CRAN Package Check Results for Package clustermole

Last updated on 2024-03-03 08:52:29 CET.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.1.1 70.98 603.24 674.22 OK
r-devel-linux-x86_64-debian-gcc 1.1.1 60.01 466.05 526.06 OK
r-devel-linux-x86_64-fedora-clang 1.1.1 868.08 OK
r-devel-linux-x86_64-fedora-gcc 1.1.1 882.47 OK
r-devel-windows-x86_64 1.1.1 65.00 425.00 490.00 OK
r-patched-linux-x86_64 1.1.1 47.59 588.97 636.56 OK
r-release-linux-x86_64 1.1.1 53.53 592.73 646.26 OK
r-release-macos-arm64 1.1.1 9.00 ERROR
r-release-macos-x86_64 1.1.1 7.00 ERROR
r-release-windows-x86_64 1.1.1 81.00 574.00 655.00 OK
r-oldrel-macos-arm64 1.1.0 215.00 NOTE
r-oldrel-windows-x86_64 1.1.0 56.00 375.00 431.00 ERROR

Check Details

Version: 1.1.1
Check: package dependencies
Result: ERROR Package required but not available: ‘GSVA’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. Flavors: r-release-macos-arm64, r-release-macos-x86_64

Version: 1.1.0
Check: LazyData
Result: NOTE 'LazyData' is specified without a 'data' directory Flavors: r-oldrel-macos-arm64, r-oldrel-windows-x86_64

Version: 1.1.0
Check: tests
Result: ERROR Running 'testthat.R' [27s] Running the tests in 'tests/testthat.R' failed. Complete output: > library(testthat) > library(clustermole) > > test_check("clustermole") [ FAIL 5 | WARN 7 | SKIP 0 | PASS 29 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test-enrichment.R:30:3'): clustermole_enrichment() human input default method ── <defunctError/error/condition> Error: useNames = NA is defunct. Instead, specify either useNames = TRUE or useNames = FALSE. Backtrace: ▆ 1. └─clustermole::clustermole_enrichment(expr_mat = log_cpm_mat, species = "hs") at test-enrichment.R:30:3 2. └─clustermole:::get_scores(...) 3. ├─GSVA::gsva(...) 4. └─GSVA::gsva(...) 5. └─GSVA (local) .local(expr, gset.idx.list, ...) 6. └─GSVA:::.filterFeatures(expr, method) 7. ├─DelayedMatrixStats::rowSds(expr) 8. └─DelayedMatrixStats::rowSds(expr) 9. └─MatrixGenerics (local) .local(x, rows, cols, na.rm, center, ..., useNames = useNames) 10. └─matrixStats::rowSds(...) 11. └─matrixStats::rowVars(...) 12. └─matrixStats:::deprecatedUseNamesNA() 13. └─base::.Defunct(...) ── Error ('test-enrichment.R:38:3'): clustermole_enrichment() human input gsva method ── <defunctError/error/condition> Error: useNames = NA is defunct. Instead, specify either useNames = TRUE or useNames = FALSE. Backtrace: ▆ 1. └─clustermole::clustermole_enrichment(...) at test-enrichment.R:38:3 2. └─clustermole:::get_scores(...) 3. ├─GSVA::gsva(...) 4. └─GSVA::gsva(...) 5. └─GSVA (local) .local(expr, gset.idx.list, ...) 6. └─GSVA:::.filterFeatures(expr, method) 7. ├─DelayedMatrixStats::rowSds(expr) 8. └─DelayedMatrixStats::rowSds(expr) 9. └─MatrixGenerics (local) .local(x, rows, cols, na.rm, center, ..., useNames = useNames) 10. └─matrixStats::rowSds(...) 11. └─matrixStats::rowVars(...) 12. └─matrixStats:::deprecatedUseNamesNA() 13. └─base::.Defunct(...) ── Error ('test-enrichment.R:46:3'): clustermole_enrichment() human input ssgsea method ── <defunctError/error/condition> Error: useNames = NA is defunct. Instead, specify either useNames = TRUE or useNames = FALSE. Backtrace: ▆ 1. └─clustermole::clustermole_enrichment(...) at test-enrichment.R:46:3 2. └─clustermole:::get_scores(...) 3. ├─GSVA::gsva(...) 4. └─GSVA::gsva(...) 5. └─GSVA (local) .local(expr, gset.idx.list, ...) 6. └─GSVA:::.filterFeatures(expr, method) 7. ├─DelayedMatrixStats::rowSds(expr) 8. └─DelayedMatrixStats::rowSds(expr) 9. └─MatrixGenerics (local) .local(x, rows, cols, na.rm, center, ..., useNames = useNames) 10. └─matrixStats::rowSds(...) 11. └─matrixStats::rowVars(...) 12. └─matrixStats:::deprecatedUseNamesNA() 13. └─base::.Defunct(...) ── Error ('test-enrichment.R:62:3'): clustermole_enrichment() human input all combined method ── <defunctError/error/condition> Error: useNames = NA is defunct. Instead, specify either useNames = TRUE or useNames = FALSE. Backtrace: ▆ 1. └─clustermole::clustermole_enrichment(...) at test-enrichment.R:62:3 2. └─clustermole:::get_scores(...) 3. ├─GSVA::gsva(...) 4. └─GSVA::gsva(...) 5. └─GSVA (local) .local(expr, gset.idx.list, ...) 6. └─GSVA:::.filterFeatures(expr, method) 7. ├─DelayedMatrixStats::rowSds(expr) 8. └─DelayedMatrixStats::rowSds(expr) 9. └─MatrixGenerics (local) .local(x, rows, cols, na.rm, center, ..., useNames = useNames) 10. └─matrixStats::rowSds(...) 11. └─matrixStats::rowVars(...) 12. └─matrixStats:::deprecatedUseNamesNA() 13. └─base::.Defunct(...) ── Error ('test-enrichment.R:76:3'): clustermole_enrichment() mouse input ────── <defunctError/error/condition> Error: useNames = NA is defunct. Instead, specify either useNames = TRUE or useNames = FALSE. Backtrace: ▆ 1. └─clustermole::clustermole_enrichment(expr_mat = log_cpm_mat, species = "mm") at test-enrichment.R:76:3 2. └─clustermole:::get_scores(...) 3. ├─GSVA::gsva(...) 4. └─GSVA::gsva(...) 5. └─GSVA (local) .local(expr, gset.idx.list, ...) 6. └─GSVA:::.filterFeatures(expr, method) 7. ├─DelayedMatrixStats::rowSds(expr) 8. └─DelayedMatrixStats::rowSds(expr) 9. └─MatrixGenerics (local) .local(x, rows, cols, na.rm, center, ..., useNames = useNames) 10. └─matrixStats::rowSds(...) 11. └─matrixStats::rowVars(...) 12. └─matrixStats:::deprecatedUseNamesNA() 13. └─base::.Defunct(...) [ FAIL 5 | WARN 7 | SKIP 0 | PASS 29 ] Error: Test failures Execution halted Flavor: r-oldrel-windows-x86_64