CRAN Package Check Results for Package letsR

Last updated on 2019-12-11 22:51:12 CET.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 3.1 16.47 191.20 207.67 ERROR
r-devel-linux-x86_64-debian-gcc 3.1 13.42 138.60 152.02 ERROR
r-devel-linux-x86_64-fedora-clang 3.1 229.52 OK
r-devel-linux-x86_64-fedora-gcc 3.1 224.63 OK
r-devel-windows-ix86+x86_64 3.1 28.00 271.00 299.00 OK
r-devel-windows-ix86+x86_64-gcc8 3.1 35.00 290.00 325.00 OK
r-patched-linux-x86_64 3.1 13.23 158.37 171.60 OK
r-patched-solaris-x86 3.1 306.50 OK
r-release-linux-x86_64 3.1 11.11 159.80 170.91 OK
r-release-windows-ix86+x86_64 3.1 31.00 174.00 205.00 OK
r-release-osx-x86_64 3.1 OK
r-oldrel-windows-ix86+x86_64 3.1 19.00 182.00 201.00 OK
r-oldrel-osx-x86_64 3.1 OK

Check Details

Version: 3.1
Check: tests
Result: ERROR
     Running 'test-all.R' [72s/80s]
    Running the tests in 'tests/test-all.R' failed.
    Complete output:
     > library(testthat)
     > test_check("letsR")
     Loading required package: letsR
     Loading required package: raster
     Loading required package: sp
     Loading required package: maps
     -- 1. Failure: Other parameters work (@test-TimLucas.r#76) --------------------
     class(PresAbMat4) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     -- 2. Failure: lets.addpoly works fine, onlyvar = FALSE (@test-lets_addpoly.R#11
     class(resu_test) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     -- 3. Failure: lets.addpoly works fine, onlyvar = TRUE (@test-lets_addpoly.R#18)
     class(resu_test) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     Error in x$.self$finalize() : attempt to apply non-function
     Error in x$.self$finalize() : attempt to apply non-function
     Error in x$.self$finalize() : attempt to apply non-function
     -- 4. Failure: lets.addvar works fine (@test-lets_addvar.R#11) ----------------
     class(PAM_temp_mean) == "matrix" isn't true.
    
     -- 5. Failure: lets.addvar works fine, different fun (@test-lets_addvar.R#20) -
     class(PAM_temp_mean) == "matrix" isn't true.
    
     -- 6. Failure: lets.addvar works fine, onlyvar = TRUE (@test-lets_addvar.R#29)
     class(PAM_temp_mean) == "matrix" isn't true.
    
     -- 7. Failure: lets.addvar works fine, multiple rasters (@test-lets_addvar.R#38)
     class(PAM_temp_mean) == "matrix" isn't true.
    
     -- 8. Failure: lets.addpoly lets.classvar fine (@test-lets_classvar.R#13) -----
     class(resu_test) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     -- 9. Failure: lets.addpoly lets.classvar fine, xy = FALSE (@test-lets_classvar.
     class(resu_test) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     -- 10. Failure: lets.addpoly lets.classvar fine, set groups (@test-lets_classvar
     class(resu_test) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ----------- FAILURE REPORT --------------
     --- failure: the condition has length > 1 ---
     --- srcref ---
     :
     --- package (from environment) ---
     letsR
     --- call from context ---
     lets.distmat(PAM[[1]][1:N, 1:2])
     --- call from argument ---
     if (class(xy) == "PresenceAbsence") {
     xy <- xy[[1]][, 1:2]
     }
     --- R stacktrace ---
     where 1 at testthat/test-lets_correl.R#5: lets.distmat(PAM[[1]][1:N, 1:2])
     where 2: eval(code, test_env)
     where 3: eval(code, test_env)
     where 4: withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error)
     where 5: doTryCatch(return(expr), name, parentenv, handler)
     where 6: tryCatchOne(expr, names, parentenv, handlers[[1L]])
     where 7: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
     where 8: doTryCatch(return(expr), name, parentenv, handler)
     where 9: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]),
     names[nh], parentenv, handlers[[nh]])
     where 10: tryCatchList(expr, classes, parentenv, handlers)
     where 11: tryCatch(withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error), error = handle_fatal,
     skip = function(e) {
     })
     where 12: test_code(NULL, exprs, env)
     where 13: source_file(path, new.env(parent = env), chdir = TRUE, wrap = wrap)
     where 14: force(code)
     where 15: doWithOneRestart(return(expr), restart)
     where 16: withOneRestart(expr, restarts[[1L]])
     where 17: withRestarts(testthat_abort_reporter = function() NULL, force(code))
     where 18: with_reporter(reporter = reporter, start_end_reporter = start_end_reporter,
     {
     reporter$start_file(basename(path))
     lister$start_file(basename(path))
     source_file(path, new.env(parent = env), chdir = TRUE,
     wrap = wrap)
     reporter$.end_context()
     reporter$end_file()
     })
     where 19: FUN(X[[i]], ...)
     where 20: lapply(paths, test_file, env = env, reporter = current_reporter,
     start_end_reporter = FALSE, load_helpers = FALSE, wrap = wrap)
     where 21: force(code)
     where 22: doWithOneRestart(return(expr), restart)
     where 23: withOneRestart(expr, restarts[[1L]])
     where 24: withRestarts(testthat_abort_reporter = function() NULL, force(code))
     where 25: with_reporter(reporter = current_reporter, results <- lapply(paths,
     test_file, env = env, reporter = current_reporter, start_end_reporter = FALSE,
     load_helpers = FALSE, wrap = wrap))
     where 26: test_files(paths, reporter = reporter, env = env, stop_on_failure = stop_on_failure,
     stop_on_warning = stop_on_warning, wrap = wrap)
     where 27: test_dir(path = test_path, reporter = reporter, env = env, filter = filter,
     ..., stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning,
     wrap = wrap)
     where 28: test_package_dir(package = package, test_path = test_path, filter = filter,
     reporter = reporter, ..., stop_on_failure = stop_on_failure,
     stop_on_warning = stop_on_warning, wrap = wrap)
     where 29: test_check("letsR")
    
     --- value of length: 2 type: logical ---
     [1] FALSE FALSE
     --- function from context ---
     function (xy, asdist = TRUE, ...)
     {
     if (class(xy) == "PresenceAbsence") {
     xy <- xy[[1]][, 1:2]
     }
     if (exists("miles")) {
     distan <- rdist.earth(xy, miles = FALSE, ...)
     }
     else {
     distan <- rdist.earth(xy, ...)
     }
     diag(distan) <- 0
     if (asdist) {
     distan <- as.dist(distan)
     }
     return(distan)
     }
     <bytecode: 0x7b357a8>
     <environment: namespace:letsR>
     --- function search by body ---
     Function lets.distmat in namespace letsR has this body.
     ----------- END OF FAILURE REPORT --------------
     -- 11. Error: (unknown) (@test-lets_correl.R#5) -------------------------------
     the condition has length > 1
     Backtrace:
     1. letsR::lets.distmat(PAM[[1]][1:N, 1:2])
    
     -- 12. Failure: lets.distmat works fine, asdist = FALSE (@test-lets_distmat.R#22
     class(distPAM) == "matrix" isn't true.
    
     ----------- FAILURE REPORT --------------
     --- failure: the condition has length > 1 ---
     --- srcref ---
     :
     --- package (from environment) ---
     letsR
     --- call from context ---
     lets.distmat(coords, miles = TRUE)
     --- call from argument ---
     if (class(xy) == "PresenceAbsence") {
     xy <- xy[[1]][, 1:2]
     }
     --- R stacktrace ---
     where 1 at testthat/test-lets_distmat.R#40: lets.distmat(coords, miles = TRUE)
     where 2: eval(code, test_env)
     where 3: eval(code, test_env)
     where 4: withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error)
     where 5: doTryCatch(return(expr), name, parentenv, handler)
     where 6: tryCatchOne(expr, names, parentenv, handlers[[1L]])
     where 7: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
     where 8: doTryCatch(return(expr), name, parentenv, handler)
     where 9: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]),
     names[nh], parentenv, handlers[[nh]])
     where 10: tryCatchList(expr, classes, parentenv, handlers)
     where 11: tryCatch(withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error), error = handle_fatal,
     skip = function(e) {
     })
     where 12: test_code(desc, code, env = parent.frame())
     where 13 at testthat/test-lets_distmat.R#37: test_that("lets.distmat works fine, xy as matrix ", {
     distPAM <- lets.distmat(coords, miles = TRUE)
     expect_true(class(distPAM) == "dist")
     expect_true(all(dim(as.matrix(distPAM)) == nrow(coords)))
     })
     where 14: eval(code, test_env)
     where 15: eval(code, test_env)
     where 16: withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error)
     where 17: doTryCatch(return(expr), name, parentenv, handler)
     where 18: tryCatchOne(expr, names, parentenv, handlers[[1L]])
     where 19: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
     where 20: doTryCatch(return(expr), name, parentenv, handler)
     where 21: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]),
     names[nh], parentenv, handlers[[nh]])
     where 22: tryCatchList(expr, classes, parentenv, handlers)
     where 23: tryCatch(withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error), error = handle_fatal,
     skip = function(e) {
     })
     where 24: test_code(NULL, exprs, env)
     where 25: source_file(path, new.env(parent = env), chdir = TRUE, wrap = wrap)
     where 26: force(code)
     where 27: doWithOneRestart(return(expr), restart)
     where 28: withOneRestart(expr, restarts[[1L]])
     where 29: withRestarts(testthat_abort_reporter = function() NULL, force(code))
     where 30: with_reporter(reporter = reporter, start_end_reporter = start_end_reporter,
     {
     reporter$start_file(basename(path))
     lister$start_file(basename(path))
     source_file(path, new.env(parent = env), chdir = TRUE,
     wrap = wrap)
     reporter$.end_context()
     reporter$end_file()
     })
     where 31: FUN(X[[i]], ...)
     where 32: lapply(paths, test_file, env = env, reporter = current_reporter,
     start_end_reporter = FALSE, load_helpers = FALSE, wrap = wrap)
     where 33: force(code)
     where 34: doWithOneRestart(return(expr), restart)
     where 35: withOneRestart(expr, restarts[[1L]])
     where 36: withRestarts(testthat_abort_reporter = function() NULL, force(code))
     where 37: with_reporter(reporter = current_reporter, results <- lapply(paths,
     test_file, env = env, reporter = current_reporter, start_end_reporter = FALSE,
     load_helpers = FALSE, wrap = wrap))
     where 38: test_files(paths, reporter = reporter, env = env, stop_on_failure = stop_on_failure,
     stop_on_warning = stop_on_warning, wrap = wrap)
     where 39: test_dir(path = test_path, reporter = reporter, env = env, filter = filter,
     ..., stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning,
     wrap = wrap)
     where 40: test_package_dir(package = package, test_path = test_path, filter = filter,
     reporter = reporter, ..., stop_on_failure = stop_on_failure,
     stop_on_warning = stop_on_warning, wrap = wrap)
     where 41: test_check("letsR")
    
     --- value of length: 2 type: logical ---
     [1] FALSE FALSE
     --- function from context ---
     function (xy, asdist = TRUE, ...)
     {
     if (class(xy) == "PresenceAbsence") {
     xy <- xy[[1]][, 1:2]
     }
     if (exists("miles")) {
     distan <- rdist.earth(xy, miles = FALSE, ...)
     }
     else {
     distan <- rdist.earth(xy, ...)
     }
     diag(distan) <- 0
     if (asdist) {
     distan <- as.dist(distan)
     }
     return(distan)
     }
     <bytecode: 0x7b357a8>
     <environment: namespace:letsR>
     --- function search by body ---
     Function lets.distmat in namespace letsR has this body.
     ----------- END OF FAILURE REPORT --------------
     -- 13. Error: lets.distmat works fine, xy as matrix (@test-lets_distmat.R#40)
     the condition has length > 1
     Backtrace:
     1. letsR::lets.distmat(coords, miles = TRUE)
    
     ----------- FAILURE REPORT --------------
     --- failure: the condition has length > 1 ---
     --- srcref ---
     :
     --- package (from environment) ---
     letsR
     --- call from context ---
     lets.field(PAM[[1]], range, PAM$S, xy = TRUE)
     --- call from argument ---
     if (class(x) == "PresenceAbsence") {
     p <- x[[1]][, -(1:2)]
     namesSpe <- x[[3]]
     }
     --- R stacktrace ---
     where 1 at testthat/test-lets_field.R#39: lets.field(PAM[[1]], range, PAM$S, xy = TRUE)
     where 2: eval(code, test_env)
     where 3: eval(code, test_env)
     where 4: withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error)
     where 5: doTryCatch(return(expr), name, parentenv, handler)
     where 6: tryCatchOne(expr, names, parentenv, handlers[[1L]])
     where 7: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
     where 8: doTryCatch(return(expr), name, parentenv, handler)
     where 9: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]),
     names[nh], parentenv, handlers[[nh]])
     where 10: tryCatchList(expr, classes, parentenv, handlers)
     where 11: tryCatch(withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error), error = handle_fatal,
     skip = function(e) {
     })
     where 12: test_code(desc, code, env = parent.frame())
     where 13 at testthat/test-lets_field.R#36: test_that("lets.field works fine, matrix and xy = TRUE", {
     field <- lets.field(PAM[[1]], range, PAM$S, xy = TRUE)
     expect_equal(class(field), "data.frame")
     expect_true(ncol(field) == 2)
     expect_true(nrow(field) == length(PAM$S))
     })
     where 14: eval(code, test_env)
     where 15: eval(code, test_env)
     where 16: withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error)
     where 17: doTryCatch(return(expr), name, parentenv, handler)
     where 18: tryCatchOne(expr, names, parentenv, handlers[[1L]])
     where 19: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
     where 20: doTryCatch(return(expr), name, parentenv, handler)
     where 21: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]),
     names[nh], parentenv, handlers[[nh]])
     where 22: tryCatchList(expr, classes, parentenv, handlers)
     where 23: tryCatch(withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error), error = handle_fatal,
     skip = function(e) {
     })
     where 24: test_code(NULL, exprs, env)
     where 25: source_file(path, new.env(parent = env), chdir = TRUE, wrap = wrap)
     where 26: force(code)
     where 27: doWithOneRestart(return(expr), restart)
     where 28: withOneRestart(expr, restarts[[1L]])
     where 29: withRestarts(testthat_abort_reporter = function() NULL, force(code))
     where 30: with_reporter(reporter = reporter, start_end_reporter = start_end_reporter,
     {
     reporter$start_file(basename(path))
     lister$start_file(basename(path))
     source_file(path, new.env(parent = env), chdir = TRUE,
     wrap = wrap)
     reporter$.end_context()
     reporter$end_file()
     })
     where 31: FUN(X[[i]], ...)
     where 32: lapply(paths, test_file, env = env, reporter = current_reporter,
     start_end_reporter = FALSE, load_helpers = FALSE, wrap = wrap)
     where 33: force(code)
     where 34: doWithOneRestart(return(expr), restart)
     where 35: withOneRestart(expr, restarts[[1L]])
     where 36: withRestarts(testthat_abort_reporter = function() NULL, force(code))
     where 37: with_reporter(reporter = current_reporter, results <- lapply(paths,
     test_file, env = env, reporter = current_reporter, start_end_reporter = FALSE,
     load_helpers = FALSE, wrap = wrap))
     where 38: test_files(paths, reporter = reporter, env = env, stop_on_failure = stop_on_failure,
     stop_on_warning = stop_on_warning, wrap = wrap)
     where 39: test_dir(path = test_path, reporter = reporter, env = env, filter = filter,
     ..., stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning,
     wrap = wrap)
     where 40: test_package_dir(package = package, test_path = test_path, filter = filter,
     reporter = reporter, ..., stop_on_failure = stop_on_failure,
     stop_on_warning = stop_on_warning, wrap = wrap)
     where 41: test_check("letsR")
    
     --- value of length: 2 type: logical ---
     [1] FALSE FALSE
     --- function from context ---
     function (x, y, z, weight = TRUE, xy = NULL, count = FALSE)
     {
     if (class(x) == "PresenceAbsence") {
     p <- x[[1]][, -(1:2)]
     namesSpe <- x[[3]]
     }
     if (is.matrix(x)) {
     if (is.null(xy)) {
     stop(paste("Please set if your matrix contains ",
     "coordinates in the first two columns", "(xy argument)."),
     sep = "")
     }
     if (xy) {
     x <- x[, -(1:2)]
     }
     p <- x
     namesSpe <- colnames(x)
     }
     if (is.factor(y)) {
     y <- as.numeric(levels(y))[y]
     }
     p2 <- p
     for (i in 1:ncol(p2)) {
     pos <- z == namesSpe[i]
     if (length(pos) > 0) {
     p2[, i] <- p2[, i] * y[pos]
     pos2 <- p2[, i] == 0
     p2[pos2, i] <- NA
     }
     else {
     p2[, i] <- NA
     }
     }
     media <- numeric(ncol(p))
     n <- length(media)
     if (count) {
     if (!"tools:rstudio" %in% search()) {
     dev.new(width = 2, height = 2, pointsize = 12)
     par(mar = c(0, 0, 0, 0))
     }
     for (i in 1:n) {
     plot.new()
     text(0.5, 0.5, paste(paste("Total:", n, "\n", "Runs to go: ",
     (n - i))))
     media[i] <- .InsiLoop(i, p, p2, weight)
     }
     dev.off()
     }
     if (!count) {
     for (i in 1:n) {
     media[i] <- .InsiLoop(i, p, p2, weight)
     }
     }
     resultado <- cbind(namesSpe, media)
     colnames(resultado) <- c("Species", "Value")
     resultado <- as.data.frame(resultado)
     resultado[, 2] <- as.numeric(levels(resultado[, 2]))[resultado[,
     2]]
     return(resultado)
     }
     <bytecode: 0x7b39a80>
     <environment: namespace:letsR>
     --- function search by body ---
     Function lets.field in namespace letsR has this body.
     ----------- END OF FAILURE REPORT --------------
     -- 14. Error: lets.field works fine, matrix and xy = TRUE (@test-lets_field.R#39
     the condition has length > 1
     Backtrace:
     1. letsR::lets.field(PAM[[1]], range, PAM$S, xy = TRUE)
    
     ----------- FAILURE REPORT --------------
     --- failure: the condition has length > 1 ---
     --- srcref ---
     :
     --- package (from environment) ---
     letsR
     --- call from context ---
     lets.field(PAM[[1]][, -(1:2)], range, PAM$S, xy = FALSE)
     --- call from argument ---
     if (class(x) == "PresenceAbsence") {
     p <- x[[1]][, -(1:2)]
     namesSpe <- x[[3]]
     }
     --- R stacktrace ---
     where 1 at testthat/test-lets_field.R#50: lets.field(PAM[[1]][, -(1:2)], range, PAM$S, xy = FALSE)
     where 2: eval(code, test_env)
     where 3: eval(code, test_env)
     where 4: withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error)
     where 5: doTryCatch(return(expr), name, parentenv, handler)
     where 6: tryCatchOne(expr, names, parentenv, handlers[[1L]])
     where 7: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
     where 8: doTryCatch(return(expr), name, parentenv, handler)
     where 9: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]),
     names[nh], parentenv, handlers[[nh]])
     where 10: tryCatchList(expr, classes, parentenv, handlers)
     where 11: tryCatch(withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error), error = handle_fatal,
     skip = function(e) {
     })
     where 12: test_code(desc, code, env = parent.frame())
     where 13 at testthat/test-lets_field.R#47: test_that("lets.field works fine, matrix and xy = FALSE", {
     field <- lets.field(PAM[[1]][, -(1:2)], range, PAM$S, xy = FALSE)
     expect_equal(class(field), "data.frame")
     expect_true(ncol(field) == 2)
     expect_true(nrow(field) == length(PAM$S))
     })
     where 14: eval(code, test_env)
     where 15: eval(code, test_env)
     where 16: withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error)
     where 17: doTryCatch(return(expr), name, parentenv, handler)
     where 18: tryCatchOne(expr, names, parentenv, handlers[[1L]])
     where 19: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
     where 20: doTryCatch(return(expr), name, parentenv, handler)
     where 21: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]),
     names[nh], parentenv, handlers[[nh]])
     where 22: tryCatchList(expr, classes, parentenv, handlers)
     where 23: tryCatch(withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error), error = handle_fatal,
     skip = function(e) {
     })
     where 24: test_code(NULL, exprs, env)
     where 25: source_file(path, new.env(parent = env), chdir = TRUE, wrap = wrap)
     where 26: force(code)
     where 27: doWithOneRestart(return(expr), restart)
     where 28: withOneRestart(expr, restarts[[1L]])
     where 29: withRestarts(testthat_abort_reporter = function() NULL, force(code))
     where 30: with_reporter(reporter = reporter, start_end_reporter = start_end_reporter,
     {
     reporter$start_file(basename(path))
     lister$start_file(basename(path))
     source_file(path, new.env(parent = env), chdir = TRUE,
     wrap = wrap)
     reporter$.end_context()
     reporter$end_file()
     })
     where 31: FUN(X[[i]], ...)
     where 32: lapply(paths, test_file, env = env, reporter = current_reporter,
     start_end_reporter = FALSE, load_helpers = FALSE, wrap = wrap)
     where 33: force(code)
     where 34: doWithOneRestart(return(expr), restart)
     where 35: withOneRestart(expr, restarts[[1L]])
     where 36: withRestarts(testthat_abort_reporter = function() NULL, force(code))
     where 37: with_reporter(reporter = current_reporter, results <- lapply(paths,
     test_file, env = env, reporter = current_reporter, start_end_reporter = FALSE,
     load_helpers = FALSE, wrap = wrap))
     where 38: test_files(paths, reporter = reporter, env = env, stop_on_failure = stop_on_failure,
     stop_on_warning = stop_on_warning, wrap = wrap)
     where 39: test_dir(path = test_path, reporter = reporter, env = env, filter = filter,
     ..., stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning,
     wrap = wrap)
     where 40: test_package_dir(package = package, test_path = test_path, filter = filter,
     reporter = reporter, ..., stop_on_failure = stop_on_failure,
     stop_on_warning = stop_on_warning, wrap = wrap)
     where 41: test_check("letsR")
    
     --- value of length: 2 type: logical ---
     [1] FALSE FALSE
     --- function from context ---
     function (x, y, z, weight = TRUE, xy = NULL, count = FALSE)
     {
     if (class(x) == "PresenceAbsence") {
     p <- x[[1]][, -(1:2)]
     namesSpe <- x[[3]]
     }
     if (is.matrix(x)) {
     if (is.null(xy)) {
     stop(paste("Please set if your matrix contains ",
     "coordinates in the first two columns", "(xy argument)."),
     sep = "")
     }
     if (xy) {
     x <- x[, -(1:2)]
     }
     p <- x
     namesSpe <- colnames(x)
     }
     if (is.factor(y)) {
     y <- as.numeric(levels(y))[y]
     }
     p2 <- p
     for (i in 1:ncol(p2)) {
     pos <- z == namesSpe[i]
     if (length(pos) > 0) {
     p2[, i] <- p2[, i] * y[pos]
     pos2 <- p2[, i] == 0
     p2[pos2, i] <- NA
     }
     else {
     p2[, i] <- NA
     }
     }
     media <- numeric(ncol(p))
     n <- length(media)
     if (count) {
     if (!"tools:rstudio" %in% search()) {
     dev.new(width = 2, height = 2, pointsize = 12)
     par(mar = c(0, 0, 0, 0))
     }
     for (i in 1:n) {
     plot.new()
     text(0.5, 0.5, paste(paste("Total:", n, "\n", "Runs to go: ",
     (n - i))))
     media[i] <- .InsiLoop(i, p, p2, weight)
     }
     dev.off()
     }
     if (!count) {
     for (i in 1:n) {
     media[i] <- .InsiLoop(i, p, p2, weight)
     }
     }
     resultado <- cbind(namesSpe, media)
     colnames(resultado) <- c("Species", "Value")
     resultado <- as.data.frame(resultado)
     resultado[, 2] <- as.numeric(levels(resultado[, 2]))[resultado[,
     2]]
     return(resultado)
     }
     <bytecode: 0x7b39a80>
     <environment: namespace:letsR>
     --- function search by body ---
     Function lets.field in namespace letsR has this body.
     ----------- END OF FAILURE REPORT --------------
     -- 15. Error: lets.field works fine, matrix and xy = FALSE (@test-lets_field.R#5
     the condition has length > 1
     Backtrace:
     1. letsR::lets.field(PAM[[1]][, -(1:2)], range, PAM$S, xy = FALSE)
    
     ----------- FAILURE REPORT --------------
     --- failure: the condition has length > 1 ---
     --- srcref ---
     :
     --- package (from environment) ---
     letsR
     --- call from context ---
     lets.field(PAM[[1]], range, PAM$S)
     --- call from argument ---
     if (class(x) == "PresenceAbsence") {
     p <- x[[1]][, -(1:2)]
     namesSpe <- x[[3]]
     }
     --- R stacktrace ---
     where 1: lets.field(PAM[[1]], range, PAM$S)
     where 2: eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     where 3: withCallingHandlers({
     code
     NULL
     }, error = function(cnd) {
     if (can_entrace(cnd)) {
     cnd <- cnd_entrace(cnd)
     }
     return_from(env, cnd)
     })
     where 4: .capture(act$val <- eval_bare(quo_get_expr(.quo), quo_get_env(.quo)),
     ...)
     where 5: quasi_capture(enquo(object), label, capture_error, entrace = TRUE)
     where 6 at testthat/test-lets_field.R#60: expect_error(lets.field(PAM[[1]], range, PAM$S))
     where 7: eval(code, test_env)
     where 8: eval(code, test_env)
     where 9: withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error)
     where 10: doTryCatch(return(expr), name, parentenv, handler)
     where 11: tryCatchOne(expr, names, parentenv, handlers[[1L]])
     where 12: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
     where 13: doTryCatch(return(expr), name, parentenv, handler)
     where 14: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]),
     names[nh], parentenv, handlers[[nh]])
     where 15: tryCatchList(expr, classes, parentenv, handlers)
     where 16: tryCatch(withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error), error = handle_fatal,
     skip = function(e) {
     })
     where 17: test_code(desc, code, env = parent.frame())
     where 18 at testthat/test-lets_field.R#57: test_that("lets.field error expected, matrix without xy", {
     expect_error(lets.field(PAM[[1]], range, PAM$S))
     })
     where 19: eval(code, test_env)
     where 20: eval(code, test_env)
     where 21: withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error)
     where 22: doTryCatch(return(expr), name, parentenv, handler)
     where 23: tryCatchOne(expr, names, parentenv, handlers[[1L]])
     where 24: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
     where 25: doTryCatch(return(expr), name, parentenv, handler)
     where 26: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]),
     names[nh], parentenv, handlers[[nh]])
     where 27: tryCatchList(expr, classes, parentenv, handlers)
     where 28: tryCatch(withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error), error = handle_fatal,
     skip = function(e) {
     })
     where 29: test_code(NULL, exprs, env)
     where 30: source_file(path, new.env(parent = env), chdir = TRUE, wrap = wrap)
     where 31: force(code)
     where 32: doWithOneRestart(return(expr), restart)
     where 33: withOneRestart(expr, restarts[[1L]])
     where 34: withRestarts(testthat_abort_reporter = function() NULL, force(code))
     where 35: with_reporter(reporter = reporter, start_end_reporter = start_end_reporter,
     {
     reporter$start_file(basename(path))
     lister$start_file(basename(path))
     source_file(path, new.env(parent = env), chdir = TRUE,
     wrap = wrap)
     reporter$.end_context()
     reporter$end_file()
     })
     where 36: FUN(X[[i]], ...)
     where 37: lapply(paths, test_file, env = env, reporter = current_reporter,
     start_end_reporter = FALSE, load_helpers = FALSE, wrap = wrap)
     where 38: force(code)
     where 39: doWithOneRestart(return(expr), restart)
     where 40: withOneRestart(expr, restarts[[1L]])
     where 41: withRestarts(testthat_abort_reporter = function() NULL, force(code))
     where 42: with_reporter(reporter = current_reporter, results <- lapply(paths,
     test_file, env = env, reporter = current_reporter, start_end_reporter = FALSE,
     load_helpers = FALSE, wrap = wrap))
     where 43: test_files(paths, reporter = reporter, env = env, stop_on_failure = stop_on_failure,
     stop_on_warning = stop_on_warning, wrap = wrap)
     where 44: test_dir(path = test_path, reporter = reporter, env = env, filter = filter,
     ..., stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning,
     wrap = wrap)
     where 45: test_package_dir(package = package, test_path = test_path, filter = filter,
     reporter = reporter, ..., stop_on_failure = stop_on_failure,
     stop_on_warning = stop_on_warning, wrap = wrap)
     where 46: test_check("letsR")
    
     --- value of length: 2 type: logical ---
     [1] FALSE FALSE
     --- function from context ---
     function (x, y, z, weight = TRUE, xy = NULL, count = FALSE)
     {
     if (class(x) == "PresenceAbsence") {
     p <- x[[1]][, -(1:2)]
     namesSpe <- x[[3]]
     }
     if (is.matrix(x)) {
     if (is.null(xy)) {
     stop(paste("Please set if your matrix contains ",
     "coordinates in the first two columns", "(xy argument)."),
     sep = "")
     }
     if (xy) {
     x <- x[, -(1:2)]
     }
     p <- x
     namesSpe <- colnames(x)
     }
     if (is.factor(y)) {
     y <- as.numeric(levels(y))[y]
     }
     p2 <- p
     for (i in 1:ncol(p2)) {
     pos <- z == namesSpe[i]
     if (length(pos) > 0) {
     p2[, i] <- p2[, i] * y[pos]
     pos2 <- p2[, i] == 0
     p2[pos2, i] <- NA
     }
     else {
     p2[, i] <- NA
     }
     }
     media <- numeric(ncol(p))
     n <- length(media)
     if (count) {
     if (!"tools:rstudio" %in% search()) {
     dev.new(width = 2, height = 2, pointsize = 12)
     par(mar = c(0, 0, 0, 0))
     }
     for (i in 1:n) {
     plot.new()
     text(0.5, 0.5, paste(paste("Total:", n, "\n", "Runs to go: ",
     (n - i))))
     media[i] <- .InsiLoop(i, p, p2, weight)
     }
     dev.off()
     }
     if (!count) {
     for (i in 1:n) {
     media[i] <- .InsiLoop(i, p, p2, weight)
     }
     }
     resultado <- cbind(namesSpe, media)
     colnames(resultado) <- c("Species", "Value")
     resultado <- as.data.frame(resultado)
     resultado[, 2] <- as.numeric(levels(resultado[, 2]))[resultado[,
     2]]
     return(resultado)
     }
     <bytecode: 0x7b39a80>
     <environment: namespace:letsR>
     --- function search by body ---
     Function lets.field in namespace letsR has this body.
     ----------- END OF FAILURE REPORT --------------
     -- 16. Failure: lets.gridirizer works fine (@test-lets_gridirizer.R#11) -------
     class(resu_test[[2]]) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     -- 17. Failure: lets.maplizer works fine (@test-lets_maplizer.R#10) -----------
     class(resu_test) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     -- 18. Failure: lets.maplizer works fine, other func (@test-lets_maplizer.R#17)
     class(resu_test) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     -- 19. Failure: lets.maplizer works fine (@test-lets_maplizer.R#25) -----------
     class(resu_test[[1]]) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ----------- FAILURE REPORT --------------
     --- failure: the condition has length > 1 ---
     --- srcref ---
     :
     --- package (from environment) ---
     letsR
     --- call from context ---
     lets.distmat(pam2[loc, 1:2], asdist = FALSE)
     --- call from argument ---
     if (class(xy) == "PresenceAbsence") {
     xy <- xy[[1]][, 1:2]
     }
     --- R stacktrace ---
     where 1: lets.distmat(pam2[loc, 1:2], asdist = FALSE)
     where 2 at testthat/test-lets_midpoint.R#40: lets.midpoint(PAM, method = "CMD")
     where 3: eval(code, test_env)
     where 4: eval(code, test_env)
     where 5: withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error)
     where 6: doTryCatch(return(expr), name, parentenv, handler)
     where 7: tryCatchOne(expr, names, parentenv, handlers[[1L]])
     where 8: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
     where 9: doTryCatch(return(expr), name, parentenv, handler)
     where 10: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]),
     names[nh], parentenv, handlers[[nh]])
     where 11: tryCatchList(expr, classes, parentenv, handlers)
     where 12: tryCatch(withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error), error = handle_fatal,
     skip = function(e) {
     })
     where 13: test_code(desc, code, env = parent.frame())
     where 14 at testthat/test-lets_midpoint.R#37: test_that("lets.midpoint works fine, method = CMD", {
     resu_test <- lets.midpoint(PAM, method = "CMD")
     expect_equal(class(resu_test), "data.frame")
     expect_true(ncol(resu_test) == 3)
     expect_true(!any(is.na(resu_test)))
     })
     where 15: eval(code, test_env)
     where 16: eval(code, test_env)
     where 17: withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error)
     where 18: doTryCatch(return(expr), name, parentenv, handler)
     where 19: tryCatchOne(expr, names, parentenv, handlers[[1L]])
     where 20: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
     where 21: doTryCatch(return(expr), name, parentenv, handler)
     where 22: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]),
     names[nh], parentenv, handlers[[nh]])
     where 23: tryCatchList(expr, classes, parentenv, handlers)
     where 24: tryCatch(withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error), error = handle_fatal,
     skip = function(e) {
     })
     where 25: test_code(NULL, exprs, env)
     where 26: source_file(path, new.env(parent = env), chdir = TRUE, wrap = wrap)
     where 27: force(code)
     where 28: doWithOneRestart(return(expr), restart)
     where 29: withOneRestart(expr, restarts[[1L]])
     where 30: withRestarts(testthat_abort_reporter = function() NULL, force(code))
     where 31: with_reporter(reporter = reporter, start_end_reporter = start_end_reporter,
     {
     reporter$start_file(basename(path))
     lister$start_file(basename(path))
     source_file(path, new.env(parent = env), chdir = TRUE,
     wrap = wrap)
     reporter$.end_context()
     reporter$end_file()
     })
     where 32: FUN(X[[i]], ...)
     where 33: lapply(paths, test_file, env = env, reporter = current_reporter,
     start_end_reporter = FALSE, load_helpers = FALSE, wrap = wrap)
     where 34: force(code)
     where 35: doWithOneRestart(return(expr), restart)
     where 36: withOneRestart(expr, restarts[[1L]])
     where 37: withRestarts(testthat_abort_reporter = function() NULL, force(code))
     where 38: with_reporter(reporter = current_reporter, results <- lapply(paths,
     test_file, env = env, reporter = current_reporter, start_end_reporter = FALSE,
     load_helpers = FALSE, wrap = wrap))
     where 39: test_files(paths, reporter = reporter, env = env, stop_on_failure = stop_on_failure,
     stop_on_warning = stop_on_warning, wrap = wrap)
     where 40: test_dir(path = test_path, reporter = reporter, env = env, filter = filter,
     ..., stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning,
     wrap = wrap)
     where 41: test_package_dir(package = package, test_path = test_path, filter = filter,
     reporter = reporter, ..., stop_on_failure = stop_on_failure,
     stop_on_warning = stop_on_warning, wrap = wrap)
     where 42: test_check("letsR")
    
     --- value of length: 2 type: logical ---
     [1] FALSE FALSE
     --- function from context ---
     function (xy, asdist = TRUE, ...)
     {
     if (class(xy) == "PresenceAbsence") {
     xy <- xy[[1]][, 1:2]
     }
     if (exists("miles")) {
     distan <- rdist.earth(xy, miles = FALSE, ...)
     }
     else {
     distan <- rdist.earth(xy, ...)
     }
     diag(distan) <- 0
     if (asdist) {
     distan <- as.dist(distan)
     }
     return(distan)
     }
     <bytecode: 0x7b357a8>
     <environment: namespace:letsR>
     --- function search by body ---
     Function lets.distmat in namespace letsR has this body.
     ----------- END OF FAILURE REPORT --------------
     -- 20. Error: lets.midpoint works fine, method = CMD (@test-lets_midpoint.R#40)
     the condition has length > 1
     Backtrace:
     1. letsR::lets.midpoint(PAM, method = "CMD")
     2. letsR::lets.distmat(pam2[loc, 1:2], asdist = FALSE)
    
     -- 21. Failure: lets.overlap works fine, Chesser&Zink (@test-lets_overlap.R#11)
     class(resu_test) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ----------- FAILURE REPORT --------------
     --- failure: the condition has length > 1 ---
     --- srcref ---
     :
     --- package (from environment) ---
     letsR
     --- call from context ---
     lets.overlap(PAM[[1]][, -c(1, 2)], method = "Chesser&Zink", xy = FALSE)
     --- call from argument ---
     if (class(pam) == "PresenceAbsence") {
     pam <- pam[[1]][, -(1:2), drop = FALSE]
     }
     --- R stacktrace ---
     where 1 at testthat/test-lets_overlap.R#20: lets.overlap(PAM[[1]][, -c(1, 2)], method = "Chesser&Zink", xy = FALSE)
     where 2: eval(code, test_env)
     where 3: eval(code, test_env)
     where 4: withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error)
     where 5: doTryCatch(return(expr), name, parentenv, handler)
     where 6: tryCatchOne(expr, names, parentenv, handlers[[1L]])
     where 7: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
     where 8: doTryCatch(return(expr), name, parentenv, handler)
     where 9: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]),
     names[nh], parentenv, handlers[[nh]])
     where 10: tryCatchList(expr, classes, parentenv, handlers)
     where 11: tryCatch(withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error), error = handle_fatal,
     skip = function(e) {
     })
     where 12: test_code(desc, code, env = parent.frame())
     where 13 at testthat/test-lets_overlap.R#17: test_that("lets.overlap works fine, xy = FALSE", {
     resu_test <- lets.overlap(PAM[[1]][, -c(1, 2)], method = "Chesser&Zink",
     xy = FALSE)
     expect_equal(class(resu_test), "matrix")
     expect_true(all(dim(resu_test) == length(PAM[[3]])))
     expect_true(!any(is.na(resu_test)))
     })
     where 14: eval(code, test_env)
     where 15: eval(code, test_env)
     where 16: withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error)
     where 17: doTryCatch(return(expr), name, parentenv, handler)
     where 18: tryCatchOne(expr, names, parentenv, handlers[[1L]])
     where 19: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
     where 20: doTryCatch(return(expr), name, parentenv, handler)
     where 21: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]),
     names[nh], parentenv, handlers[[nh]])
     where 22: tryCatchList(expr, classes, parentenv, handlers)
     where 23: tryCatch(withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error), error = handle_fatal,
     skip = function(e) {
     })
     where 24: test_code(NULL, exprs, env)
     where 25: source_file(path, new.env(parent = env), chdir = TRUE, wrap = wrap)
     where 26: force(code)
     where 27: doWithOneRestart(return(expr), restart)
     where 28: withOneRestart(expr, restarts[[1L]])
     where 29: withRestarts(testthat_abort_reporter = function() NULL, force(code))
     where 30: with_reporter(reporter = reporter, start_end_reporter = start_end_reporter,
     {
     reporter$start_file(basename(path))
     lister$start_file(basename(path))
     source_file(path, new.env(parent = env), chdir = TRUE,
     wrap = wrap)
     reporter$.end_context()
     reporter$end_file()
     })
     where 31: FUN(X[[i]], ...)
     where 32: lapply(paths, test_file, env = env, reporter = current_reporter,
     start_end_reporter = FALSE, load_helpers = FALSE, wrap = wrap)
     where 33: force(code)
     where 34: doWithOneRestart(return(expr), restart)
     where 35: withOneRestart(expr, restarts[[1L]])
     where 36: withRestarts(testthat_abort_reporter = function() NULL, force(code))
     where 37: with_reporter(reporter = current_reporter, results <- lapply(paths,
     test_file, env = env, reporter = current_reporter, start_end_reporter = FALSE,
     load_helpers = FALSE, wrap = wrap))
     where 38: test_files(paths, reporter = reporter, env = env, stop_on_failure = stop_on_failure,
     stop_on_warning = stop_on_warning, wrap = wrap)
     where 39: test_dir(path = test_path, reporter = reporter, env = env, filter = filter,
     ..., stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning,
     wrap = wrap)
     where 40: test_package_dir(package = package, test_path = test_path, filter = filter,
     reporter = reporter, ..., stop_on_failure = stop_on_failure,
     stop_on_warning = stop_on_warning, wrap = wrap)
     where 41: test_check("letsR")
    
     --- value of length: 2 type: logical ---
     [1] FALSE FALSE
     --- function from context ---
     function (pam, method = "Chesser&Zink", xy = NULL)
     {
     methods <- c("Chesser&Zink", "Proportional", "Cells")
     if (!any(method == methods)) {
     stop(paste("The method", method, "is not implemented.",
     "Please check the spelling."))
     }
     if (!any(class(pam) %in% c("matrix", "PresenceAbsence"))) {
     stop(paste("Object pam should be either a PresenceAbsence or a matrix.\n Not a",
     class(pam)))
     }
     if (is.matrix(pam)) {
     if (is.null(xy)) {
     stop(paste("Please set if your matrix contains ",
     "coordinates in the first two columns", "(xy argument)."),
     sep = "")
     }
     if (xy) {
     pam <- pam[, -(1:2), drop = FALSE]
     }
     }
     if (class(pam) == "PresenceAbsence") {
     pam <- pam[[1]][, -(1:2), drop = FALSE]
     }
     nomes <- colnames(pam)
     n <- ncol(pam)
     resu <- matrix(NA, ncol = n, nrow = n)
     if (method == "Cells") {
     diag(resu) <- 1
     for (i in 1:(n - 1)) {
     for (j in ((i + 1):n)) {
     over <- sum(rowSums(pam[, c(i, j)]) == 2)
     resu[i, j] <- over
     }
     }
     ind <- lower.tri(resu)
     resu[ind] <- t(resu)[ind]
     }
     if (method == "Proportional") {
     range <- colSums(pam)
     for (i in 1:n) {
     for (j in 1:n) {
     over <- sum(rowSums(pam[, c(i, j)]) == 2)
     if (range[i] == 0) {
     over2 <- 0
     }
     else {
     over2 <- over/range[i]
     }
     resu[i, j] <- over2
     }
     }
     }
     if (method == "Chesser&Zink") {
     range <- colSums(pam)
     diag(resu) <- 1
     for (i in 1:(n - 1)) {
     for (j in ((i + 1):n)) {
     over <- sum(rowSums(pam[, c(i, j)]) == 2)
     if (any(range[c(i, j)] %in% 0)) {
     resu[i, j] <- 0
     }
     else {
     resu[i, j] <- over/min(range[c(i, j)])
     }
     }
     }
     ind <- lower.tri(resu)
     resu[ind] <- t(resu)[ind]
     }
     colnames(resu) <- nomes
     rownames(resu) <- nomes
     return(resu)
     }
     <bytecode: 0x7b08598>
     <environment: namespace:letsR>
     --- function search by body ---
     Function lets.overlap in namespace letsR has this body.
     ----------- END OF FAILURE REPORT --------------
     -- 22. Error: lets.overlap works fine, xy = FALSE (@test-lets_overlap.R#20) ---
     the condition has length > 1
     Backtrace:
     1. letsR::lets.overlap(...)
    
     ----------- FAILURE REPORT --------------
     --- failure: the condition has length > 1 ---
     --- srcref ---
     :
     --- package (from environment) ---
     letsR
     --- call from context ---
     lets.overlap(PAM[[1]], method = "Chesser&Zink", xy = TRUE)
     --- call from argument ---
     if (class(pam) == "PresenceAbsence") {
     pam <- pam[[1]][, -(1:2), drop = FALSE]
     }
     --- R stacktrace ---
     where 1 at testthat/test-lets_overlap.R#33: lets.overlap(PAM[[1]], method = "Chesser&Zink", xy = TRUE)
     where 2: eval(code, test_env)
     where 3: eval(code, test_env)
     where 4: withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error)
     where 5: doTryCatch(return(expr), name, parentenv, handler)
     where 6: tryCatchOne(expr, names, parentenv, handlers[[1L]])
     where 7: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
     where 8: doTryCatch(return(expr), name, parentenv, handler)
     where 9: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]),
     names[nh], parentenv, handlers[[nh]])
     where 10: tryCatchList(expr, classes, parentenv, handlers)
     where 11: tryCatch(withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error), error = handle_fatal,
     skip = function(e) {
     })
     where 12: test_code(desc, code, env = parent.frame())
     where 13 at testthat/test-lets_overlap.R#30: test_that("lets.overlap works fine, xy = TRUE", {
     resu_test <- lets.overlap(PAM[[1]], method = "Chesser&Zink",
     xy = TRUE)
     expect_equal(class(resu_test), "matrix")
     expect_true(all(dim(resu_test) == length(PAM[[3]])))
     expect_true(!any(is.na(resu_test)))
     })
     where 14: eval(code, test_env)
     where 15: eval(code, test_env)
     where 16: withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error)
     where 17: doTryCatch(return(expr), name, parentenv, handler)
     where 18: tryCatchOne(expr, names, parentenv, handlers[[1L]])
     where 19: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
     where 20: doTryCatch(return(expr), name, parentenv, handler)
     where 21: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]),
     names[nh], parentenv, handlers[[nh]])
     where 22: tryCatchList(expr, classes, parentenv, handlers)
     where 23: tryCatch(withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error), error = handle_fatal,
     skip = function(e) {
     })
     where 24: test_code(NULL, exprs, env)
     where 25: source_file(path, new.env(parent = env), chdir = TRUE, wrap = wrap)
     where 26: force(code)
     where 27: doWithOneRestart(return(expr), restart)
     where 28: withOneRestart(expr, restarts[[1L]])
     where 29: withRestarts(testthat_abort_reporter = function() NULL, force(code))
     where 30: with_reporter(reporter = reporter, start_end_reporter = start_end_reporter,
     {
     reporter$start_file(basename(path))
     lister$start_file(basename(path))
     source_file(path, new.env(parent = env), chdir = TRUE,
     wrap = wrap)
     reporter$.end_context()
     reporter$end_file()
     })
     where 31: FUN(X[[i]], ...)
     where 32: lapply(paths, test_file, env = env, reporter = current_reporter,
     start_end_reporter = FALSE, load_helpers = FALSE, wrap = wrap)
     where 33: force(code)
     where 34: doWithOneRestart(return(expr), restart)
     where 35: withOneRestart(expr, restarts[[1L]])
     where 36: withRestarts(testthat_abort_reporter = function() NULL, force(code))
     where 37: with_reporter(reporter = current_reporter, results <- lapply(paths,
     test_file, env = env, reporter = current_reporter, start_end_reporter = FALSE,
     load_helpers = FALSE, wrap = wrap))
     where 38: test_files(paths, reporter = reporter, env = env, stop_on_failure = stop_on_failure,
     stop_on_warning = stop_on_warning, wrap = wrap)
     where 39: test_dir(path = test_path, reporter = reporter, env = env, filter = filter,
     ..., stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning,
     wrap = wrap)
     where 40: test_package_dir(package = package, test_path = test_path, filter = filter,
     reporter = reporter, ..., stop_on_failure = stop_on_failure,
     stop_on_warning = stop_on_warning, wrap = wrap)
     where 41: test_check("letsR")
    
     --- value of length: 2 type: logical ---
     [1] FALSE FALSE
     --- function from context ---
     function (pam, method = "Chesser&Zink", xy = NULL)
     {
     methods <- c("Chesser&Zink", "Proportional", "Cells")
     if (!any(method == methods)) {
     stop(paste("The method", method, "is not implemented.",
     "Please check the spelling."))
     }
     if (!any(class(pam) %in% c("matrix", "PresenceAbsence"))) {
     stop(paste("Object pam should be either a PresenceAbsence or a matrix.\n Not a",
     class(pam)))
     }
     if (is.matrix(pam)) {
     if (is.null(xy)) {
     stop(paste("Please set if your matrix contains ",
     "coordinates in the first two columns", "(xy argument)."),
     sep = "")
     }
     if (xy) {
     pam <- pam[, -(1:2), drop = FALSE]
     }
     }
     if (class(pam) == "PresenceAbsence") {
     pam <- pam[[1]][, -(1:2), drop = FALSE]
     }
     nomes <- colnames(pam)
     n <- ncol(pam)
     resu <- matrix(NA, ncol = n, nrow = n)
     if (method == "Cells") {
     diag(resu) <- 1
     for (i in 1:(n - 1)) {
     for (j in ((i + 1):n)) {
     over <- sum(rowSums(pam[, c(i, j)]) == 2)
     resu[i, j] <- over
     }
     }
     ind <- lower.tri(resu)
     resu[ind] <- t(resu)[ind]
     }
     if (method == "Proportional") {
     range <- colSums(pam)
     for (i in 1:n) {
     for (j in 1:n) {
     over <- sum(rowSums(pam[, c(i, j)]) == 2)
     if (range[i] == 0) {
     over2 <- 0
     }
     else {
     over2 <- over/range[i]
     }
     resu[i, j] <- over2
     }
     }
     }
     if (method == "Chesser&Zink") {
     range <- colSums(pam)
     diag(resu) <- 1
     for (i in 1:(n - 1)) {
     for (j in ((i + 1):n)) {
     over <- sum(rowSums(pam[, c(i, j)]) == 2)
     if (any(range[c(i, j)] %in% 0)) {
     resu[i, j] <- 0
     }
     else {
     resu[i, j] <- over/min(range[c(i, j)])
     }
     }
     }
     ind <- lower.tri(resu)
     resu[ind] <- t(resu)[ind]
     }
     colnames(resu) <- nomes
     rownames(resu) <- nomes
     return(resu)
     }
     <bytecode: 0x7b08598>
     <environment: namespace:letsR>
     --- function search by body ---
     Function lets.overlap in namespace letsR has this body.
     ----------- END OF FAILURE REPORT --------------
     -- 23. Error: lets.overlap works fine, xy = TRUE (@test-lets_overlap.R#33) ----
     the condition has length > 1
     Backtrace:
     1. letsR::lets.overlap(PAM[[1]], method = "Chesser&Zink", xy = TRUE)
    
     -- 24. Failure: lets.overlap works fine, Cells (@test-lets_overlap.R#47) ------
     class(resu_test) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     -- 25. Failure: lets.overlap works fine, Proportional (@test-lets_overlap.R#57)
     class(resu_test) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     -- 26. Failure: lets.pamcrop works fine, remove.sp = TRUE (@test-lets_pamcrop.R#
     class(resu_test[[1]]) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     -- 27. Failure: lets.pamcrop works fine, remove.sp = FALSE (@test-lets_pamcrop.R
     class(resu_test[[1]]) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     -- 28. Failure: lets.presab.birds return a correct PresenceAbsence object (@test
     class(PAM[[1]]) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     -- 29. Failure: lets.presab.grid works fine (@test-lets_presab_grid.R#16) -----
     class(resu[[1]]) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     -- 30. Failure: lets.presab.points return a correct PresenceAbsence object (@tes
     class(PAM[[1]]) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     -- 31. Failure: lets.presab.points return a correct PresenceAbsence object for t
     class(PAM[[1]]) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     -- 32. Failure: lets.presab.points return a correct PresenceAbsence object (coun
     class(PAM[[1]]) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     -- 33. Failure: lets.presab.points return a correct PresenceAbsence object, remo
     class(PAM[[1]]) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     -- 34. Failure: lets.presab.points return a correct PresenceAbsence object, remo
     class(PAM[[1]]) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     -- 35. Failure: lets.rangesize works fine, geographic (@test-lets_rangesize.R#13
     class(resu_test) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     -- 36. Failure: lets.rangesize works fine, planar (@test-lets_rangesize.R#25) -
     class(resu_test) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     -- 37. Failure: lets.rangesize works fine, squaremeter (@test-lets_rangesize.R#3
     class(resu_test) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     -- 38. Failure: lets.rangesize works fine, squaremeter (@test-lets_rangesize.R#4
     class(resu_test) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     -- 39. Failure: lets.rangesize works fine, squaremeter global (@test-lets_ranges
     class(resu_test) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     -- 40. Failure: lets.subsetPAM works fine, remove.cells = TRUE (@test-lets_subse
     class(resu_test[[1]]) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     -- 41. Failure: lets.subsetPAM works fine, remove.cells = FALSE (@test-lets_subs
     class(resu_test[[1]]) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ----------- FAILURE REPORT --------------
     --- failure: the condition has length > 1 ---
     --- srcref ---
     :
     --- package (from environment) ---
     letsR
     --- call from context ---
     lets.subsetPAM(PAM[[1]], PAM[[3]][1:20])
     --- call from argument ---
     if (class(x) != "PresenceAbsence") {
     stop("x argument must be a PresenceAbsence object")
     }
     --- R stacktrace ---
     where 1: lets.subsetPAM(PAM[[1]], PAM[[3]][1:20])
     where 2: eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     where 3: withCallingHandlers({
     code
     NULL
     }, error = function(cnd) {
     if (can_entrace(cnd)) {
     cnd <- cnd_entrace(cnd)
     }
     return_from(env, cnd)
     })
     where 4: .capture(act$val <- eval_bare(quo_get_expr(.quo), quo_get_env(.quo)),
     ...)
     where 5: quasi_capture(enquo(object), label, capture_error, entrace = TRUE)
     where 6 at testthat/test-lets_subsetPAM.R#39: expect_error(lets.subsetPAM(PAM[[1]], PAM[[3]][1:20]))
     where 7: eval(code, test_env)
     where 8: eval(code, test_env)
     where 9: withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error)
     where 10: doTryCatch(return(expr), name, parentenv, handler)
     where 11: tryCatchOne(expr, names, parentenv, handlers[[1L]])
     where 12: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
     where 13: doTryCatch(return(expr), name, parentenv, handler)
     where 14: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]),
     names[nh], parentenv, handlers[[nh]])
     where 15: tryCatchList(expr, classes, parentenv, handlers)
     where 16: tryCatch(withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error), error = handle_fatal,
     skip = function(e) {
     })
     where 17: test_code(desc, code, env = parent.frame())
     where 18 at testthat/test-lets_subsetPAM.R#36: test_that("lets.subsetPAM error check", {
     expect_error(lets.subsetPAM(PAM, "Bruno"))
     expect_error(lets.subsetPAM(PAM[[1]], PAM[[3]][1:20]))
     expect_error(lets.subsetPAM(PAM, 1))
     expect_error(lets.subsetPAM(PAM[[1]], PAM[[3]][1:20]))
     expect_error(lets.subsetPAM(PAM, PAM[[3]][1:20], 1))
     expect_warning(lets.subsetPAM(PAM, c("Bruno", PAM[[3]][1:20])))
     })
     where 19: eval(code, test_env)
     where 20: eval(code, test_env)
     where 21: withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error)
     where 22: doTryCatch(return(expr), name, parentenv, handler)
     where 23: tryCatchOne(expr, names, parentenv, handlers[[1L]])
     where 24: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
     where 25: doTryCatch(return(expr), name, parentenv, handler)
     where 26: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]),
     names[nh], parentenv, handlers[[nh]])
     where 27: tryCatchList(expr, classes, parentenv, handlers)
     where 28: tryCatch(withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error), error = handle_fatal,
     skip = function(e) {
     })
     where 29: test_code(NULL, exprs, env)
     where 30: source_file(path, new.env(parent = env), chdir = TRUE, wrap = wrap)
     where 31: force(code)
     where 32: doWithOneRestart(return(expr), restart)
     where 33: withOneRestart(expr, restarts[[1L]])
     where 34: withRestarts(testthat_abort_reporter = function() NULL, force(code))
     where 35: with_reporter(reporter = reporter, start_end_reporter = start_end_reporter,
     {
     reporter$start_file(basename(path))
     lister$start_file(basename(path))
     source_file(path, new.env(parent = env), chdir = TRUE,
     wrap = wrap)
     reporter$.end_context()
     reporter$end_file()
     })
     where 36: FUN(X[[i]], ...)
     where 37: lapply(paths, test_file, env = env, reporter = current_reporter,
     start_end_reporter = FALSE, load_helpers = FALSE, wrap = wrap)
     where 38: force(code)
     where 39: doWithOneRestart(return(expr), restart)
     where 40: withOneRestart(expr, restarts[[1L]])
     where 41: withRestarts(testthat_abort_reporter = function() NULL, force(code))
     where 42: with_reporter(reporter = current_reporter, results <- lapply(paths,
     test_file, env = env, reporter = current_reporter, start_end_reporter = FALSE,
     load_helpers = FALSE, wrap = wrap))
     where 43: test_files(paths, reporter = reporter, env = env, stop_on_failure = stop_on_failure,
     stop_on_warning = stop_on_warning, wrap = wrap)
     where 44: test_dir(path = test_path, reporter = reporter, env = env, filter = filter,
     ..., stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning,
     wrap = wrap)
     where 45: test_package_dir(package = package, test_path = test_path, filter = filter,
     reporter = reporter, ..., stop_on_failure = stop_on_failure,
     stop_on_warning = stop_on_warning, wrap = wrap)
     where 46: test_check("letsR")
    
     --- value of length: 2 type: logical ---
     [1] TRUE TRUE
     --- function from context ---
     function (x, names, remove.cells = TRUE)
     {
     if (class(x) != "PresenceAbsence") {
     stop("x argument must be a PresenceAbsence object")
     }
     if (class(names) != "character") {
     stop("names argument must be a character object")
     }
     if (class(remove.cells) != "logical") {
     stop("remove.cells argument must be a TRUE or FALSE")
     }
     pos <- colnames(x[[1]]) %in% names
     errorcont <- names %in% colnames(x[[1]])
     if (!any(errorcont)) {
     stop("None of the names provided match with PAM species")
     }
     if (any(!errorcont)) {
     warning(paste("One or more names", "provided, do not",
     "match any of the", "PAM species"))
     }
     x[[1]] <- x[[1]][, c(1:2, which(pos)), drop = FALSE]
     if (remove.cells) {
     x[[1]] <- .removeCells(x[[1]])
     }
     rich <- rowSums(x[[1]][, -(1:2), drop = FALSE])
     x[[2]] <- rasterize(x[[1]][, c(1:2), drop = FALSE], x[[2]],
     rich)
     x[[3]] <- colnames(x[[1]])[-c(1:2)]
     return(x)
     }
     <bytecode: 0x7ae6100>
     <environment: namespace:letsR>
     --- function search by body ---
     Function lets.subsetPAM in namespace letsR has this body.
     ----------- END OF FAILURE REPORT --------------
     ----------- FAILURE REPORT --------------
     --- failure: the condition has length > 1 ---
     --- srcref ---
     :
     --- package (from environment) ---
     letsR
     --- call from context ---
     lets.subsetPAM(PAM[[1]], PAM[[3]][1:20])
     --- call from argument ---
     if (class(x) != "PresenceAbsence") {
     stop("x argument must be a PresenceAbsence object")
     }
     --- R stacktrace ---
     where 1: lets.subsetPAM(PAM[[1]], PAM[[3]][1:20])
     where 2: eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
     where 3: withCallingHandlers({
     code
     NULL
     }, error = function(cnd) {
     if (can_entrace(cnd)) {
     cnd <- cnd_entrace(cnd)
     }
     return_from(env, cnd)
     })
     where 4: .capture(act$val <- eval_bare(quo_get_expr(.quo), quo_get_env(.quo)),
     ...)
     where 5: quasi_capture(enquo(object), label, capture_error, entrace = TRUE)
     where 6 at testthat/test-lets_subsetPAM.R#41: expect_error(lets.subsetPAM(PAM[[1]], PAM[[3]][1:20]))
     where 7: eval(code, test_env)
     where 8: eval(code, test_env)
     where 9: withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error)
     where 10: doTryCatch(return(expr), name, parentenv, handler)
     where 11: tryCatchOne(expr, names, parentenv, handlers[[1L]])
     where 12: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
     where 13: doTryCatch(return(expr), name, parentenv, handler)
     where 14: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]),
     names[nh], parentenv, handlers[[nh]])
     where 15: tryCatchList(expr, classes, parentenv, handlers)
     where 16: tryCatch(withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error), error = handle_fatal,
     skip = function(e) {
     })
     where 17: test_code(desc, code, env = parent.frame())
     where 18 at testthat/test-lets_subsetPAM.R#36: test_that("lets.subsetPAM error check", {
     expect_error(lets.subsetPAM(PAM, "Bruno"))
     expect_error(lets.subsetPAM(PAM[[1]], PAM[[3]][1:20]))
     expect_error(lets.subsetPAM(PAM, 1))
     expect_error(lets.subsetPAM(PAM[[1]], PAM[[3]][1:20]))
     expect_error(lets.subsetPAM(PAM, PAM[[3]][1:20], 1))
     expect_warning(lets.subsetPAM(PAM, c("Bruno", PAM[[3]][1:20])))
     })
     where 19: eval(code, test_env)
     where 20: eval(code, test_env)
     where 21: withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error)
     where 22: doTryCatch(return(expr), name, parentenv, handler)
     where 23: tryCatchOne(expr, names, parentenv, handlers[[1L]])
     where 24: tryCatchList(expr, names[-nh], parentenv, handlers[-nh])
     where 25: doTryCatch(return(expr), name, parentenv, handler)
     where 26: tryCatchOne(tryCatchList(expr, names[-nh], parentenv, handlers[-nh]),
     names[nh], parentenv, handlers[[nh]])
     where 27: tryCatchList(expr, classes, parentenv, handlers)
     where 28: tryCatch(withCallingHandlers({
     eval(code, test_env)
     if (!handled && !is.null(test)) {
     skip_empty()
     }
     }, expectation = handle_expectation, skip = handle_skip, warning = handle_warning,
     message = handle_message, error = handle_error), error = handle_fatal,
     skip = function(e) {
     })
     where 29: test_code(NULL, exprs, env)
     where 30: source_file(path, new.env(parent = env), chdir = TRUE, wrap = wrap)
     where 31: force(code)
     where 32: doWithOneRestart(return(expr), restart)
     where 33: withOneRestart(expr, restarts[[1L]])
     where 34: withRestarts(testthat_abort_reporter = function() NULL, force(code))
     where 35: with_reporter(reporter = reporter, start_end_reporter = start_end_reporter,
     {
     reporter$start_file(basename(path))
     lister$start_file(basename(path))
     source_file(path, new.env(parent = env), chdir = TRUE,
     wrap = wrap)
     reporter$.end_context()
     reporter$end_file()
     })
     where 36: FUN(X[[i]], ...)
     where 37: lapply(paths, test_file, env = env, reporter = current_reporter,
     start_end_reporter = FALSE, load_helpers = FALSE, wrap = wrap)
     where 38: force(code)
     where 39: doWithOneRestart(return(expr), restart)
     where 40: withOneRestart(expr, restarts[[1L]])
     where 41: withRestarts(testthat_abort_reporter = function() NULL, force(code))
     where 42: with_reporter(reporter = current_reporter, results <- lapply(paths,
     test_file, env = env, reporter = current_reporter, start_end_reporter = FALSE,
     load_helpers = FALSE, wrap = wrap))
     where 43: test_files(paths, reporter = reporter, env = env, stop_on_failure = stop_on_failure,
     stop_on_warning = stop_on_warning, wrap = wrap)
     where 44: test_dir(path = test_path, reporter = reporter, env = env, filter = filter,
     ..., stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning,
     wrap = wrap)
     where 45: test_package_dir(package = package, test_path = test_path, filter = filter,
     reporter = reporter, ..., stop_on_failure = stop_on_failure,
     stop_on_warning = stop_on_warning, wrap = wrap)
     where 46: test_check("letsR")
    
     --- value of length: 2 type: logical ---
     [1] TRUE TRUE
     --- function from context ---
     function (x, names, remove.cells = TRUE)
     {
     if (class(x) != "PresenceAbsence") {
     stop("x argument must be a PresenceAbsence object")
     }
     if (class(names) != "character") {
     stop("names argument must be a character object")
     }
     if (class(remove.cells) != "logical") {
     stop("remove.cells argument must be a TRUE or FALSE")
     }
     pos <- colnames(x[[1]]) %in% names
     errorcont <- names %in% colnames(x[[1]])
     if (!any(errorcont)) {
     stop("None of the names provided match with PAM species")
     }
     if (any(!errorcont)) {
     warning(paste("One or more names", "provided, do not",
     "match any of the", "PAM species"))
     }
     x[[1]] <- x[[1]][, c(1:2, which(pos)), drop = FALSE]
     if (remove.cells) {
     x[[1]] <- .removeCells(x[[1]])
     }
     rich <- rowSums(x[[1]][, -(1:2), drop = FALSE])
     x[[2]] <- rasterize(x[[1]][, c(1:2), drop = FALSE], x[[2]],
     rich)
     x[[3]] <- colnames(x[[1]])[-c(1:2)]
     return(x)
     }
     <bytecode: 0x7ae6100>
     <environment: namespace:letsR>
     --- function search by body ---
     Function lets.subsetPAM in namespace letsR has this body.
     ----------- END OF FAILURE REPORT --------------
    
     Class: PresenceAbsence
     Number of species: 32
     Number of cells: 1168
     Resolution: 1, 1 (x, y)
    
     Class: PresenceAbsence
     _ _
     Number of species: 32
     Number of cells: 1168
     Cells with presence: 1168
     Cells without presence: 0
     Species without presence: 0
     Species with the largest range: Phyllomedusa hypochondrialis
     _ _
     Grid parameters
     Resolution: 1, 1 (x, y)
     Extention: -93, -29, -57, 15 (xmin, xmax, ymin, ymax)
     Coord. Ref.: +proj=longlat +datum=WGS84== testthat results ===========================================================
     [ OK: 138 | SKIPPED: 15 | WARNINGS: 11 | FAILED: 41 ]
     1. Failure: Other parameters work (@test-TimLucas.r#76)
     2. Failure: lets.addpoly works fine, onlyvar = FALSE (@test-lets_addpoly.R#11)
     3. Failure: lets.addpoly works fine, onlyvar = TRUE (@test-lets_addpoly.R#18)
     4. Failure: lets.addvar works fine (@test-lets_addvar.R#11)
     5. Failure: lets.addvar works fine, different fun (@test-lets_addvar.R#20)
     6. Failure: lets.addvar works fine, onlyvar = TRUE (@test-lets_addvar.R#29)
     7. Failure: lets.addvar works fine, multiple rasters (@test-lets_addvar.R#38)
     8. Failure: lets.addpoly lets.classvar fine (@test-lets_classvar.R#13)
     9. Failure: lets.addpoly lets.classvar fine, xy = FALSE (@test-lets_classvar.R#24)
     1. ...
    
     Error: testthat unit tests failed
     Execution halted
Flavor: r-devel-linux-x86_64-debian-clang

Version: 3.1
Check: tests
Result: ERROR
     Running ‘test-all.R’ [47s/65s]
    Running the tests in ‘tests/test-all.R’ failed.
    Complete output:
     > library(testthat)
     > test_check("letsR")
     Loading required package: letsR
     Loading required package: raster
     Loading required package: sp
     Loading required package: maps
     ── 1. Failure: Other parameters work (@test-TimLucas.r#76) ────────────────────
     class(PresAbMat4) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ── 2. Failure: lets.addpoly works fine, onlyvar = FALSE (@test-lets_addpoly.R#11
     class(resu_test) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ── 3. Failure: lets.addpoly works fine, onlyvar = TRUE (@test-lets_addpoly.R#18)
     class(resu_test) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     Error in x$.self$finalize() : attempt to apply non-function
     Error in x$.self$finalize() : attempt to apply non-function
     Error in x$.self$finalize() : attempt to apply non-function
     ── 4. Failure: lets.addvar works fine (@test-lets_addvar.R#11) ────────────────
     class(PAM_temp_mean) == "matrix" isn't true.
    
     ── 5. Failure: lets.addvar works fine, different fun (@test-lets_addvar.R#20) ─
     class(PAM_temp_mean) == "matrix" isn't true.
    
     ── 6. Failure: lets.addvar works fine, onlyvar = TRUE (@test-lets_addvar.R#29)
     class(PAM_temp_mean) == "matrix" isn't true.
    
     ── 7. Failure: lets.addvar works fine, multiple rasters (@test-lets_addvar.R#38)
     class(PAM_temp_mean) == "matrix" isn't true.
    
     ── 8. Failure: lets.addpoly lets.classvar fine (@test-lets_classvar.R#13) ─────
     class(resu_test) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ── 9. Failure: lets.addpoly lets.classvar fine, xy = FALSE (@test-lets_classvar.
     class(resu_test) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ── 10. Failure: lets.addpoly lets.classvar fine, set groups (@test-lets_classvar
     class(resu_test) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ── 11. Failure: lets.correl works fine (@test-lets_correl.R#13) ───────────────
     class(correl) == "matrix" isn't true.
    
     ── 12. Failure: lets.correl works fine, equidistant = TRUE (@test-lets_correl.R#
     class(correl) == "matrix" isn't true.
    
     ── 13. Failure: lets.correl works fine, plot = TRUE (@test-lets_correl.R#27) ──
     class(correl) == "matrix" isn't true.
    
     ── 14. Failure: lets.correl works fine, matrix (@test-lets_correl.R#35) ───────
     class(correl) == "matrix" isn't true.
    
     ── 15. Failure: lets.correl works fine, multiple (@test-lets_correl.R#42) ─────
     class(correl) == "matrix" isn't true.
    
     ── 16. Failure: lets.distmat works fine, asdist = FALSE (@test-lets_distmat.R#22
     class(distPAM) == "matrix" isn't true.
    
     ── 17. Failure: lets.gridirizer works fine (@test-lets_gridirizer.R#11) ───────
     class(resu_test[[2]]) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ── 18. Failure: lets.maplizer works fine (@test-lets_maplizer.R#10) ───────────
     class(resu_test) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ── 19. Failure: lets.maplizer works fine, other func (@test-lets_maplizer.R#17)
     class(resu_test) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ── 20. Failure: lets.maplizer works fine (@test-lets_maplizer.R#25) ───────────
     class(resu_test[[1]]) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ── 21. Failure: lets.overlap works fine, Chesser&Zink (@test-lets_overlap.R#11)
     class(resu_test) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ── 22. Failure: lets.overlap works fine, xy = FALSE (@test-lets_overlap.R#24) ─
     class(resu_test) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ── 23. Failure: lets.overlap works fine, xy = TRUE (@test-lets_overlap.R#37) ──
     class(resu_test) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ── 24. Failure: lets.overlap works fine, Cells (@test-lets_overlap.R#47) ──────
     class(resu_test) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ── 25. Failure: lets.overlap works fine, Proportional (@test-lets_overlap.R#57)
     class(resu_test) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ── 26. Failure: lets.pamcrop works fine, remove.sp = TRUE (@test-lets_pamcrop.R#
     class(resu_test[[1]]) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ── 27. Failure: lets.pamcrop works fine, remove.sp = FALSE (@test-lets_pamcrop.R
     class(resu_test[[1]]) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ── 28. Failure: lets.presab.birds return a correct PresenceAbsence object (@test
     class(PAM[[1]]) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ── 29. Failure: lets.presab.grid works fine (@test-lets_presab_grid.R#16) ─────
     class(resu[[1]]) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ── 30. Failure: lets.presab.points return a correct PresenceAbsence object (@tes
     class(PAM[[1]]) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ── 31. Failure: lets.presab.points return a correct PresenceAbsence object for t
     class(PAM[[1]]) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ── 32. Failure: lets.presab.points return a correct PresenceAbsence object (coun
     class(PAM[[1]]) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ── 33. Failure: lets.presab.points return a correct PresenceAbsence object, remo
     class(PAM[[1]]) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ── 34. Failure: lets.presab.points return a correct PresenceAbsence object, remo
     class(PAM[[1]]) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ── 35. Failure: lets.rangesize works fine, geographic (@test-lets_rangesize.R#13
     class(resu_test) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ── 36. Failure: lets.rangesize works fine, planar (@test-lets_rangesize.R#25) ─
     class(resu_test) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ── 37. Failure: lets.rangesize works fine, squaremeter (@test-lets_rangesize.R#3
     class(resu_test) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ── 38. Failure: lets.rangesize works fine, squaremeter (@test-lets_rangesize.R#4
     class(resu_test) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ── 39. Failure: lets.rangesize works fine, squaremeter global (@test-lets_ranges
     class(resu_test) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ── 40. Failure: lets.subsetPAM works fine, remove.cells = TRUE (@test-lets_subse
     class(resu_test[[1]]) not equal to "matrix".
     Lengths differ: 2 is not 1
    
     ── 41. Failure: lets.subsetPAM works fine, remove.cells = FALSE (@test-lets_subs
     class(resu_test[[1]]) not equal to "matrix".
     Lengths differ: 2 is not 1
    
    
     Class: PresenceAbsence
     Number of species: 32
     Number of cells: 1168
     Resolution: 1, 1 (x, y)
    
     Class: PresenceAbsence
     _ _
     Number of species: 32
     Number of cells: 1168
     Cells with presence: 1168
     Cells without presence: 0
     Species without presence: 0
     Species with the largest range: Phyllomedusa hypochondrialis
     _ _
     Grid parameters
     Resolution: 1, 1 (x, y)
     Extention: -93, -29, -57, 15 (xmin, xmax, ymin, ymax)
     Coord. Ref.: +proj=longlat +datum=WGS84══ testthat results ═══════════════════════════════════════════════════════════
     [ OK: 160 | SKIPPED: 15 | WARNINGS: 48 | FAILED: 41 ]
     1. Failure: Other parameters work (@test-TimLucas.r#76)
     2. Failure: lets.addpoly works fine, onlyvar = FALSE (@test-lets_addpoly.R#11)
     3. Failure: lets.addpoly works fine, onlyvar = TRUE (@test-lets_addpoly.R#18)
     4. Failure: lets.addvar works fine (@test-lets_addvar.R#11)
     5. Failure: lets.addvar works fine, different fun (@test-lets_addvar.R#20)
     6. Failure: lets.addvar works fine, onlyvar = TRUE (@test-lets_addvar.R#29)
     7. Failure: lets.addvar works fine, multiple rasters (@test-lets_addvar.R#38)
     8. Failure: lets.addpoly lets.classvar fine (@test-lets_classvar.R#13)
     9. Failure: lets.addpoly lets.classvar fine, xy = FALSE (@test-lets_classvar.R#24)
     1. ...
    
     Error: testthat unit tests failed
     Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc