CRAN Package Check Results for Package rphylotastic

Last updated on 2018-07-03 10:54:32 CEST.

Flavor	Version	T_install	T_check	T_total	Status
r-devel-linux-x86_64-debian-clang	0.0.4	1.21	24.81	26.02	ERROR
r-devel-linux-x86_64-debian-gcc	0.0.4	0.78	21.95	22.73	ERROR
r-devel-linux-x86_64-fedora-clang	0.0.4			33.12	ERROR
r-devel-linux-x86_64-fedora-gcc	0.0.4			31.54	ERROR
r-devel-windows-ix86+x86_64	0.0.4	5.00	73.00	78.00	ERROR
r-patched-linux-x86_64	0.0.4	1.24	24.57	25.81	ERROR
r-patched-solaris-x86	0.0.4			45.60	ERROR
r-release-linux-x86_64	0.0.4	1.30	24.83	26.13	ERROR
r-release-windows-ix86+x86_64	0.0.4	5.00	84.00	89.00	ERROR
r-release-osx-x86_64	0.0.4				OK
r-oldrel-windows-ix86+x86_64	0.0.4	4.00	89.00	93.00	ERROR
r-oldrel-osx-x86_64	0.0.4				OK

Check Details

Version: 0.0.4
Check: examples
Result: ERROR
    Running examples in ‘rphylotastic-Ex.R’ failed
    The error most likely occurred in:

    > base::assign(".ptime", proc.time(), pos = "CheckExEnv")
    > ### Name: taxa_get_taxonomic_tree
    > ### Title: Get taxonomic tree from the NCBI
    > ### Aliases: taxa_get_taxonomic_tree
    >
    > ### ** Examples
    >
    > taxa <- c("Setophaga striata", "Setophaga magnolia",
    + "Setophaga angelae", "Setophaga plumbea",
    + "Setophaga virens")
    > phy <- taxa_get_taxonomic_tree(taxa)
    Error in open.connection(con, "rb") : HTTP error 500.
    Calls: taxa_get_taxonomic_tree ... fromJSON_string -> parseJSON -> parse_con -> open -> open.connection
    Execution halted
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64, r-release-linux-x86_64

Version: 0.0.4
Check: tests
Result: ERROR
     Running ‘test-all.R’ [3s/29s]
    Running the tests in ‘tests/test-all.R’ failed.
    Complete output:
     > ###
     > library(testthat)
     > test_check('rphylotastic')
     Loading required package: rphylotastic
     ── 1. Error: Loading a tree from NCBI taxonomy (@test_tree.R#17) ──────────────
     HTTP error 500.
     1: taxa_get_taxonomic_tree(taxa) at testthat/test_tree.R:17
     2: jsonlite::fromJSON(paste(get_base_url(), "gt/pt/get_tree?taxa=", taxa.string, sep = ""))
     3: fromJSON_string(txt = txt, simplifyVector = simplifyVector, simplifyDataFrame = simplifyDataFrame,
     simplifyMatrix = simplifyMatrix, flatten = flatten, ...)
     4: parseJSON(txt, bigint_as_char)
     5: parse_con(txt, bigint_as_char)
     6: open(con, "rb")
     7: open.connection(con, "rb")

     ══ testthat results ═══════════════════════════════════════════════════════════
     OK: 36 SKIPPED: 0 FAILED: 1
     1. Error: Loading a tree from NCBI taxonomy (@test_tree.R#17)

     Error: testthat unit tests failed
     Execution halted
Flavors: r-devel-linux-x86_64-debian-clang, r-release-linux-x86_64

Version: 0.0.4
Check: tests
Result: ERROR
     Running ‘test-all.R’ [3s/31s]
    Running the tests in ‘tests/test-all.R’ failed.
    Complete output:
     > ###
     > library(testthat)
     > test_check('rphylotastic')
     Loading required package: rphylotastic
     ── 1. Error: Loading a tree from NCBI taxonomy (@test_tree.R#17) ──────────────
     HTTP error 500.
     1: taxa_get_taxonomic_tree(taxa) at testthat/test_tree.R:17
     2: jsonlite::fromJSON(paste(get_base_url(), "gt/pt/get_tree?taxa=", taxa.string, sep = ""))
     3: fromJSON_string(txt = txt, simplifyVector = simplifyVector, simplifyDataFrame = simplifyDataFrame,
     simplifyMatrix = simplifyMatrix, flatten = flatten, ...)
     4: parseJSON(txt, bigint_as_char)
     5: parse_con(txt, bigint_as_char)
     6: open(con, "rb")
     7: open.connection(con, "rb")

     ══ testthat results ═══════════════════════════════════════════════════════════
     OK: 36 SKIPPED: 0 FAILED: 1
     1. Error: Loading a tree from NCBI taxonomy (@test_tree.R#17)

     Error: testthat unit tests failed
     Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc

Version: 0.0.4
Check: examples
Result: ERROR
    Running examples in ‘rphylotastic-Ex.R’ failed
    The error most likely occurred in:

    > ### Name: taxa_get_taxonomic_tree
    > ### Title: Get taxonomic tree from the NCBI
    > ### Aliases: taxa_get_taxonomic_tree
    >
    > ### ** Examples
    >
    > taxa <- c("Setophaga striata", "Setophaga magnolia",
    + "Setophaga angelae", "Setophaga plumbea",
    + "Setophaga virens")
    > phy <- taxa_get_taxonomic_tree(taxa)
    Error in open.connection(con, "rb") : HTTP error 500.
    Calls: taxa_get_taxonomic_tree ... fromJSON_string -> parseJSON -> parse_con -> open -> open.connection
    Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-ix86+x86_64, r-patched-solaris-x86, r-release-windows-ix86+x86_64, r-oldrel-windows-ix86+x86_64

Version: 0.0.4
Check: tests
Result: ERROR
     Running ‘test-all.R’ [4s/31s]
    Running the tests in ‘tests/test-all.R’ failed.
    Complete output:
     > ###
     > library(testthat)
     > test_check('rphylotastic')
     Loading required package: rphylotastic
     ── 1. Error: Loading a tree from NCBI taxonomy (@test_tree.R#17) ──────────────
     HTTP error 500.
     1: taxa_get_taxonomic_tree(taxa) at testthat/test_tree.R:17
     2: jsonlite::fromJSON(paste(get_base_url(), "gt/pt/get_tree?taxa=", taxa.string, sep = ""))
     3: fromJSON_string(txt = txt, simplifyVector = simplifyVector, simplifyDataFrame = simplifyDataFrame,
     simplifyMatrix = simplifyMatrix, flatten = flatten, ...)
     4: parseJSON(txt, bigint_as_char)
     5: parse_con(txt, bigint_as_char)
     6: open(con, "rb")
     7: open.connection(con, "rb")

     ══ testthat results ═══════════════════════════════════════════════════════════
     OK: 36 SKIPPED: 0 FAILED: 1
     1. Error: Loading a tree from NCBI taxonomy (@test_tree.R#17)

     Error: testthat unit tests failed
     Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc

Version: 0.0.4
Check: tests
Result: ERROR
     Running 'test-all.R' [29s]
    Running the tests in 'tests/test-all.R' failed.
    Complete output:
     > ###
     > library(testthat)
     > test_check('rphylotastic')
     Loading required package: rphylotastic
     -- 1. Error: Loading a tree from NCBI taxonomy (@test_tree.R#17) --------------
     HTTP error 500.
     1: taxa_get_taxonomic_tree(taxa) at testthat/test_tree.R:17
     2: jsonlite::fromJSON(paste(get_base_url(), "gt/pt/get_tree?taxa=", taxa.string, sep = ""))
     3: fromJSON_string(txt = txt, simplifyVector = simplifyVector, simplifyDataFrame = simplifyDataFrame,
     simplifyMatrix = simplifyMatrix, flatten = flatten, ...)
     4: parseJSON(txt, bigint_as_char)
     5: parse_con(txt, bigint_as_char)
     6: open(con, "rb")
     7: open.connection(con, "rb")

     == testthat results ===========================================================
     OK: 36 SKIPPED: 0 FAILED: 1
     1. Error: Loading a tree from NCBI taxonomy (@test_tree.R#17)

     Error: testthat unit tests failed
     Execution halted
Flavors: r-devel-windows-ix86+x86_64, r-release-windows-ix86+x86_64

Version: 0.0.4
Check: tests
Result: ERROR
     Running ‘test-all.R’ [3s/30s]
    Running the tests in ‘tests/test-all.R’ failed.
    Complete output:
     > ###
     > library(testthat)
     > test_check('rphylotastic')
     Loading required package: rphylotastic
     ── 1. Error: Loading a tree from NCBI taxonomy (@test_tree.R#17) ──────────────
     HTTP error 500.
     1: taxa_get_taxonomic_tree(taxa) at testthat/test_tree.R:17
     2: jsonlite::fromJSON(paste(get_base_url(), "gt/pt/get_tree?taxa=", taxa.string, sep = ""))
     3: fromJSON_string(txt = txt, simplifyVector = simplifyVector, simplifyDataFrame = simplifyDataFrame,
     simplifyMatrix = simplifyMatrix, flatten = flatten, ...)
     4: parseJSON(txt, bigint_as_char)
     5: parse_con(txt, bigint_as_char)
     6: open(con, "rb")
     7: open.connection(con, "rb")

     ══ testthat results ═══════════════════════════════════════════════════════════
     OK: 36 SKIPPED: 0 FAILED: 1
     1. Error: Loading a tree from NCBI taxonomy (@test_tree.R#17)

     Error: testthat unit tests failed
     Execution halted
Flavor: r-patched-linux-x86_64

Version: 0.0.4
Check: tests
Result: ERROR
     Running ‘test-all.R’ [4s/160s]
    Running the tests in ‘tests/test-all.R’ failed.
    Complete output:
     > ###
     > library(testthat)
     > test_check('rphylotastic')
     Loading required package: rphylotastic
     ── 1. Error: Loading a tree from NCBI taxonomy (@test_tree.R#17) ──────────────
     HTTP error 500.
     1: taxa_get_taxonomic_tree(taxa) at testthat/test_tree.R:17
     2: jsonlite::fromJSON(paste(get_base_url(), "gt/pt/get_tree?taxa=", taxa.string, sep = ""))
     3: fromJSON_string(txt = txt, simplifyVector = simplifyVector, simplifyDataFrame = simplifyDataFrame,
     simplifyMatrix = simplifyMatrix, flatten = flatten, ...)
     4: parseJSON(txt, bigint_as_char)
     5: parse_con(txt, bigint_as_char)
     6: open(con, "rb")
     7: open.connection(con, "rb")

     ══ testthat results ═══════════════════════════════════════════════════════════
     OK: 36 SKIPPED: 0 FAILED: 1
     1. Error: Loading a tree from NCBI taxonomy (@test_tree.R#17)

     Error: testthat unit tests failed
     Execution halted
Flavor: r-patched-solaris-x86

Version: 0.0.4
Check: tests
Result: ERROR
     Running 'test-all.R' [30s]
    Running the tests in 'tests/test-all.R' failed.
    Complete output:
     > ###
     > library(testthat)
     > test_check('rphylotastic')
     Loading required package: rphylotastic
     -- 1. Error: Loading a tree from NCBI taxonomy (@test_tree.R#17) --------------
     HTTP error 500.
     1: taxa_get_taxonomic_tree(taxa) at testthat/test_tree.R:17
     2: jsonlite::fromJSON(paste(get_base_url(), "gt/pt/get_tree?taxa=", taxa.string, sep = ""))
     3: fromJSON_string(txt = txt, simplifyVector = simplifyVector, simplifyDataFrame = simplifyDataFrame,
     simplifyMatrix = simplifyMatrix, flatten = flatten, ...)
     4: parseJSON(txt, bigint_as_char)
     5: parse_con(txt, bigint_as_char)
     6: open(con, "rb")
     7: open.connection(con, "rb")

     == testthat results ===========================================================
     OK: 36 SKIPPED: 0 FAILED: 1
     1. Error: Loading a tree from NCBI taxonomy (@test_tree.R#17)

     Error: testthat unit tests failed
     Execution halted
Flavor: r-oldrel-windows-ix86+x86_64