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### Running command:
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###   /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data immunoClust
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* 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 (7), ICL=120<>26
split 1 into 2 clusters
cluster 1(N=151) has 2 sub-cluster at 2 (7), ICL=0<>26
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, 9 iterations

cluster 2(N=86) has 2 sub-cluster at 2 (6), ICL=127<>30
split 2 into 2 clusters
cluster 1(N=218) has 7 sub-cluster at 7 (41), ICL=45<>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 6 takes 0 mins, 50 iterations

cluster 6(N=111) has 2 sub-cluster at 2 (6), ICL=84<>34
split 6 into 2 clusters
cluster 5(N=66) has 2 sub-cluster at 2 (13), ICL=13<>34
cluster 4(N=36) has 4 sub-cluster at 5 (39), ICL=11<>34
cluster 3(N=25) has 2 sub-cluster at 2 (100), ICL=4.6<>34
cluster 2(N=222) has 7 sub-cluster at 8 (29), ICL=3.5<>34
cluster 1(N=260) has 6 sub-cluster at 8 (57), ICL=2.4<>34
cluster 1(N=260) has 6 sub-cluster at 8 (57), ICL=0<>34
Model Refinement takes 0.1 mins(max 1: 0.033)
Fit Model 3 of (6/10) K=6->7 N=1210
EM 7 takes 0 mins, 44 iterations

cluster 7(N=105) has 2 sub-cluster at 2 (5), ICL=52<>37
split 7 into 2 clusters
cluster 5(N=117) has 2 sub-cluster at 2 (8), ICL=31<>37
cluster 6(N=155) has 2 sub-cluster at 2 (6), ICL=22<>37
cluster 3(N=44) has 2 sub-cluster at 2 (14), ICL=18<>37
cluster 4(N=34) has 3 sub-cluster at 4 (14), ICL=9.1<>37
cluster 3(N=44) has 2 sub-cluster at 2 (14), ICL=0<>37
Model Refinement takes 0.25 mins(max 1: 0.05)
Fit Model 4 of (6/10) K=7->8 N=2420
EM 8 takes 0.017 mins, 16 iterations

cluster 3(N=100) has 2 sub-cluster at 2 (7), ICL=60<>41
split 3 into 2 clusters
cluster 5(N=240) has 2 sub-cluster at 2 (9), ICL=35<>41
cluster 6(N=259) has 2 sub-cluster at 2 (8), ICL=25<>41
cluster 7(N=102) has 5 sub-cluster at 5 (22), ICL=21<>41
cluster 8(N=144) has 4 sub-cluster at 4 (14), ICL=20<>41
cluster 4(N=37) has 2 sub-cluster at 2 (13), ICL=8.2<>41
cluster 3(N=100) has 2 sub-cluster at 2 (7), ICL=0<>41
Model Refinement takes 0.33 mins(max 2: 0.067)
Fit Model 5 of (6/10) K=8->9 N=4841
EM 9 takes 0.017 mins, 15 iterations

cluster 6(N=492) has 2 sub-cluster at 2 (6), ICL=80<>45
split 6 into 2 clusters
cluster 4(N=119) has 2 sub-cluster at 2 (7), ICL=68<>45
split 4 into 2 clusters
cluster 9(N=285) has 3 sub-cluster at 3 (8), ICL=25<>45
cluster 8(N=199) has 2 sub-cluster at 2 (22), ICL=19<>45
cluster 7(N=544) has 2 sub-cluster at 2 (6), ICL=18<>45
cluster 5(N=32) has 2 sub-cluster at 2 (11), ICL=9.3<>45
cluster 3(N=173) has 5 sub-cluster at 7 (26), ICL=5.9<>45
cluster 3(N=173) has 5 sub-cluster at 7 (26), ICL=0<>45
Model Refinement takes 0.37 mins(max 1: 0.1)
Fit Model 6 of (6/10) K=9->11 N=9682
EM 11 takes 0.017 mins, 8 iterations

cluster 11(N=562) has 3 sub-cluster at 3 (8), ICL=61<>48
split 11 into 3 clusters
cluster 5(N=154) has 4 sub-cluster at 4 (16), ICL=43<>48
cluster 10(N=392) has 3 sub-cluster at 3 (34), ICL=38<>48
cluster 9(N=1121) has 2 sub-cluster at 2 (6), ICL=37<>48
cluster 8(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 6(N=46) has 2 sub-cluster at 4 (88), ICL=3.9<>48
cluster 3(N=313) has 2 sub-cluster at 2 (11), ICL=2.4<>48
cluster 4(N=75) has 2 sub-cluster at 3 (9), ICL=0.71<>48
cluster 3(N=313) has 2 sub-cluster at 2 (11), ICL=0<>48
Model Refinement takes 0.43 mins(max 1: 0.1)
Fit Model 7 of (6/10) K=11->13 N=9682
EM 13 takes 0.017 mins, 8 iterations

cluster 5(N=157) has 4 sub-cluster at 4 (18), ICL=45<>48
cluster 10(N=391) has 2 sub-cluster at 2 (8), ICL=37<>48
cluster 9(N=1121) has 2 sub-cluster at 2 (6), ICL=37<>48
cluster 8(N=60) has 2 sub-cluster at 2 (9), ICL=30<>48
cluster 7(N=898) has 3 sub-cluster at 3 (9), ICL=29<>48
cluster 13(N=89) has 2 sub-cluster at 2 (13), ICL=18<>48
cluster 11(N=363) has 7 sub-cluster at 8 (28), ICL=15<>48
cluster 4(N=74) has 3 sub-cluster at 4 (46), ICL=13<>48
cluster 12(N=182) has 6 sub-cluster at 7 (32), ICL=9.4<>48
cluster 6(N=47) has 2 sub-cluster at 2 (21), ICL=5.2<>48
cluster 3(N=306) has 2 sub-cluster at 2 (8), ICL=4<>48
cluster 3(N=306) has 2 sub-cluster at 2 (8), ICL=0<>48
Model Refinement takes 0.43 mins(max 1: 0.083)
Fit Model 8 of (6/10) K=13->13 N=9682
EM 13 takes 0.017 mins, 3 iterations

Process completed at8

Major Iteration (Trans) (6/4) takes 2.1 mins
filtered from above:318
filtered from below:0

cluster 1(N=151) has 2 sub-cluster at 2 (11), ICL=126<>22
split 1 into 2 clusters
cluster 1(N=151) has 2 sub-cluster at 2 (11), 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, 8 iterations

cluster 2(N=86) has 3 sub-cluster at 3 (6), ICL=107<>25
split 2 into 3 clusters
cluster 1(N=217) has 2 sub-cluster at 2 (7), ICL=25<>25
split 1 into 2 clusters
cluster 1(N=217) has 2 sub-cluster at 2 (7), ICL=0<>25
Model Refinement takes 0.05 mins(max 1: 0.033)
Fit Model 2 of (6/10) K=2->5 N=605
EM 5 takes 0 mins, 10 iterations

cluster 4(N=59) has 2 sub-cluster at 2 (5), ICL=54<>28
split 4 into 2 clusters
cluster 2(N=45) has 2 sub-cluster at 2 (7), ICL=28<>28
split 2 into 2 clusters
cluster 3(N=69) has 4 sub-cluster at 4 (16), ICL=17<>28
cluster 5(N=60) has 2 sub-cluster at 2 (9), ICL=9<>28
cluster 1(N=386) has 8 sub-cluster at 8 (28), ICL=8.6<>28
cluster 1(N=386) has 8 sub-cluster at 8 (28), ICL=0<>28
Model Refinement takes 0.067 mins(max 1: 0.033)
Fit Model 3 of (6/10) K=5->7 N=1210
EM 7 takes 0.017 mins, 17 iterations

cluster 7(N=122) has 7 sub-cluster at 8 (17), ICL=34<>31
split 7 into 7 clusters
cluster 4(N=135) has 8 sub-cluster at 8 (24), ICL=23<>31
cluster 5(N=45) has 4 sub-cluster at 4 (10), ICL=22<>31
cluster 3(N=48) has 2 sub-cluster at 2 (5), ICL=22<>31
cluster 2(N=78) has 6 sub-cluster at 6 (18), ICL=16<>31
cluster 6(N=28) has 2 sub-cluster at 2 (10), ICL=12<>31
cluster 2(N=78) has 6 sub-cluster at 6 (18), ICL=0<>31
Model Refinement takes 0.12 mins(max 1: 0.033)
Fit Model 4 of (6/10) K=7->13 N=2420
EM 11 takes 0 mins, 21 iterations

Warning in cell.TestSubCluster(x, as.matrix(y[cinc, ]), t, k, J = J, B = B,  :
   singularity in cluster 10

cluster 3(N=93) has 2 sub-cluster at 2 (8), ICL=38<>34
split 3 into 2 clusters
cluster 10(N=10) has 2 sub-cluster at 2 (100), ICL=36<>34
split 10 into 2 clusters
cluster 2(N=138) has 7 sub-cluster at 7 (38), ICL=27<>34
cluster 11(N=127) has 5 sub-cluster at 7 (21), ICL=21<>34
cluster 6(N=42) has 2 sub-cluster at 2 (6), ICL=20<>34
cluster 7(N=141) has 4 sub-cluster at 5 (39), ICL=19<>34
cluster 5(N=92) has 3 sub-cluster at 3 (10), ICL=15<>34
cluster 4(N=278) has 6 sub-cluster at 6 (29), ICL=12<>34
cluster 2(N=138) has 7 sub-cluster at 7 (38), ICL=0<>34
Model Refinement takes 0.23 mins(max 1: 0.083)
Fit Model 5 of (6/10) K=11->13 N=4841
EM 10 takes 0.017 mins, 10 iterations

cluster 2(N=268) has 3 sub-cluster at 3 (6), ICL=36<>37
cluster 6(N=200) has 3 sub-cluster at 3 (22), ICL=32<>37
cluster 5(N=592) has 2 sub-cluster at 2 (7), ICL=31<>37
cluster 4(N=156) has 5 sub-cluster at 7 (53), ICL=19<>37
cluster 7(N=71) has 2 sub-cluster at 2 (9), ICL=14<>37
cluster 10(N=333) has 4 sub-cluster at 5 (42), ICL=9.7<>37
cluster 8(N=261) has 7 sub-cluster at 8 (26), ICL=9.1<>37
cluster 3(N=32) has 3 sub-cluster at 3 (22), ICL=6.7<>37
cluster 9(N=16) has 2 sub-cluster at 2 (7), ICL=0.78<>37
cluster 2(N=268) has 3 sub-cluster at 3 (6), ICL=0<>37
Model Refinement takes 0.27 mins(max 1: 0.083)
Fit Model 6 of (6/10) K=10->10 N=9682
EM 10 takes 0 mins, 10 iterations

cluster 2(N=559) has 3 sub-cluster at 3 (10), ICL=67<>40
split 2 into 3 clusters
cluster 5(N=1118) has 2 sub-cluster at 2 (11), ICL=46<>40
split 5 into 2 clusters
cluster 7(N=158) has 2 sub-cluster at 2 (7), ICL=43<>40
split 7 into 2 clusters
cluster 6(N=391) has 2 sub-cluster at 2 (6), ICL=41<>40
split 6 into 2 clusters
cluster 10(N=679) has 3 sub-cluster at 3 (13), ICL=38<>40
cluster 3(N=73) has 5 sub-cluster at 6 (27), ICL=18<>40
cluster 4(N=321) has 7 sub-cluster at 8 (54), ICL=10<>40
cluster 9(N=51) has 2 sub-cluster at 2 (8), ICL=7.9<>40
cluster 2(N=559) has 3 sub-cluster at 3 (10), ICL=0<>40
Model Refinement takes 0.35 mins(max 1: 0.12)
Fit Model 7 of (6/10) K=10->15 N=9682
EM 15 takes 0.017 mins, 6 iterations

cluster 15(N=646) has 3 sub-cluster at 3 (27), ICL=45<>40
split 15 into 3 clusters
cluster 10(N=166) has 6 sub-cluster at 7 (43), ICL=35<>40
cluster 12(N=39) has 3 sub-cluster at 3 (20), ICL=26<>40
cluster 4(N=85) has 2 sub-cluster at 2 (10), ICL=21<>40
cluster 3(N=169) has 3 sub-cluster at 3 (42), ICL=14<>40
cluster 14(N=51) has 2 sub-cluster at 2 (17), ICL=12<>40
cluster 6(N=315) has 2 sub-cluster at 2 (9), ICL=12<>40
cluster 11(N=108) has 2 sub-cluster at 2 (8), ICL=10<>40
cluster 9(N=291) has 7 sub-cluster at 8 (24), ICL=9.2<>40
cluster 2(N=372) has 3 sub-cluster at 3 (10), ICL=6.9<>40
cluster 5(N=72) has 2 sub-cluster at 3 (13), ICL=3.3<>40
cluster 8(N=406) has 6 sub-cluster at 7 (32), ICL=2.9<>40
cluster 13(N=605) has 4 sub-cluster at 5 (23), ICL=0.78<>40
cluster 2(N=372) has 3 sub-cluster at 3 (10), ICL=0<>40
Model Refinement takes 0.4 mins(max 1: 0.083)
Fit Model 8 of (6/10) K=15->17 N=9682
EM 17 takes 0.017 mins, 6 iterations

cluster 12(N=37) has 3 sub-cluster at 3 (6), ICL=21<>40
cluster 4(N=81) has 3 sub-cluster at 3 (13), ICL=21<>40
cluster 10(N=165) has 7 sub-cluster at 8 (47), ICL=19<>40
cluster 3(N=167) has 6 sub-cluster at 8 (43), ICL=16<>40
cluster 2(N=376) has 7 sub-cluster at 8 (19), ICL=12<>40
cluster 11(N=108) has 5 sub-cluster at 5 (99), ICL=12<>40
cluster 14(N=51) has 2 sub-cluster at 2 (14), ICL=12<>40
cluster 6(N=315) has 2 sub-cluster at 2 (8), ICL=11<>40
cluster 9(N=292) has 7 sub-cluster at 8 (24), ICL=10<>40
cluster 15(N=322) has 7 sub-cluster at 7 (47), ICL=6.4<>40
cluster 16(N=367) has 8 sub-cluster at 8 (39), ICL=5.7<>40
cluster 5(N=72) has 2 sub-cluster at 3 (15), ICL=3.6<>40
cluster 2(N=376) has 7 sub-cluster at 8 (19), ICL=0<>40
Model Refinement takes 0.45 mins(max 1: 0.1)
Fit Model 9 of (6/10) K=17->17 N=9682
EM 17 takes 0 mins, 3 iterations

Process completed at9

Major Iteration (Trans) (6/4) takes 2 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