CRAN Package Check Results for Maintainer ‘Chris Bielow <chris.bielow at bsc.fu-berlin.de>’

Last updated on 2025-03-11 14:55:46 CET.

Package ERROR NOTE OK
PTXQC 6 9
rmzqc 9 6

Package PTXQC

Current CRAN status: NOTE: 6, OK: 9

Version: 1.1.2
Check: installed package size
Result: NOTE installed size is 7.9Mb sub-directories of 1Mb or more: doc 4.0Mb examples 2.6Mb Flavors: r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64

Package rmzqc

Current CRAN status: ERROR: 9, OK: 6

Version: 0.5.4
Check: tests
Result: ERROR Running ‘testthat.R’ [15s/18s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(rmzqc) > > test_check("rmzqc") Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. trying URL 'https://api.github.com/repos/HUPO-PSI/psi-ms-CV/releases/latest' Content type 'application/json; charset=utf-8' length 7347 bytes ================================================== downloaded 7347 bytes Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' Content type 'application/octet-stream' length 1009882 bytes (986 KB) ================================================== downloaded 986 KB Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. trying URL 'https://api.github.com/repos/HUPO-PSI/psi-ms-CV/releases/latest' Content type 'application/json; charset=utf-8' length 7347 bytes ================================================== downloaded 7347 bytes Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' Content type 'application/octet-stream' length 1009882 bytes (986 KB) ================================================== downloaded 986 KB Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Error in download.file(custom_uri, tmp_filename) : cannot open URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Error in download.file(custom_uri, tmp_filename) : cannot open URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Error in getCVDictionary(source = "custom", custom_uri = "https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo", : Download failed. trying URL 'https://api.github.com/repos/HUPO-PSI/psi-ms-CV/releases/latest' Content type 'application/json; charset=utf-8' length 7347 bytes ================================================== downloaded 7347 bytes Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. [ FAIL 2 | WARN 14 | SKIP 0 | PASS 87 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test_conversion.R:17:3'): toQCMetric = function(id, value, on_violation = c("error", "warn")) ── `toQCMetric(id = "MS:4000059", value = 13405)` produced messages. ── Failure ('test_conversion.R:18:3'): toQCMetric = function(id, value, on_violation = c("error", "warn")) ── `toQCMetric(id = "MS:4000059", value = "13405")` produced messages. [ FAIL 2 | WARN 14 | SKIP 0 | PASS 87 ] Error: Test failures Execution halted Flavor: r-devel-linux-x86_64-debian-clang

Version: 0.5.4
Check: tests
Result: ERROR Running ‘testthat.R’ [11s/15s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(rmzqc) > > test_check("rmzqc") Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. trying URL 'https://api.github.com/repos/HUPO-PSI/psi-ms-CV/releases/latest' Content type 'application/json; charset=utf-8' length 7347 bytes ================================================== downloaded 7347 bytes Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' Content type 'application/octet-stream' length 1009882 bytes (986 KB) ================================================== downloaded 986 KB Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. trying URL 'https://api.github.com/repos/HUPO-PSI/psi-ms-CV/releases/latest' Content type 'application/json; charset=utf-8' length 7347 bytes ================================================== downloaded 7347 bytes Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' Content type 'application/octet-stream' length 1009882 bytes (986 KB) ================================================== downloaded 986 KB Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Error in download.file(custom_uri, tmp_filename) : cannot open URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Error in download.file(custom_uri, tmp_filename) : cannot open URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Error in getCVDictionary(source = "custom", custom_uri = "https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo", : Download failed. trying URL 'https://api.github.com/repos/HUPO-PSI/psi-ms-CV/releases/latest' Content type 'application/json; charset=utf-8' length 7347 bytes ================================================== downloaded 7347 bytes Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. [ FAIL 2 | WARN 14 | SKIP 0 | PASS 87 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test_conversion.R:17:3'): toQCMetric = function(id, value, on_violation = c("error", "warn")) ── `toQCMetric(id = "MS:4000059", value = 13405)` produced messages. ── Failure ('test_conversion.R:18:3'): toQCMetric = function(id, value, on_violation = c("error", "warn")) ── `toQCMetric(id = "MS:4000059", value = "13405")` produced messages. [ FAIL 2 | WARN 14 | SKIP 0 | PASS 87 ] Error: Test failures Execution halted Flavor: r-devel-linux-x86_64-debian-gcc

Version: 0.5.4
Check: tests
Result: ERROR Running ‘testthat.R’ [26s/72s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(rmzqc) > > test_check("rmzqc") Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. trying URL 'https://api.github.com/repos/HUPO-PSI/psi-ms-CV/releases/latest' Content type 'application/json; charset=utf-8' length 7347 bytes ================================================== downloaded 7347 bytes Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' Content type 'application/octet-stream' length 1009882 bytes (986 KB) ================================================== downloaded 986 KB Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. trying URL 'https://api.github.com/repos/HUPO-PSI/psi-ms-CV/releases/latest' Content type 'application/json; charset=utf-8' length 7347 bytes ================================================== downloaded 7347 bytes Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' Content type 'application/octet-stream' length 1009882 bytes (986 KB) ================================================== downloaded 986 KB Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Error in download.file(custom_uri, tmp_filename) : cannot open URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Error in download.file(custom_uri, tmp_filename) : cannot open URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Error in getCVDictionary(source = "custom", custom_uri = "https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo", : Download failed. trying URL 'https://api.github.com/repos/HUPO-PSI/psi-ms-CV/releases/latest' Content type 'application/json; charset=utf-8' length 7347 bytes ================================================== downloaded 7347 bytes Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. [ FAIL 2 | WARN 16 | SKIP 0 | PASS 87 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test_conversion.R:17:3'): toQCMetric = function(id, value, on_violation = c("error", "warn")) ── `toQCMetric(id = "MS:4000059", value = 13405)` produced messages. ── Failure ('test_conversion.R:18:3'): toQCMetric = function(id, value, on_violation = c("error", "warn")) ── `toQCMetric(id = "MS:4000059", value = "13405")` produced messages. [ FAIL 2 | WARN 16 | SKIP 0 | PASS 87 ] Error: Test failures Execution halted Flavor: r-devel-linux-x86_64-fedora-clang

Version: 0.5.4
Check: tests
Result: ERROR Running ‘testthat.R’ [22s/28s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(rmzqc) > > test_check("rmzqc") Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. trying URL 'https://api.github.com/repos/HUPO-PSI/psi-ms-CV/releases/latest' Content type 'application/json; charset=utf-8' length 7347 bytes ================================================== downloaded 7347 bytes Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' Content type 'application/octet-stream' length 1009882 bytes (986 KB) ================================================== downloaded 986 KB Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. trying URL 'https://api.github.com/repos/HUPO-PSI/psi-ms-CV/releases/latest' Content type 'application/json; charset=utf-8' length 7347 bytes ================================================== downloaded 7347 bytes Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' Content type 'application/octet-stream' length 1009882 bytes (986 KB) ================================================== downloaded 986 KB Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Error in download.file(custom_uri, tmp_filename) : cannot open URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Error in download.file(custom_uri, tmp_filename) : cannot open URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Error in getCVDictionary(source = "custom", custom_uri = "https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo", : Download failed. trying URL 'https://api.github.com/repos/HUPO-PSI/psi-ms-CV/releases/latest' Content type 'application/json; charset=utf-8' length 7347 bytes ================================================== downloaded 7347 bytes Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. [ FAIL 2 | WARN 16 | SKIP 0 | PASS 87 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test_conversion.R:17:3'): toQCMetric = function(id, value, on_violation = c("error", "warn")) ── `toQCMetric(id = "MS:4000059", value = 13405)` produced messages. ── Failure ('test_conversion.R:18:3'): toQCMetric = function(id, value, on_violation = c("error", "warn")) ── `toQCMetric(id = "MS:4000059", value = "13405")` produced messages. [ FAIL 2 | WARN 16 | SKIP 0 | PASS 87 ] Error: Test failures Execution halted Flavor: r-devel-linux-x86_64-fedora-gcc

Version: 0.5.4
Check: tests
Result: ERROR Running 'testthat.R' [13s] Running the tests in 'tests/testthat.R' failed. Complete output: > library(testthat) > library(rmzqc) > > test_check("rmzqc") Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. trying URL 'https://api.github.com/repos/HUPO-PSI/psi-ms-CV/releases/latest' Content type 'application/json; charset=utf-8' length 7347 bytes ================================================== downloaded 7347 bytes Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' Content type 'application/octet-stream' length 1009882 bytes (986 KB) ================================================== downloaded 986 KB Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. trying URL 'https://api.github.com/repos/HUPO-PSI/psi-ms-CV/releases/latest' Content type 'application/json; charset=utf-8' length 7347 bytes ================================================== downloaded 7347 bytes Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' Content type 'application/octet-stream' length 1009882 bytes (986 KB) ================================================== downloaded 986 KB Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Error in download.file(custom_uri, tmp_filename) : cannot open URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Error in download.file(custom_uri, tmp_filename) : cannot open URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Error in getCVDictionary(source = "custom", custom_uri = "https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo", : Download failed. trying URL 'https://api.github.com/repos/HUPO-PSI/psi-ms-CV/releases/latest' Content type 'application/json; charset=utf-8' length 7347 bytes ================================================== downloaded 7347 bytes Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. [ FAIL 2 | WARN 14 | SKIP 0 | PASS 87 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test_conversion.R:17:3'): toQCMetric = function(id, value, on_violation = c("error", "warn")) ── `toQCMetric(id = "MS:4000059", value = 13405)` produced messages. ── Failure ('test_conversion.R:18:3'): toQCMetric = function(id, value, on_violation = c("error", "warn")) ── `toQCMetric(id = "MS:4000059", value = "13405")` produced messages. [ FAIL 2 | WARN 14 | SKIP 0 | PASS 87 ] Error: Test failures Execution halted Flavor: r-devel-windows-x86_64

Version: 0.5.4
Check: tests
Result: ERROR Running ‘testthat.R’ [15s/21s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(rmzqc) > > test_check("rmzqc") Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. trying URL 'https://api.github.com/repos/HUPO-PSI/psi-ms-CV/releases/latest' Content type 'application/json; charset=utf-8' length 7347 bytes ================================================== downloaded 7347 bytes Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' Content type 'application/octet-stream' length 1009882 bytes (986 KB) ================================================== downloaded 986 KB Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. trying URL 'https://api.github.com/repos/HUPO-PSI/psi-ms-CV/releases/latest' Content type 'application/json; charset=utf-8' length 7347 bytes ================================================== downloaded 7347 bytes Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' Content type 'application/octet-stream' length 1009882 bytes (986 KB) ================================================== downloaded 986 KB Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Error in download.file(custom_uri, tmp_filename) : cannot open URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Error in download.file(custom_uri, tmp_filename) : cannot open URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Error in getCVDictionary(source = "custom", custom_uri = "https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo", : Download failed. trying URL 'https://api.github.com/repos/HUPO-PSI/psi-ms-CV/releases/latest' Content type 'application/json; charset=utf-8' length 7347 bytes ================================================== downloaded 7347 bytes Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. [ FAIL 2 | WARN 14 | SKIP 0 | PASS 87 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test_conversion.R:17:3'): toQCMetric = function(id, value, on_violation = c("error", "warn")) ── `toQCMetric(id = "MS:4000059", value = 13405)` produced messages. ── Failure ('test_conversion.R:18:3'): toQCMetric = function(id, value, on_violation = c("error", "warn")) ── `toQCMetric(id = "MS:4000059", value = "13405")` produced messages. [ FAIL 2 | WARN 14 | SKIP 0 | PASS 87 ] Error: Test failures Execution halted Flavor: r-patched-linux-x86_64

Version: 0.5.4
Check: tests
Result: ERROR Running ‘testthat.R’ [15s/22s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(rmzqc) > > test_check("rmzqc") Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. trying URL 'https://api.github.com/repos/HUPO-PSI/psi-ms-CV/releases/latest' Content type 'application/json; charset=utf-8' length 7347 bytes ================================================== downloaded 7347 bytes Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' Content type 'application/octet-stream' length 1009882 bytes (986 KB) ================================================== downloaded 986 KB Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. trying URL 'https://api.github.com/repos/HUPO-PSI/psi-ms-CV/releases/latest' Content type 'application/json; charset=utf-8' length 7347 bytes ================================================== downloaded 7347 bytes Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' Content type 'application/octet-stream' length 1009882 bytes (986 KB) ================================================== downloaded 986 KB Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Error in download.file(custom_uri, tmp_filename) : cannot open URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Error in download.file(custom_uri, tmp_filename) : cannot open URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Error in getCVDictionary(source = "custom", custom_uri = "https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo", : Download failed. trying URL 'https://api.github.com/repos/HUPO-PSI/psi-ms-CV/releases/latest' Content type 'application/json; charset=utf-8' length 7347 bytes ================================================== downloaded 7347 bytes Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. [ FAIL 2 | WARN 14 | SKIP 0 | PASS 87 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test_conversion.R:17:3'): toQCMetric = function(id, value, on_violation = c("error", "warn")) ── `toQCMetric(id = "MS:4000059", value = 13405)` produced messages. ── Failure ('test_conversion.R:18:3'): toQCMetric = function(id, value, on_violation = c("error", "warn")) ── `toQCMetric(id = "MS:4000059", value = "13405")` produced messages. [ FAIL 2 | WARN 14 | SKIP 0 | PASS 87 ] Error: Test failures Execution halted Flavor: r-release-linux-x86_64

Version: 0.5.4
Check: tests
Result: ERROR Running 'testthat.R' [14s] Running the tests in 'tests/testthat.R' failed. Complete output: > library(testthat) > library(rmzqc) > > test_check("rmzqc") Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. trying URL 'https://api.github.com/repos/HUPO-PSI/psi-ms-CV/releases/latest' Content type 'application/json; charset=utf-8' length 7347 bytes ================================================== downloaded 7347 bytes Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' Content type 'application/octet-stream' length 1009882 bytes (986 KB) ================================================== downloaded 986 KB Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. trying URL 'https://api.github.com/repos/HUPO-PSI/psi-ms-CV/releases/latest' Content type 'application/json; charset=utf-8' length 7347 bytes ================================================== downloaded 7347 bytes Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' Content type 'application/octet-stream' length 1009882 bytes (986 KB) ================================================== downloaded 986 KB Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Error in download.file(custom_uri, tmp_filename) : cannot open URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Error in download.file(custom_uri, tmp_filename) : cannot open URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Error in getCVDictionary(source = "custom", custom_uri = "https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo", : Download failed. trying URL 'https://api.github.com/repos/HUPO-PSI/psi-ms-CV/releases/latest' Content type 'application/json; charset=utf-8' length 7347 bytes ================================================== downloaded 7347 bytes Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. [ FAIL 2 | WARN 14 | SKIP 0 | PASS 87 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test_conversion.R:17:3'): toQCMetric = function(id, value, on_violation = c("error", "warn")) ── `toQCMetric(id = "MS:4000059", value = 13405)` produced messages. ── Failure ('test_conversion.R:18:3'): toQCMetric = function(id, value, on_violation = c("error", "warn")) ── `toQCMetric(id = "MS:4000059", value = "13405")` produced messages. [ FAIL 2 | WARN 14 | SKIP 0 | PASS 87 ] Error: Test failures Execution halted Flavor: r-release-windows-x86_64

Version: 0.5.4
Check: tests
Result: ERROR Running 'testthat.R' [18s] Running the tests in 'tests/testthat.R' failed. Complete output: > library(testthat) > library(rmzqc) > > test_check("rmzqc") Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. trying URL 'https://api.github.com/repos/HUPO-PSI/psi-ms-CV/releases/latest' Content type 'application/json; charset=utf-8' length 7347 bytes ================================================== downloaded 7347 bytes Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' Content type 'application/octet-stream' length 1009882 bytes (986 KB) ================================================== downloaded 986 KB Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. trying URL 'https://api.github.com/repos/HUPO-PSI/psi-ms-CV/releases/latest' Content type 'application/json; charset=utf-8' length 7347 bytes ================================================== downloaded 7347 bytes Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/releases/download/v4.1.192/psi-ms.obo' Content type 'application/octet-stream' length 1009882 bytes (986 KB) ================================================== downloaded 986 KB Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Error in download.file(custom_uri, tmp_filename) : cannot open URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Downloading obo from 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' ... trying URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Error in download.file(custom_uri, tmp_filename) : cannot open URL 'https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo' Error in getCVDictionary(source = "custom", custom_uri = "https://github.com/HUPO-PSI/psi-ms-CV/rele_BROKEN_URL_ases/download/v4.1.147/psi-ms.obo", : Download failed. trying URL 'https://api.github.com/repos/HUPO-PSI/psi-ms-CV/releases/latest' Content type 'application/json; charset=utf-8' length 7347 bytes ================================================== downloaded 7347 bytes Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. Superclass Singleton has cloneable=FALSE, but subclass CV_ has cloneable=TRUE. A subclass cannot be cloneable when its superclass is not cloneable, so cloning will be disabled for CV_. [ FAIL 2 | WARN 16 | SKIP 0 | PASS 87 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test_conversion.R:17:3'): toQCMetric = function(id, value, on_violation = c("error", "warn")) ── `toQCMetric(id = "MS:4000059", value = 13405)` produced messages. ── Failure ('test_conversion.R:18:3'): toQCMetric = function(id, value, on_violation = c("error", "warn")) ── `toQCMetric(id = "MS:4000059", value = "13405")` produced messages. [ FAIL 2 | WARN 16 | SKIP 0 | PASS 87 ] Error: Test failures Execution halted Flavor: r-oldrel-windows-x86_64

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