CRAN Package Check Results for Package harmony

Last updated on 2026-05-25 11:53:24 CEST.

Flavor	Version	Tinstall	Tcheck	Ttotal	Status	Flags
r-devel-linux-x86_64-debian-clang	2.0.3	68.52	200.06	268.58	OK
r-devel-linux-x86_64-debian-gcc	2.0.3	89.76	146.50	236.26	OK
r-devel-linux-x86_64-fedora-clang	2.0.3	101.00	330.02	431.02	ERROR
r-devel-linux-x86_64-fedora-gcc	2.0.3	156.00	350.15	506.15	OK
r-devel-windows-x86_64	2.0.3	96.00	228.00	324.00	OK
r-patched-linux-x86_64	2.0.3	63.59	189.07	252.66	OK
r-release-linux-x86_64	2.0.3	121.85	192.38	314.23	OK
r-release-macos-arm64	2.0.3	16.00	70.00	86.00	OK
r-release-macos-x86_64	2.0.3	44.00	229.00	273.00	OK
r-release-windows-x86_64	2.0.3	98.00	222.00	320.00	OK
r-oldrel-macos-arm64	2.0.3	13.00	64.00	77.00	OK
r-oldrel-macos-x86_64	2.0.3	44.00	183.00	227.00	OK
r-oldrel-windows-x86_64	2.0.3	108.00	288.00	396.00	OK

Additional issues

clang-ASAN gcc-ASAN valgrind

Check Details

Version: 2.0.3
Check: tests
Result: ERROR Running ‘testthat.R’ [8s/21s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > library(testthat) > library(harmony) Loading required package: Rcpp • This is Harmony2 version 2.0.3 • Read the guide: run vignette() • Get help: Visit the website at https://korsunskylab.github.io/harmony2/ and report issues on https://github.com/immunogenomics/harmony/issues > > test_check("harmony") 87exists, retrying for cluster 4 3.40062 151exists, retrying for cluster 4 3.42304 138exists, retrying for cluster 9 3.36225 243exists, retrying for cluster 24 3.22521 176exists, retrying for cluster 26 0.90872 197exists, retrying for cluster 34 0.660487 2exists, retrying for cluster 35 3.46204 123exists, retrying for cluster 38 3.34945 21exists, retrying for cluster 38 3.19016 123exists, retrying for cluster 41 3.57522 33exists, retrying for cluster 42 2.2428 2exists, retrying for cluster 43 3.46094 223exists, retrying for cluster 45 3.39201 858exists, retrying for cluster 42 0.894107 Saving _problems/test_two_variable-11.R [ FAIL 1 | WARN 0 | SKIP 0 | PASS 13 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test_two_variable.R:5:1'): (code run outside of `test_that()`) ────── <std::logic_error/C++Error/error/condition> Error: inv(): use of LAPACK must be enabled Backtrace: ▆ 1. ├─harmony::RunHarmony(...) at test_two_variable.R:5:1 2. └─harmony:::RunHarmony.default(...) 3. ├─base::tryCatch(...) 4. │ └─base (local) tryCatchList(expr, classes, parentenv, handlers) 5. └─harmony:::harmonize(harmonyObj, max.iter.harmony, verbose) 6. └─harmonyObj$moe_correct_ridge_cpp() [ FAIL 1 | WARN 0 | SKIP 0 | PASS 13 ] Error: ! Test failures. Execution halted Flavor: r-devel-linux-x86_64-fedora-clang