NicheBarcoding

CRAN incoming feasibility

Maintainer: ‘Cai-qing YANG <yangcq_ivy@163.com>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.

The BugReports field in DESCRIPTION has
  https://github.com/Yangcq-Ivy/NicheBarcoding
which should likely be
  https://github.com/Yangcq-Ivy/NicheBarcoding/issues
instead.

CRAN incoming feasibility

Maintainer: ‘Cai-qing YANG <yangcq_ivy@163.com>’

Package CITATION file contains call(s) to old-style personList() or
as.personList().  Please use c() on person objects instead.
Package CITATION file contains call(s) to old-style citEntry().  Please
use bibentry() instead.

The BugReports field in DESCRIPTION has
  https://github.com/Yangcq-Ivy/NicheBarcoding
which should likely be
  https://github.com/Yangcq-Ivy/NicheBarcoding/issues
instead.

dependencies in R code

Namespace in Imports field not imported from: ‘rJava’
  All declared Imports should be used.

dependencies in R code

Namespace in Imports field not imported from: ‘rJava’
  All declared Imports should be used.

tests

Running ‘testthat.R’ [25s/27s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(NicheBarcoding)
  > 
  > test_check("NicheBarcoding")
  Loading required namespace: rJava
  
   *** caught illegal operation ***
  address 0x1139eef78, cause 'illegal trap'
  
  Traceback:
   1: rJava::.jcall(mxe, "S", "fit", c("autorun", "-e", afn, "-o",     dirout, "-s", pfn, args))
   2: .local(x, p, ...)
   3: dismo::maxent(Data[, -1], Data[, 1], args = "outputformat=logistic")
   4: dismo::maxent(Data[, -1], Data[, 1], args = "outputformat=logistic")
   5: withCallingHandlers(expr, warning = function(w) if (inherits(w,     classes)) tryInvokeRestart("muffleWarning"))
   6: suppressWarnings(dismo::maxent(Data[, -1], Data[, 1], args = "outputformat=logistic"))
   7: niche.Model.Build(prese = NULL, absen = NULL, prese.env = prese.env,     absen.env = NULL, model = "MAXENT", bak.vir = bak.vir, en.vir = en.vir)
   8: NBSI(ref.seq, que.seq, ref.add = NULL, in
...[truncated]...
e, testthat_abort_reporter = function(cnd) {    cat(conditionMessage(cnd), "\n")    NULL})
  39: with_reporter(reporters$multi, lapply(test_paths, test_one_file,     env = env, desc = desc, error_call = error_call))
  40: test_files_serial(test_dir = test_dir, test_package = test_package,     test_paths = test_paths, load_helpers = load_helpers, reporter = reporter,     env = env, stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning,     desc = desc, load_package = load_package, error_call = error_call)
  41: test_files(test_dir = path, test_paths = test_paths, test_package = package,     reporter = reporter, load_helpers = load_helpers, env = env,     stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning,     load_package = load_package, parallel = parallel)
  42: test_dir("testthat", package = package, reporter = reporter,     ..., load_package = "installed")
  43: test_check("NicheBarcoding")
  An irrecoverable exception occurred. R is aborting now ...

tests

Running ‘testthat.R’ [24s/26s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
  > library(testthat)
  > library(NicheBarcoding)
  > 
  > test_check("NicheBarcoding")
  Loading required namespace: rJava
  
   *** caught illegal operation ***
  address 0x10a12ef78, cause 'illegal trap'
  
  Traceback:
   1: rJava::.jcall(mxe, "S", "fit", c("autorun", "-e", afn, "-o",     dirout, "-s", pfn, args))
   2: .local(x, p, ...)
   3: dismo::maxent(Data[, -1], Data[, 1], args = "outputformat=logistic")
   4: dismo::maxent(Data[, -1], Data[, 1], args = "outputformat=logistic")
   5: withCallingHandlers(expr, warning = function(w) if (inherits(w,     classes)) tryInvokeRestart("muffleWarning"))
   6: suppressWarnings(dismo::maxent(Data[, -1], Data[, 1], args = "outputformat=logistic"))
   7: niche.Model.Build(prese = NULL, absen = NULL, prese.env = prese.env,     absen.env = NULL, model = "MAXENT", bak.vir = bak.vir, en.vir = en.vir)
   8: NBSI(ref.seq, que.seq, ref.add = NULL, in
...[truncated]...
e, testthat_abort_reporter = function(cnd) {    cat(conditionMessage(cnd), "\n")    NULL})
  39: with_reporter(reporters$multi, lapply(test_paths, test_one_file,     env = env, desc = desc, error_call = error_call))
  40: test_files_serial(test_dir = test_dir, test_package = test_package,     test_paths = test_paths, load_helpers = load_helpers, reporter = reporter,     env = env, stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning,     desc = desc, load_package = load_package, error_call = error_call)
  41: test_files(test_dir = path, test_paths = test_paths, test_package = package,     reporter = reporter, load_helpers = load_helpers, env = env,     stop_on_failure = stop_on_failure, stop_on_warning = stop_on_warning,     load_package = load_package, parallel = parallel)
  42: test_dir("testthat", package = package, reporter = reporter,     ..., load_package = "installed")
  43: test_check("NicheBarcoding")
  An irrecoverable exception occurred. R is aborting now ...