Last updated on 2025-12-16 13:51:08 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.0.3 | 6.83 | 199.08 | 205.91 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.0.3 | 4.46 | 155.14 | 159.60 | OK | |
| r-devel-linux-x86_64-fedora-clang | 1.0.3 | 11.00 | 315.28 | 326.28 | OK | |
| r-devel-linux-x86_64-fedora-gcc | 1.0.3 | 12.00 | 349.65 | 361.65 | OK | |
| r-devel-windows-x86_64 | 1.0.3 | 9.00 | 469.00 | 478.00 | OK | |
| r-patched-linux-x86_64 | 1.0.3 | 7.58 | 187.86 | 195.44 | OK | |
| r-release-linux-x86_64 | 1.0.3 | 6.42 | 188.57 | 194.99 | OK | |
| r-release-macos-arm64 | 1.0.3 | OK | ||||
| r-release-macos-x86_64 | 1.0.3 | 4.00 | 92.00 | 96.00 | OK | |
| r-release-windows-x86_64 | 1.0.3 | 9.00 | 444.00 | 453.00 | OK | |
| r-oldrel-macos-arm64 | 1.0.3 | OK | ||||
| r-oldrel-macos-x86_64 | 1.0.3 | 4.00 | 461.00 | 465.00 | OK | |
| r-oldrel-windows-x86_64 | 1.0.3 | 11.00 | 631.00 | 642.00 | ERROR |
Version: 1.0.3
Check: tests
Result: ERROR
Running 'spelling.R' [0s]
Running 'testthat.R' [414s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> # This file is part of the standard setup for testthat.
> # It is recommended that you do not modify it.
> #
> # Where should you do additional test configuration?
> # Learn more about the roles of various files in:
> # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
> # * https://testthat.r-lib.org/articles/special-files.html
>
> library(testthat)
> library(scStability)
>
> test_check("scStability")
see ?scRNAseq and browseVignettes('scRNAseq') for documentation
loading from cache
see ?scRNAseq and browseVignettes('scRNAseq') for documentation
loading from cache
see ?scRNAseq and browseVignettes('scRNAseq') for documentation
loading from cache
see ?scRNAseq and browseVignettes('scRNAseq') for documentation
loading from cache
Normalizing layer: counts
Performing log-normalization
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
Finding variable features for layer counts
Calculating gene variances
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
Calculating feature variances of standardized and clipped values
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
Centering and scaling data matrix
|
| | 0%
|
|=================================== | 50%
|
|======================================================================| 100%
PC_ 1
Positive: Dner, Olfm1, Elmod1, Ogfrl1, Camk2b, Rph3a, D3Bwg0562e, Sema3c, Rgs7bp, Slc2a13
Nr2f1, Eef1a2, Syn2, Nfib, Shisa9, Nfix, Tspan5, Htr3a, Slc6a1, Spock1
Prkar2b, Chd3, Rab6a, Cpne7, Lrp12, Cxcl14, Atp2b2, Ptprm, Plcxd2, Cdk5r1
Negative: Rab3b, Zwint, Fth1, Ngfrap1, Sst, Gm6402, Lgals1, Rps15a-ps4, Rps20, 1500004A13Rik
Gpx1, Crhbp, Gm15421, Plp1, Tmsb4x, OTTMUSG00000016609-loc3, Ptn, Csrp1, Prdx1, Schip1
Sepp1, Ndufab1, Cd9, mt-Tv, Gm14305, OTTMUSG00000016609-loc4, Fabp5, Cnp, Gm14436, Gatm
PC_ 2
Positive: Mpped1, Lamp5, Adcy1, Bcl11a, Tsc22d1, Sema5a, Akap5, Itpr1, Hapln1, Tox3
Gabrd, Bcl11b, Nxph1, Crispld1, Rapgef4, Cap2, Grm5, Lin7a, Gda, Cpne8
Car4, Scube1, Gad2, Hlf, Caln1, Cacna2d1, Tnnt1, Enc1, Plk2, Rasl11a
Negative: Npas1, Ddah1, Fxyd6, Gng4, Cplx2, Nrxn3, Rgs12, Trp53i11, Cnr1, Synpr
Asic1, Vip, Npas3, Fstl5, Sncg, Wnt5a, Kazn, Enho, Galnt18, Htr3a
Pcdh20, Cadps2, Marcks, Pde5a, Kctd12, Stk32c, Cpne2, Igf1, Fgf1, Cd63
PC_ 3
Positive: Cryab, Id2, Trf, Plp1, Gng11, Hapln2, Car14, Ermn, Mog, Gatm
Apod, Mal, Tmem125, Mobp, Ugt8a, Elovl1, Car2, Aspa, Mag, Tmem63a
Mbp, Cmtm5, Pdlim2, Sema3c, Cnp, Cldn11, Gsn, 2810468N07Rik, Csrp1, Enpp6
Negative: Grm1, Shisa6, Satb1, Elfn1, Kctd8, Trpc6, Slc24a2, Grin3a, Lphn2, Car10
Lmo4, Ephx4, Grik3, Cdh13, Kcnc2, Gria3, Lhx6, Tshz3, Vsnl1, Nppc
Ppargc1a, Dpp10, Sst, Gria1, Runx1t1, Lypd6, Coch, Chst15, Timp3, Eya1
PC_ 4
Positive: Rgs16, Rgs10, Dlx6os1, Rgs8, Sparcl1, Cck, Pnoc, Ppp1r2, Dlx1os, Tsc22d1
Npy, Trp53i11, Nov, Ldhb, Frmd7, Dnajc15, Luzp2, Xist, Sp8, Mgll
Car4, Ndufab1, Dhx32, Prss23, Frem1, Ociad2, Vip, Golm1, Htr1f, Gabrd
Negative: Mag, Camk2n1, Dbndd2, Mog, Cmtm5, Mbp, Atp1a1, Elovl1, Mal, Apod
Pou3f3, Gsn, Csrp1, Mobp, Hapln2, Cnp, Trf, Tmem88b, 2610017I09Rik, Ildr2
Car14, Tmem63a, Elovl7, Ugt8a, Ermn, Cd82, Cldn11, Pex5l, Gng12, Pcdh18
PC_ 5
Positive: Neto1, Timp2, Pde1a, Gng2, Necab1, Cplx2, Ralyl, Gap43, Fxyd7, Reln
Tnfaip8l3, Tmem91, Mmp17, Egln3, Ramp1, Zcchc12, Qpct, Serpina3n, Ptprm, Ildr2
Spock3, E130309F12Rik, Clu, Snca, Npas3, Col25a1, Rimkla, Fabp5, Celf6, Eps8
Negative: Pthlh, Ptpre, Wnt5b, Caln1, Myl1, Grpr, Hpcal1, Pygm, Clstn2, Ano4
Ptprd, Sall1, Crispld2, Penk, Gpr176, Col24a1, Tiam1, Pde8b, Cadm2, Ppargc1a
Pcdh10, Col26a1, Mybpc1, Btbd3, Vsnl1, Cbln2, Scgn, AI848285, Osbpl1a, Scn5a
Saving _problems/test-clustStable-14.R
see ?scRNAseq and browseVignettes('scRNAseq') for documentation
loading from cache
see ?scRNAseq and browseVignettes('scRNAseq') for documentation
loading from cache
see ?scRNAseq and browseVignettes('scRNAseq') for documentation
loading from cache
see ?scRNAseq and browseVignettes('scRNAseq') for documentation
loading from cache
Mean of Mean Correlation per Embedding: 0.8930
95 Percent CI of Mean Correlation per Embedding: [0.8712, 0.9105]
Mean Correlation Range: Min = 0.8693 Max = 0.9111
see ?scRNAseq and browseVignettes('scRNAseq') for documentation
loading from cache
see ?scRNAseq and browseVignettes('scRNAseq') for documentation
loading from cache
see ?scRNAseq and browseVignettes('scRNAseq') for documentation
loading from cache
see ?scRNAseq and browseVignettes('scRNAseq') for documentation
loading from cache
Normalizing layer: counts
Performing log-normalization
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
Finding variable features for layer counts
Calculating gene variances
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
Calculating feature variances of standardized and clipped values
0% 10 20 30 40 50 60 70 80 90 100%
[----|----|----|----|----|----|----|----|----|----|
**************************************************|
Centering and scaling data matrix
|
| | 0%
|
|=================================== | 50%
|
|======================================================================| 100%
PC_ 1
Positive: Dner, Olfm1, Elmod1, Ogfrl1, Camk2b, Rph3a, D3Bwg0562e, Sema3c, Rgs7bp, Slc2a13
Nr2f1, Eef1a2, Syn2, Nfib, Shisa9, Nfix, Tspan5, Htr3a, Slc6a1, Spock1
Prkar2b, Chd3, Rab6a, Cpne7, Lrp12, Cxcl14, Atp2b2, Ptprm, Plcxd2, Cdk5r1
Negative: Rab3b, Zwint, Fth1, Ngfrap1, Sst, Gm6402, Lgals1, Rps15a-ps4, Rps20, 1500004A13Rik
Gpx1, Crhbp, Gm15421, Plp1, Tmsb4x, OTTMUSG00000016609-loc3, Ptn, Csrp1, Prdx1, Schip1
Sepp1, Ndufab1, Cd9, mt-Tv, Gm14305, OTTMUSG00000016609-loc4, Fabp5, Cnp, Gm14436, Gatm
PC_ 2
Positive: Mpped1, Lamp5, Adcy1, Bcl11a, Tsc22d1, Sema5a, Akap5, Itpr1, Hapln1, Tox3
Gabrd, Bcl11b, Nxph1, Crispld1, Rapgef4, Cap2, Grm5, Lin7a, Gda, Cpne8
Car4, Scube1, Gad2, Hlf, Caln1, Cacna2d1, Tnnt1, Enc1, Plk2, Rasl11a
Negative: Npas1, Ddah1, Fxyd6, Gng4, Cplx2, Nrxn3, Rgs12, Trp53i11, Cnr1, Synpr
Asic1, Vip, Npas3, Fstl5, Sncg, Wnt5a, Kazn, Enho, Galnt18, Htr3a
Pcdh20, Cadps2, Marcks, Pde5a, Kctd12, Stk32c, Cpne2, Igf1, Fgf1, Cd63
PC_ 3
Positive: Cryab, Id2, Trf, Plp1, Gng11, Hapln2, Car14, Ermn, Mog, Gatm
Apod, Mal, Tmem125, Mobp, Ugt8a, Elovl1, Car2, Aspa, Mag, Tmem63a
Mbp, Cmtm5, Pdlim2, Sema3c, Cnp, Cldn11, Gsn, 2810468N07Rik, Csrp1, Enpp6
Negative: Grm1, Shisa6, Satb1, Elfn1, Kctd8, Trpc6, Slc24a2, Grin3a, Lphn2, Car10
Lmo4, Ephx4, Grik3, Cdh13, Kcnc2, Gria3, Lhx6, Tshz3, Vsnl1, Nppc
Ppargc1a, Dpp10, Sst, Gria1, Runx1t1, Lypd6, Coch, Chst15, Timp3, Eya1
PC_ 4
Positive: Rgs16, Rgs10, Dlx6os1, Rgs8, Sparcl1, Cck, Pnoc, Ppp1r2, Dlx1os, Tsc22d1
Npy, Trp53i11, Nov, Ldhb, Frmd7, Dnajc15, Luzp2, Xist, Sp8, Mgll
Car4, Ndufab1, Dhx32, Prss23, Frem1, Ociad2, Vip, Golm1, Htr1f, Gabrd
Negative: Mag, Camk2n1, Dbndd2, Mog, Cmtm5, Mbp, Atp1a1, Elovl1, Mal, Apod
Pou3f3, Gsn, Csrp1, Mobp, Hapln2, Cnp, Trf, Tmem88b, 2610017I09Rik, Ildr2
Car14, Tmem63a, Elovl7, Ugt8a, Ermn, Cd82, Cldn11, Pex5l, Gng12, Pcdh18
PC_ 5
Positive: Neto1, Timp2, Pde1a, Gng2, Necab1, Cplx2, Ralyl, Gap43, Fxyd7, Reln
Tnfaip8l3, Tmem91, Mmp17, Egln3, Ramp1, Zcchc12, Qpct, Serpina3n, Ptprm, Ildr2
Spock3, E130309F12Rik, Clu, Snca, Npas3, Col25a1, Rimkla, Fabp5, Celf6, Eps8
Negative: Pthlh, Ptpre, Wnt5b, Caln1, Myl1, Grpr, Hpcal1, Pygm, Clstn2, Ano4
Ptprd, Sall1, Crispld2, Penk, Gpr176, Col24a1, Tiam1, Pde8b, Cadm2, Ppargc1a
Pcdh10, Col26a1, Mybpc1, Btbd3, Vsnl1, Cbln2, Scgn, AI848285, Osbpl1a, Scn5a
-----------------------Embedding Statistics-----------------------------
Mean of Mean Correlation per Embedding: 0.8747
95 Percent CI of Mean Correlation per Embedding: [0.8616, 0.8837]
Mean Correlation Range: Min = 0.8605 Max = 0.8838
------------------------Cluster Statistics------------------------------
Mean of Mean NMI per Index: 1.0000
95 Percent CI of Mean NMI per Index: [1.0000, 1.0000]
[ FAIL 1 | WARN 5 | SKIP 0 | PASS 5 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-clustStable.R:14:3'): Clusters were made correctly ─────────────
<FutureInterruptError/FutureError/error/FutureCondition/condition>
Error: Future ('future_lapply-1') of class MultisessionFuture interrupted, while running on 'localhost' (pid 56400)
Backtrace:
▆
1. └─scStability::clustStable(n_runs = 10, seurat_obj, n_cores = 8) at test-clustStable.R:14:3
2. └─future.apply::future_lapply(...)
3. └─future.apply:::future_xapply(...)
4. └─base::tryCatch(...)
5. └─base (local) tryCatchList(expr, classes, parentenv, handlers)
6. └─base (local) tryCatchOne(...)
7. └─value[[3L]](cond)
8. └─future.apply:::onError(e, futures = fs, debug = debug)
[ FAIL 1 | WARN 5 | SKIP 0 | PASS 5 ]
Error:
! Test failures.
Warning messages:
1: In .Internal(gc(verbose, reset, full)) :
closing unused connection 4 (<-CRANWIN2.fb05.statistik.uni-dortmund.de:33664)
2: In .Internal(gc(verbose, reset, full)) :
closing unused connection 14 (<-CRANWIN2.fb05.statistik.uni-dortmund.de:33664)
Execution halted
Flavor: r-oldrel-windows-x86_64