Till Soerensen
| Snapshot Date: 2025-04-16 13:40 -0400 (Wed, 16 Apr 2025) |
| git_url: https://git.bioconductor.org/packages/immunoClust |
| git_branch: RELEASE_3_21 |
| git_last_commit: c20d14f |
| git_last_commit_date: 2025-04-15 10:48:52 -0400 (Tue, 15 Apr 2025) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2025-04-17 11:47 -0400 (Thu, 17 Apr 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six" | 4667 |
| palomino7 | Windows Server 2022 Datacenter | x64 | 4.5.0 RC (2025-04-04 r88126 ucrt) -- "How About a Twenty-Six" | 4573 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six" | 4599 |
| kjohnson3 | macOS 13.7.1 Ventura | arm64 | 4.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six" | 4553 |
| kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4570 |
| 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 1040/2341 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| immunoClust 1.40.0 (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 | | ||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson3 | macOS 13.7.1 Ventura / arm64 | OK | OK | OK | OK | | ||||||||
| kunpeng2 | Linux (openEuler 24.03 LTS) / 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: 1.40.0 |
| Command: /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data immunoClust |
| StartedAt: 2025-04-16 23:41:21 -0000 (Wed, 16 Apr 2025) |
| EndedAt: 2025-04-16 23:46:25 -0000 (Wed, 16 Apr 2025) |
| EllapsedTime: 304.2 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 (8), ICL=135<>26
split 1 into 2 clusters
cluster 1(N=151) has 2 sub-cluster at 2 (8), 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, 16 iterations
cluster 2(N=76) has 2 sub-cluster at 2 (6), ICL=115<>30
split 2 into 2 clusters
cluster 1(N=227) has 2 sub-cluster at 2 (6), ICL=22<>30
cluster 1(N=227) has 2 sub-cluster at 2 (6), ICL=0<>30
Model Refinement takes 0.05 mins(max 1: 0.033)
Fit Model 2 of (6/10) K=2->3 N=605
EM 3 takes 0 mins, 6 iterations
cluster 1(N=450) has 2 sub-cluster at 2 (5), ICL=70<>34
split 1 into 2 clusters
cluster 3(N=104) has 2 sub-cluster at 2 (12), ICL=59<>34
split 3 into 2 clusters
cluster 2(N=55) has 4 sub-cluster at 5 (53), ICL=30<>34
cluster 1(N=450) has 2 sub-cluster at 2 (5), ICL=0<>34
Model Refinement takes 0.05 mins(max 1: 0.017)
Fit Model 3 of (6/10) K=3->5 N=1210
EM 5 takes 0 mins, 7 iterations
cluster 2(N=79) has 2 sub-cluster at 2 (5), ICL=62<>37
split 2 into 2 clusters
cluster 4(N=58) has 5 sub-cluster at 5 (27), ICL=38<>37
split 4 into 5 clusters
cluster 5(N=149) has 2 sub-cluster at 2 (6), ICL=13<>37
cluster 1(N=799) has 3 sub-cluster at 3 (7), ICL=9.5<>37
cluster 1(N=799) has 3 sub-cluster at 3 (7), ICL=0<>37
Model Refinement takes 0.083 mins(max 1: 0.033)
Fit Model 4 of (6/10) K=5->10 N=2420
EM 9 takes 0 mins, 15 iterations
cluster 1(N=1653) has 2 sub-cluster at 2 (6), ICL=105<>41
split 1 into 2 clusters
cluster 5(N=8) has 2 sub-cluster at 2 (100), ICL=46<>41
split 5 into 2 clusters
cluster 4(N=212) has 2 sub-cluster at 2 (8), ICL=25<>41
cluster 9(N=280) has 2 sub-cluster at 2 (6), ICL=25<>41
cluster 2(N=156) has 3 sub-cluster at 3 (24), ICL=19<>41
cluster 3(N=46) has 3 sub-cluster at 3 (8), ICL=15<>41
cluster 7(N=51) has 4 sub-cluster at 4 (37), ICL=7.3<>41
cluster 6(N=12) has 2 sub-cluster at 2 (17), ICL=6.4<>41
cluster 8(N=26) has 2 sub-cluster at 2 (100), ICL=3.6<>41
cluster 1(N=1653) has 2 sub-cluster at 2 (6), ICL=0<>41
Model Refinement takes 0.2 mins(max 1: 0.083)
Fit Model 5 of (6/10) K=9->11 N=4841
EM 9 takes 0 mins, 7 iterations
cluster 5(N=453) has 2 sub-cluster at 2 (6), ICL=88<>45
split 5 into 2 clusters
cluster 1(N=188) has 2 sub-cluster at 2 (5), ICL=69<>45
split 1 into 2 clusters
cluster 9(N=560) has 2 sub-cluster at 2 (6), ICL=21<>45
cluster 3(N=264) has 6 sub-cluster at 6 (32), ICL=21<>45
cluster 4(N=73) has 3 sub-cluster at 3 (9), ICL=15<>45
cluster 7(N=147) has 7 sub-cluster at 7 (34), ICL=14<>45
cluster 8(N=47) has 3 sub-cluster at 3 (11), ICL=9.1<>45
cluster 1(N=188) has 2 sub-cluster at 2 (5), ICL=0<>45
Model Refinement takes 0.22 mins(max 2: 0.067)
Fit Model 6 of (6/10) K=9->11 N=9682
EM 11 takes 0 mins, 5 iterations
cluster 4(N=556) has 3 sub-cluster at 3 (11), ICL=65<>48
split 4 into 3 clusters
cluster 5(N=158) has 2 sub-cluster at 2 (5), ICL=51<>48
split 5 into 2 clusters
cluster 11(N=1119) has 2 sub-cluster at 2 (5), ICL=37<>48
cluster 6(N=60) has 2 sub-cluster at 2 (9), ICL=30<>48
cluster 7(N=908) has 3 sub-cluster at 3 (12), ICL=30<>48
cluster 10(N=99) has 5 sub-cluster at 6 (31), ICL=11<>48
cluster 9(N=317) has 6 sub-cluster at 6 (29), ICL=8.6<>48
cluster 1(N=315) has 6 sub-cluster at 6 (65), ICL=8.1<>48
cluster 2(N=75) has 2 sub-cluster at 3 (6), ICL=0.13<>48
cluster 1(N=315) has 6 sub-cluster at 6 (65), ICL=0<>48
Model Refinement takes 0.32 mins(max 3: 0.083)
Fit Model 7 of (6/10) K=11->14 N=9682
EM 14 takes 0 mins, 7 iterations
Warning in cell.TestSubCluster(x, as.matrix(y[cinc, ]), t, k, J = J, B = B, :
singularity in cluster 11
cluster 8(N=58) has 2 sub-cluster at 2 (14), ICL=33<>48
cluster 9(N=60) has 2 sub-cluster at 2 (9), ICL=30<>48
cluster 10(N=898) has 3 sub-cluster at 3 (9), ICL=29<>48
cluster 14(N=1112) has 2 sub-cluster at 2 (6), ICL=27<>48
cluster 6(N=88) has 2 sub-cluster at 2 (7), ICL=18<>48
cluster 4(N=363) has 7 sub-cluster at 7 (33), ICL=16<>48
cluster 2(N=74) has 3 sub-cluster at 4 (44), ICL=13<>48
cluster 7(N=107) has 5 sub-cluster at 5 (24), ICL=12<>48
cluster 13(N=102) has 2 sub-cluster at 2 (38), ICL=11<>48
cluster 12(N=317) has 6 sub-cluster at 7 (17), ICL=6.9<>48
cluster 1(N=309) has 2 sub-cluster at 2 (8), ICL=6.5<>48
cluster 5(N=174) has 6 sub-cluster at 7 (36), ICL=5.6<>48
cluster 1(N=309) has 2 sub-cluster at 2 (8), ICL=0<>48
Model Refinement takes 0.37 mins(max 3: 0.083)
Fit Model 8 of (6/10) K=14->14 N=9682
EM 14 takes 0 mins, 3 iterations
Process completed at8
Major Iteration (Trans) (6/4) takes 1.4 mins
filtered from above:318
filtered from below:0
cluster 1(N=151) has 2 sub-cluster at 2 (11), ICL=143<>22
split 1 into 2 clusters
cluster 1(N=151) has 2 sub-cluster at 2 (11), ICL=0<>22
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=93) has 3 sub-cluster at 3 (6), ICL=114<>25
split 2 into 3 clusters
cluster 1(N=212) has 6 sub-cluster at 6 (7), ICL=26<>25
split 1 into 6 clusters
Model Refinement takes 0.033 mins(max 1: 0.017)
Fit Model 2 of (6/10) K=2->9 N=605
EM 7 takes 0 mins, 33 iterations
cluster 6(N=62) has 4 sub-cluster at 4 (46), ICL=23<>28
cluster 7(N=54) has 2 sub-cluster at 2 (9), ICL=20<>28
cluster 2(N=227) has 3 sub-cluster at 5 (52), ICL=19<>28
cluster 1(N=27) has 2 sub-cluster at 2 (6), ICL=13<>28
cluster 5(N=33) has 3 sub-cluster at 3 (4), ICL=13<>28
cluster 3(N=246) has 4 sub-cluster at 5 (28), ICL=8.4<>28
cluster 4(N=99) has 3 sub-cluster at 3 (12), ICL=3.6<>28
cluster 1(N=27) has 2 sub-cluster at 2 (6), ICL=0<>28
Model Refinement takes 0.1 mins(max 3: 0.033)
Fit Model 3 of (6/10) K=7->7 N=1210
EM 7 takes 0 mins, 50 iterations
cluster 5(N=100) has 2 sub-cluster at 2 (7), ICL=59<>31
split 5 into 2 clusters
cluster 7(N=125) has 2 sub-cluster at 2 (5), ICL=24<>31
cluster 1(N=35) has 2 sub-cluster at 2 (5), ICL=20<>31
cluster 6(N=127) has 2 sub-cluster at 2 (10), ICL=20<>31
cluster 3(N=333) has 6 sub-cluster at 7 (38), ICL=7.1<>31
cluster 4(N=211) has 6 sub-cluster at 8 (20), ICL=3.2<>31
cluster 1(N=35) has 2 sub-cluster at 2 (5), ICL=0<>31
Model Refinement takes 0.15 mins(max 2: 0.033)
Fit Model 4 of (6/10) K=7->8 N=2420
EM 8 takes 0 mins, 39 iterations
cluster 8(N=238) has 2 sub-cluster at 2 (12), ICL=55<>34
split 8 into 2 clusters
cluster 1(N=43) has 3 sub-cluster at 3 (12), ICL=32<>34
cluster 5(N=102) has 4 sub-cluster at 4 (18), ICL=24<>34
cluster 6(N=137) has 5 sub-cluster at 5 (38), ICL=20<>34
cluster 3(N=486) has 2 sub-cluster at 2 (26), ICL=20<>34
cluster 7(N=279) has 8 sub-cluster at 8 (26), ICL=17<>34
cluster 1(N=43) has 3 sub-cluster at 3 (12), ICL=0<>34
Model Refinement takes 0.2 mins(max 2: 0.05)
Fit Model 5 of (6/10) K=8->9 N=4841
EM 9 takes 0 mins, 21 iterations
cluster 7(N=547) has 2 sub-cluster at 2 (9), ICL=58<>37
split 7 into 2 clusters
cluster 1(N=106) has 2 sub-cluster at 2 (6), ICL=55<>37
split 1 into 2 clusters
cluster 8(N=452) has 3 sub-cluster at 3 (11), ICL=35<>37
cluster 6(N=284) has 3 sub-cluster at 3 (9), ICL=34<>37
cluster 3(N=727) has 2 sub-cluster at 2 (10), ICL=31<>37
cluster 5(N=198) has 2 sub-cluster at 2 (11), ICL=30<>37
cluster 1(N=106) has 2 sub-cluster at 2 (6), ICL=0<>37
Model Refinement takes 0.32 mins(max 2: 0.083)
Fit Model 6 of (6/10) K=9->11 N=9682
EM 11 takes 0.017 mins, 8 iterations
cluster 7(N=562) has 4 sub-cluster at 4 (17), ICL=59<>40
split 7 into 4 clusters
cluster 10(N=916) has 3 sub-cluster at 3 (10), ICL=56<>40
split 10 into 3 clusters
cluster 6(N=392) has 2 sub-cluster at 2 (13), ICL=43<>40
split 6 into 2 clusters
cluster 4(N=1321) has 2 sub-cluster at 2 (20), ICL=42<>40
split 4 into 2 clusters
cluster 11(N=50) has 2 sub-cluster at 2 (100), ICL=40<>40
cluster 1(N=123) has 2 sub-cluster at 2 (8), ICL=32<>40
cluster 8(N=359) has 2 sub-cluster at 2 (26), ICL=13<>40
cluster 2(N=75) has 3 sub-cluster at 4 (79), ICL=12<>40
cluster 1(N=123) has 2 sub-cluster at 2 (8), ICL=0<>40
Model Refinement takes 0.45 mins(max 3: 0.1)
Fit Model 7 of (6/10) K=11->18 N=9682
EM 18 takes 0.05 mins, 26 iterations
cluster 17(N=44) has 2 sub-cluster at 2 (100), ICL=51<>40
split 17 into 2 clusters
cluster 1(N=124) has 2 sub-cluster at 2 (7), ICL=32<>40
cluster 12(N=80) has 3 sub-cluster at 3 (9), ICL=23<>40
cluster 9(N=150) has 6 sub-cluster at 8 (35), ICL=17<>40
cluster 7(N=212) has 5 sub-cluster at 6 (40), ICL=17<>40
cluster 11(N=197) has 5 sub-cluster at 5 (26), ICL=13<>40
cluster 10(N=263) has 7 sub-cluster at 8 (39), ICL=11<>40
cluster 5(N=317) has 7 sub-cluster at 7 (46), ICL=11<>40
cluster 2(N=73) has 3 sub-cluster at 4 (36), ICL=11<>40
cluster 8(N=228) has 5 sub-cluster at 7 (28), ICL=8.9<>40
cluster 13(N=397) has 7 sub-cluster at 8 (29), ICL=7.6<>40
cluster 16(N=556) has 8 sub-cluster at 8 (38), ICL=2.2<>40
cluster 1(N=124) has 2 sub-cluster at 2 (7), ICL=0<>40
Model Refinement takes 0.6 mins(max 3: 0.083)
Fit Model 8 of (6/10) K=18->19 N=9682
EM 19 takes 0.1 mins, 50 iterations
cluster 19(N=51) has 2 sub-cluster at 2 (100), ICL=40<>40
cluster 1(N=123) has 2 sub-cluster at 2 (9), ICL=32<>40
cluster 9(N=149) has 3 sub-cluster at 5 (69), ICL=20<>40
cluster 12(N=81) has 2 sub-cluster at 2 (6), ICL=19<>40
cluster 13(N=402) has 2 sub-cluster at 2 (11), ICL=18<>40
cluster 7(N=206) has 6 sub-cluster at 7 (46), ICL=18<>40
cluster 11(N=200) has 6 sub-cluster at 7 (38), ICL=14<>40
cluster 8(N=243) has 7 sub-cluster at 7 (64), ICL=13<>40
cluster 10(N=259) has 5 sub-cluster at 6 (35), ICL=13<>40
cluster 2(N=73) has 3 sub-cluster at 4 (35), ICL=11<>40
cluster 5(N=327) has 2 sub-cluster at 2 (8), ICL=8.2<>40
cluster 17(N=43) has 2 sub-cluster at 2 (11), ICL=3.1<>40
cluster 15(N=382) has 7 sub-cluster at 8 (34), ICL=2.7<>40
cluster 1(N=123) has 2 sub-cluster at 2 (9), ICL=0<>40
Model Refinement takes 0.57 mins(max 3: 0.083)
Fit Model 9 of (6/10) K=19->19 N=9682
EM 19 takes 0.067 mins, 37 iterations
Process completed at9
Major Iteration (Trans) (6/4) takes 2.7 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