Till Soerensen
| Snapshot Date: 2025-01-24 13:40 -0500 (Fri, 24 Jan 2025) |
| git_url: https://git.bioconductor.org/packages/immunoClust |
| git_branch: devel |
| git_last_commit: 17b4bb8 |
| git_last_commit_date: 2024-11-25 08:59:04 -0500 (Mon, 25 Nov 2024) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2025-01-25 15:38 -0500 (Sat, 25 Jan 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" | 4658 |
| palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2025-01-21 r87610 ucrt) -- "Unsuffered Consequences" | 4455 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" | 4408 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| Package 1018/2286 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| immunoClust 1.39.3 (landing page) Till Soerensen
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | ERROR | skipped | ||||||||||
|
To the developers/maintainers of the immunoClust package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/immunoClust.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
| Package: immunoClust |
| Version: 1.39.3 |
| Command: /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data immunoClust |
| StartedAt: 2025-01-24 23:45:49 -0000 (Fri, 24 Jan 2025) |
| EndedAt: 2025-01-24 23:50:40 -0000 (Fri, 24 Jan 2025) |
| EllapsedTime: 291.2 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
##############################################################################
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###
### Running command:
###
### /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data immunoClust
###
##############################################################################
##############################################################################
* checking for file ‘immunoClust/DESCRIPTION’ ... OK
* preparing ‘immunoClust’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* running ‘cleanup’
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘immunoClust.Rnw’ using Sweave
Loading required package: flowCore
filtered from above:318
filtered from below:0
cluster 1(N=151) has 2 sub-cluster at 2 (12), ICL=152<>26
split 1 into 2 clusters
cluster 1(N=151) has 2 sub-cluster at 2 (12), ICL=0<>26
Model Refinement takes 0.033 mins(max 1: 0.033)
Fit Model 1 of (6/10) K=1->2 N=302
EM 2 takes 0 mins, 7 iterations
cluster 2(N=86) has 2 sub-cluster at 2 (8), ICL=121<>30
split 2 into 2 clusters
cluster 1(N=217) has 7 sub-cluster at 7 (33), ICL=32<>30
split 1 into 7 clusters
Model Refinement takes 0.05 mins(max 2: 0.033)
Fit Model 2 of (6/10) K=2->9 N=605
EM 8 takes 0 mins, 32 iterations
cluster 8(N=126) has 2 sub-cluster at 2 (6), ICL=94<>34
split 8 into 2 clusters
cluster 6(N=159) has 6 sub-cluster at 7 (29), ICL=23<>34
cluster 1(N=161) has 3 sub-cluster at 3 (41), ICL=16<>34
cluster 7(N=64) has 2 sub-cluster at 3 (14), ICL=12<>34
cluster 5(N=13) has 2 sub-cluster at 2 (100), ICL=8.2<>34
cluster 2(N=60) has 2 sub-cluster at 2 (49), ICL=6.8<>34
cluster 4(N=96) has 4 sub-cluster at 4 (34), ICL=4.8<>34
cluster 3(N=42) has 2 sub-cluster at 3 (14), ICL=3.9<>34
cluster 1(N=161) has 3 sub-cluster at 3 (41), ICL=0<>34
Model Refinement takes 0.15 mins(max 1: 0.033)
Fit Model 3 of (6/10) K=8->9 N=1210
EM 9 takes 0.017 mins, 50 iterations
cluster 9(N=98) has 2 sub-cluster at 2 (7), ICL=52<>37
split 9 into 2 clusters
cluster 7(N=127) has 2 sub-cluster at 2 (11), ICL=27<>37
cluster 5(N=25) has 2 sub-cluster at 2 (4), ICL=23<>37
cluster 8(N=131) has 8 sub-cluster at 8 (41), ICL=19<>37
cluster 3(N=270) has 4 sub-cluster at 4 (51), ICL=16<>37
cluster 2(N=76) has 4 sub-cluster at 5 (26), ICL=7.7<>37
cluster 4(N=122) has 5 sub-cluster at 5 (21), ICL=4.7<>37
cluster 6(N=283) has 5 sub-cluster at 6 (36), ICL=4<>37
cluster 2(N=76) has 4 sub-cluster at 5 (26), ICL=0<>37
Model Refinement takes 0.17 mins(max 1: 0.033)
Fit Model 4 of (6/10) K=9->10 N=2420
EM 10 takes 0.017 mins, 49 iterations
cluster 5(N=56) has 2 sub-cluster at 2 (6), ICL=29<>41
cluster 10(N=97) has 6 sub-cluster at 6 (19), ICL=24<>41
cluster 9(N=138) has 7 sub-cluster at 7 (36), ICL=19<>41
cluster 6(N=384) has 4 sub-cluster at 4 (39), ICL=9.5<>41
cluster 7(N=248) has 7 sub-cluster at 8 (24), ICL=9.1<>41
cluster 8(N=267) has 2 sub-cluster at 2 (7), ICL=8.8<>41
cluster 2(N=17) has 3 sub-cluster at 3 (11), ICL=4.4<>41
cluster 4(N=333) has 7 sub-cluster at 8 (51), ICL=1.9<>41
cluster 2(N=17) has 3 sub-cluster at 3 (11), ICL=0<>41
Model Refinement takes 0.23 mins(max 1: 0.033)
Fit Model 5 of (6/10) K=10->10 N=4841
EM 10 takes 0 mins, 13 iterations
cluster 5(N=110) has 2 sub-cluster at 2 (6), ICL=70<>45
split 5 into 2 clusters
cluster 8(N=580) has 2 sub-cluster at 2 (7), ICL=39<>45
cluster 10(N=200) has 3 sub-cluster at 3 (14), ICL=29<>45
cluster 9(N=276) has 3 sub-cluster at 3 (7), ICL=23<>45
cluster 6(N=861) has 2 sub-cluster at 2 (12), ICL=18<>45
cluster 7(N=449) has 2 sub-cluster at 2 (6), ICL=9.5<>45
cluster 2(N=21) has 2 sub-cluster at 2 (100), ICL=3.1<>45
cluster 2(N=21) has 2 sub-cluster at 2 (100), ICL=0<>45
Model Refinement takes 0.37 mins(max 1: 0.083)
Fit Model 6 of (6/10) K=10->11 N=9682
EM 11 takes 0.017 mins, 9 iterations
cluster 10(N=562) has 3 sub-cluster at 3 (7), ICL=55<>48
split 10 into 3 clusters
cluster 9(N=1122) has 2 sub-cluster at 2 (8), ICL=52<>48
split 9 into 2 clusters
cluster 8(N=916) has 3 sub-cluster at 3 (10), ICL=52<>48
split 8 into 3 clusters
cluster 7(N=1560) has 2 sub-cluster at 2 (13), ICL=49<>48
split 7 into 2 clusters
cluster 5(N=154) has 4 sub-cluster at 4 (16), ICL=41<>48
cluster 2(N=50) has 2 sub-cluster at 2 (100), ICL=38<>48
cluster 11(N=392) has 3 sub-cluster at 3 (34), ICL=38<>48
cluster 6(N=75) has 2 sub-cluster at 3 (10), ICL=1.2<>48
cluster 2(N=50) has 2 sub-cluster at 2 (100), ICL=0<>48
Model Refinement takes 0.5 mins(max 1: 0.083)
Fit Model 7 of (6/10) K=11->17 N=9682
EM 17 takes 0.017 mins, 9 iterations
cluster 11(N=51) has 2 sub-cluster at 2 (100), ICL=45<>48
cluster 6(N=74) has 6 sub-cluster at 8 (82), ICL=44<>48
cluster 17(N=391) has 2 sub-cluster at 2 (8), ICL=37<>48
cluster 5(N=123) has 2 sub-cluster at 2 (8), ICL=30<>48
cluster 13(N=412) has 2 sub-cluster at 2 (5), ICL=18<>48
cluster 15(N=295) has 6 sub-cluster at 7 (55), ICL=16<>48
cluster 14(N=240) has 2 sub-cluster at 2 (6), ICL=15<>48
cluster 16(N=100) has 3 sub-cluster at 3 (19), ICL=15<>48
cluster 5(N=123) has 2 sub-cluster at 2 (8), ICL=0<>48
Model Refinement takes 0.65 mins(max 1: 0.1)
Fit Model 8 of (6/10) K=17->17 N=9682
EM 17 takes 0.017 mins, 3 iterations
Process completed at8
Major Iteration (Trans) (6/4) takes 2.3 mins
filtered from above:318
filtered from below:0
cluster 1(N=151) has 2 sub-cluster at 2 (10), ICL=166<>22
split 1 into 2 clusters
cluster 1(N=151) has 2 sub-cluster at 2 (10), ICL=0<>22
Model Refinement takes 0.017 mins(max 1: 0.017)
Fit Model 1 of (6/10) K=1->2 N=302
EM 2 takes 0 mins, 7 iterations
cluster 1(N=77) has 2 sub-cluster at 2 (6), ICL=97<>25
split 1 into 2 clusters
cluster 2(N=225) has 2 sub-cluster at 2 (5), ICL=47<>25
split 2 into 2 clusters
cluster 1(N=77) has 2 sub-cluster at 2 (6), ICL=0<>25
Model Refinement takes 0.05 mins(max 2: 0.033)
Fit Model 2 of (6/10) K=2->4 N=605
EM 4 takes 0 mins, 8 iterations
cluster 1(N=98) has 2 sub-cluster at 2 (12), ICL=124<>28
split 1 into 2 clusters
cluster 3(N=411) has 2 sub-cluster at 2 (8), ICL=42<>28
split 3 into 2 clusters
cluster 2(N=72) has 5 sub-cluster at 5 (75), ICL=21<>28
cluster 4(N=24) has 2 sub-cluster at 2 (12), ICL=8.3<>28
cluster 1(N=98) has 2 sub-cluster at 2 (12), ICL=0<>28
Model Refinement takes 0.067 mins(max 1: 0.017)
Fit Model 3 of (6/10) K=4->6 N=1210
EM 6 takes 0 mins, 15 iterations
cluster 2(N=64) has 2 sub-cluster at 2 (6), ICL=72<>31
split 2 into 2 clusters
cluster 1(N=132) has 2 sub-cluster at 2 (6), ICL=40<>31
split 1 into 2 clusters
cluster 6(N=77) has 5 sub-cluster at 5 (32), ICL=18<>31
cluster 5(N=44) has 2 sub-cluster at 2 (10), ICL=17<>31
cluster 3(N=144) has 3 sub-cluster at 4 (8), ICL=12<>31
cluster 1(N=132) has 2 sub-cluster at 2 (6), ICL=0<>31
Model Refinement takes 0.12 mins(max 1: 0.033)
Fit Model 4 of (6/10) K=6->8 N=2420
EM 8 takes 0 mins, 9 iterations
cluster 2(N=17) has 2 sub-cluster at 2 (100), ICL=62<>34
split 2 into 2 clusters
cluster 7(N=103) has 2 sub-cluster at 2 (6), ICL=39<>34
split 7 into 2 clusters
cluster 3(N=105) has 4 sub-cluster at 4 (26), ICL=27<>34
cluster 8(N=135) has 4 sub-cluster at 4 (12), ICL=24<>34
cluster 5(N=275) has 7 sub-cluster at 7 (47), ICL=23<>34
cluster 4(N=25) has 2 sub-cluster at 2 (10), ICL=20<>34
cluster 1(N=242) has 7 sub-cluster at 8 (17), ICL=9.7<>34
cluster 1(N=242) has 7 sub-cluster at 8 (17), ICL=0<>34
Model Refinement takes 0.2 mins(max 6: 0.083)
Fit Model 5 of (6/10) K=8->10 N=4841
EM 9 takes 0 mins, 8 iterations
cluster 4(N=80) has 6 sub-cluster at 6 (88), ICL=48<>37
split 4 into 6 clusters
cluster 9(N=277) has 2 sub-cluster at 2 (14), ICL=38<>37
split 9 into 2 clusters
cluster 5(N=565) has 2 sub-cluster at 2 (9), ICL=26<>37
cluster 1(N=483) has 3 sub-cluster at 3 (26), ICL=24<>37
cluster 3(N=195) has 7 sub-cluster at 7 (36), ICL=24<>37
cluster 7(N=174) has 3 sub-cluster at 3 (28), ICL=13<>37
cluster 8(N=37) has 2 sub-cluster at 3 (15), ICL=9.3<>37
cluster 1(N=483) has 3 sub-cluster at 3 (26), ICL=0<>37
Model Refinement takes 0.27 mins(max 6: 0.083)
Fit Model 6 of (6/10) K=9->15 N=9682
EM 15 takes 0.067 mins, 33 iterations
Warning in cell.TestSubCluster(x, as.matrix(y[cinc, ]), t, k, J = J, B = B, :
singularity in cluster 8
cluster 1(N=916) has 3 sub-cluster at 3 (9), ICL=56<>40
split 1 into 3 clusters
cluster 3(N=391) has 2 sub-cluster at 2 (7), ICL=53<>40
split 3 into 2 clusters
cluster 14(N=423) has 2 sub-cluster at 2 (6), ICL=29<>40
cluster 6(N=93) has 2 sub-cluster at 2 (10), ICL=28<>40
cluster 12(N=313) has 2 sub-cluster at 2 (7), ICL=8.6<>40
cluster 4(N=377) has 2 sub-cluster at 2 (10), ICL=7.8<>40
cluster 15(N=182) has 3 sub-cluster at 3 (14), ICL=6.5<>40
cluster 13(N=75) has 4 sub-cluster at 5 (99), ICL=4.1<>40
cluster 9(N=14) has 2 sub-cluster at 2 (58), ICL=0.16<>40
cluster 1(N=916) has 3 sub-cluster at 3 (9), ICL=0<>40
Model Refinement takes 0.35 mins(max 11: 0.1)
Fit Model 7 of (6/10) K=15->18 N=9682
EM 18 takes 0.017 mins, 4 iterations
Warning in cell.TestSubCluster(x, as.matrix(y[cinc, ]), t, k, J = J, B = B, :
singularity in cluster 11
cluster 17(N=419) has 2 sub-cluster at 2 (6), ICL=29<>40
cluster 9(N=92) has 5 sub-cluster at 5 (38), ICL=29<>40
cluster 3(N=57) has 2 sub-cluster at 2 (11), ICL=24<>40
cluster 6(N=88) has 3 sub-cluster at 3 (43), ICL=19<>40
cluster 18(N=178) has 6 sub-cluster at 8 (41), ICL=19<>40
cluster 5(N=337) has 7 sub-cluster at 7 (44), ICL=12<>40
cluster 7(N=398) has 7 sub-cluster at 8 (69), ICL=9.7<>40
cluster 15(N=313) has 2 sub-cluster at 2 (7), ICL=8.6<>40
cluster 16(N=75) has 2 sub-cluster at 3 (10), ICL=2.7<>40
cluster 1(N=385) has 7 sub-cluster at 7 (34), ICL=1.5<>40
cluster 12(N=14) has 2 sub-cluster at 2 (52), ICL=0.14<>40
cluster 1(N=385) has 7 sub-cluster at 7 (34), ICL=0<>40
Model Refinement takes 0.42 mins(max 14: 0.1)
Fit Model 8 of (6/10) K=18->18 N=9682
EM 18 takes 0 mins, 6 iterations
Process completed at8
Major Iteration (Trans) (6/4) takes 1.6 mins
Fit Model 1 of 10 with 8 clusters
=> results in 8 clusters
Fit Model 2 of 10 with 21 clusters
=> results in 13 clusters
Fit Model 3 of 10 with 23 clusters
=> results in 19 clusters
Fit Model 4 of 10 with 26 clusters
=> results in 21 clusters
Fit Model 5 of 10 with 25 clusters
=> results in 21 clusters
Error: processing vignette 'immunoClust.Rnw' failed with diagnostics:
Running 'texi2dvi' on 'immunoClust.tex' failed.
LaTeX errors:
! LaTeX Error: File `inputenx.sty' not found.
Type X to quit or <RETURN> to proceed,
or enter new name. (Default extension: sty)
! Emergency stop.
<read *>
l.15 ^^M
! ==> Fatal error occurred, no output PDF file produced!
--- failed re-building ‘immunoClust.Rnw’
SUMMARY: processing the following file failed:
‘immunoClust.Rnw’
Error: Vignette re-building failed.
Execution halted