points, search_radius = 500) 4. └─hydroloom:::index_points_to_lines.data.frame(lines, points, search_radius = 500) 5. ├─hydroloom::index_points_to_lines(...) 6. └─hydroloom:::index_points_to_lines.hy(...) 7. ├─dplyr::left_join(...) 8. └─hydroloom:::matcher_dt(x, points, search_radius, max_matches = max_matches) 9. ├─matched[, `:=`(N, seq_len(.N)), by = list(point_id)] 10. └─data.table:::`[.data.table`(...) ── Error ('test_index.R:241:3'): no duplicates when using precision ──────────── Error in ``[.data.table`(matched, , `:=`(N, seq_len(.N)), by = list(point_id))`: attempt access index 4/4 in VECTOR_ELT Backtrace: ▆ 1. ├─dplyr::filter(...) at test_index.R:241:3 2. ├─hydroloom::index_points_to_lines(...) 3. └─hydroloom:::index_points_to_lines.data.frame(...) 4. ├─hydroloom::index_points_to_lines(...) 5. └─hydroloom:::index_points_to_lines.hy(...) 6. ├─dplyr::left_join(...) 7. └─hydroloom:::matcher_dt(x, points, search_radius, max_matches = max_matches) 8. ├─matched[, `:=`(N, seq_len(.N)), by = list(point_id)] 9. └─data.table:::`[.data.table`(...) ── Error ('test_index.R:266:3'): disambiguate ────────────────────────────────── Error in ``[.data.table`(matched, , `:=`(N, seq_len(.N)), by = list(point_id))`: attempt access index 4/4 in VECTOR_ELT Backtrace: ▆ 1. ├─hydroloom::index_points_to_lines(...) at test_index.R:266:3 2. └─hydroloom:::index_points_to_lines.data.frame(...) 3. ├─hydroloom::index_points_to_lines(...) 4. └─hydroloom:::index_points_to_lines.hy(...) 5. ├─dplyr::left_join(...) 6. └─hydroloom:::matcher_dt(x, points, search_radius, max_matches = max_matches) 7. ├─matched[, `:=`(N, seq_len(.N)), by = list(point_id)] 8. └─data.table:::`[.data.table`(...) [ FAIL 8 | WARN 4 | SKIP 1 | PASS 343 ] Error: ! Test failures. Execution halted Flavor: r-devel-linux-x86_64-fedora-gcc

Package ncdfgeom

Current CRAN status: OK: 13

Package nhdplusTools

Current CRAN status: ERROR: 1, OK: 12

Version: 1.4.1
Check: examples
Result: ERROR Running examples in ‘nhdplusTools-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: disambiguate_flowline_indexes > ### Title: Disambiguate Flowline Indexes > ### Aliases: disambiguate_flowline_indexes > > ### ** Examples > > source(system.file("extdata", "sample_flines.R", package = "nhdplusTools")) > > hydro_location <- sf::st_sf(id = c(1, 2, 3), + geom = sf::st_sfc(list(sf::st_point(c(-76.86934, 39.49328)), + sf::st_point(c(-76.91711, 39.40884)), + sf::st_point(c(-76.88081, 39.36354))), + crs = 4326), + totda = c(23.6, 7.3, 427.9), + nameid = c("Patapsco", "", "Falls Run River")) > > flowpath <- dplyr::select(sample_flines, + comid = COMID, + totda = TotDASqKM, + nameid = GNIS_NAME, + REACHCODE, + ToMeas, + FromMeas) > > indexes <- get_flowline_index(flowpath, + hydro_location, + search_radius = 0.2, + max_matches = 10) Warning in check_search_radius(search_radius, points) : search_radius units not set, trying units of points CRS. Warning in index_points_to_lines.hy(x, points, search_radius = search_radius, : converting to LINESTRING, this may be slow, check results Error in `[.data.table`(matched, , `:=`(N, seq_len(.N)), by = list(point_id)) : attempt access index 4/4 in VECTOR_ELT Calls: get_flowline_index ... index_points_to_lines.hy -> left_join -> matcher_dt -> [ -> [.data.table Execution halted Flavor: r-devel-linux-x86_64-debian-gcc

Version: 1.4.1
Check: tests
Result: ERROR Running ‘testthat.R’ [39s/24s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library("testthat") > > test_check("nhdplusTools") Loading required package: nhdplusTools Starting 2 test processes. > test_02_subset.R: All intersections performed in latitude/longitude. > test_02_subset.R: All intersections performed in latitude/longitude. > test_02_subset.R: All intersections performed in latitude/longitude. > test_02_subset.R: All intersections performed in latitude/longitude. Saving _problems/test_index-114.R Saving _problems/test_index-151.R Saving _problems/test_index-202.R Saving _problems/test_wb_index-14.R [ FAIL 4 | WARN 0 | SKIP 58 | PASS 300 ] ══ Skipped tests (58) ══════════════════════════════════════════════════════════ • On CRAN (58): 'test_00_plot_bbox_nhdplus.R:5:3', 'test_00_plot_integration_nhdplus.R:6:3', 'test_00_plot_local_extra_nhdplus.R:9:3', 'test_00_plot_local_nhdplus.R:9:3', 'test_01_get_nldi.R:5:3', 'test_01_get_nldi.R:25:3', 'test_01_get_nldi.R:85:3', 'test_01_get_nldi.R:122:3', 'test_01_get_nldi.R:140:3', 'test_01_get_nldi.R:176:3', 'test_01_get_nldi.R:224:3', 'test_00_plot_nhdplus.R:6:3', 'test_00_plot_nhdplus.R:90:3', 'test_00_plot_nhdplus.R:134:3', 'test_00_plot_nhdplus.R:164:3', 'test_00_plot_nhdplus.R:201:3', 'test_02_subset.R:135:3', 'test_02_subset.R:191:3', 'test_03_get_functions.R:20:3', 'test_03_get_functions.R:52:3', 'test_03_get_functions.R:75:3', 'test_03_get_functions.R:129:3', 'test_03_get_functions.R:200:3', 'test_03_get_functions.R:216:3', 'test_03_get_functions.R:229:3', 'test_03_get_functions.R:247:3', 'test_03_get_functions.R:254:3', 'test_arcrest.R:51:3', 'test_02_subset_extras.R:94:3', 'test_02_subset_extras.R:149:3', 'test_geoconnex.R:3:3', 'test_geoconnex.R:14:3', 'test_get_3dhp.R:3:3', 'test_get_nhdphr.R:3:3', 'test_get_nhdplus.R:8:3', 'test_get_nhdplus.R:29:3', 'test_get_nhdplus.R:49:3', 'test_get_nhdplushr.R:3:3', 'test_get_nhdplushr.R:23:3', 'test_get_nhdplushr.R:53:3', 'test_get_nhdplushr.R:80:3', 'test_get_nhdplushr.R:101:3', 'test_get_nhdplushr.R:147:3', 'test_get_nhdplushr.R:174:3', 'test_get_nhdplushr.R:196:3', 'test_get_codes.R:4:3', 'test_get_vaa.R:4:3', 'test_get_vaa.R:38:3', 'test_index.R:13:5', 'test_index.R:61:3', 'test_map_nhdplus.R:4:3', 'test_navigate.R:4:3', 'test_navigate.R:71:3', 'test_nhdplusTools.R:41:3', 'test_nhdplusTools.R:50:3', 'test_rescale_catchments.R:3:3', 'test_get_path.R:69:3', 'test_run_plus_attributes.R:20:3' ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test_index.R:113:3'): multipart indexing ──────────────────────────── Error in ``[.data.table`(matched, , `:=`(N, seq_len(.N)), by = list(point_id))`: attempt access index 4/4 in VECTOR_ELT Backtrace: ▆ 1. ├─testthat::capture_warnings(...) at test_index.R:113:3 2. │ └─base::withCallingHandlers(...) 3. └─nhdplusTools::get_flowline_index(lines, points, search_radius = 500) 4. ├─hydroloom::index_points_to_lines(...) 5. └─hydroloom:::index_points_to_lines.data.frame(...) 6. ├─hydroloom::index_points_to_lines(...) 7. └─hydroloom:::index_points_to_lines.hy(...) 8. ├─dplyr::left_join(...) 9. └─hydroloom:::matcher_dt(x, points, search_radius, max_matches = max_matches) 10. ├─matched[, `:=`(N, seq_len(.N)), by = list(point_id)] 11. └─data.table:::`[.data.table`(...) ── Error ('test_index.R:148:3'): disambiguate ────────────────────────────────── Error in ``[.data.table`(matched, , `:=`(N, seq_len(.N)), by = list(point_id))`: attempt access index 4/4 in VECTOR_ELT Backtrace: ▆ 1. └─nhdplusTools::get_flowline_index(...) at test_index.R:148:3 2. ├─hydroloom::index_points_to_lines(...) 3. └─hydroloom:::index_points_to_lines.data.frame(...) 4. ├─hydroloom::index_points_to_lines(...) 5. └─hydroloom:::index_points_to_lines.hy(...) 6. ├─dplyr::left_join(...) 7. └─hydroloom:::matcher_dt(x, points, search_radius, max_matches = max_matches) 8. ├─matched[, `:=`(N, seq_len(.N)), by = list(point_id)] 9. └─data.table:::`[.data.table`(...) ── Error ('test_index.R:202:3'): get location ────────────────────────────────── Error in ``[.data.table`(matched, , `:=`(N, seq_len(.N)), by = list(point_id))`: attempt access index 4/4 in VECTOR_ELT Backtrace: ▆ 1. └─nhdplusTools::get_flowline_index(sample_flines, points) at test_index.R:202:3 2. ├─hydroloom::index_points_to_lines(...) 3. └─hydroloom:::index_points_to_lines.data.frame(...) 4. ├─hydroloom::index_points_to_lines(...) 5. └─hydroloom:::index_points_to_lines.hy(...) 6. ├─dplyr::left_join(...) 7. └─hydroloom:::matcher_dt(x, points, search_radius, max_matches = max_matches) 8. ├─matched[, `:=`(N, seq_len(.N)), by = list(point_id)] 9. └─data.table:::`[.data.table`(...) ── Error ('test_wb_index.R:14:1'): index to waterbodies ──────────────────────── Error in ``[.data.table`(matched, , `:=`(N, seq_len(.N)), by = list(point_id))`: attempt access index 4/4 in VECTOR_ELT Backtrace: ▆ 1. ├─testthat::expect_warning(...) at test_wb_index.R:14:1 2. │ └─testthat:::expect_condition_matching_(...) 3. │ └─testthat:::quasi_capture(...) 4. │ ├─testthat (local) .capture(...) 5. │ │ └─base::withCallingHandlers(...) 6. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo)) 7. └─nhdplusTools::get_waterbody_index(wb, gage_l) 8. └─hydroloom::index_points_to_waterbodies(...) 9. └─hydroloom:::matcher_dt(waterbodies, st_coordinates(points), search_radius) 10. ├─matched[, `:=`(N, seq_len(.N)), by = list(point_id)] 11. └─data.table:::`[.data.table`(...) [ FAIL 4 | WARN 0 | SKIP 58 | PASS 300 ] Error: ! Test failures. Execution halted Flavor: r-devel-linux-x86_64-debian-gcc

Package sbtools

Current CRAN status: OK: 13