• using R version 3.0.1 (2013-05-16)
  • using platform: i686-pc-linux-gnu (32-bit)
  • using session charset: UTF-8
  • checking for file ‘mlmRev/DESCRIPTION’ ... OK
  • this is package ‘mlmRev’ version ‘1.0-1’
  • checking package namespace information ... OK
  • checking package dependencies ... OK
  • checking if this is a source package ... OK
  • checking if there is a namespace ... OK
  • checking for executable files ... OK
  • checking for hidden files and directories ... OK
  • checking for portable file names ... OK
  • checking for sufficient/correct file permissions ... OK
  • checking whether package ‘mlmRev’ can be installed ... OK
  • checking installed package size ... OK
  • checking package directory ... OK
  • checking DESCRIPTION meta-information ... OK
  • checking top-level files ... OK
  • checking for left-over files ... OK
  • checking index information ... OK
  • checking package subdirectories ... OK
  • checking whether the package can be loaded ... OK
  • checking whether the package can be loaded with stated dependencies ... OK
  • checking whether the package can be unloaded cleanly ... OK
  • checking whether the namespace can be loaded with stated dependencies ... OK
  • checking whether the namespace can be unloaded cleanly ... OK
  • checking loading without being on the library search path ... OK
  • checking Rd files ... OK
  • checking Rd metadata ... OK
  • checking Rd cross-references ... OK
  • checking for missing documentation entries ... OK
  • checking for code/documentation mismatches ... OK
  • checking Rd \usage sections ... OK
  • checking Rd contents ... OK
  • checking for unstated dependencies in examples ... OK
  • checking contents of ‘data’ directory ... OK
  • checking data for non-ASCII characters ... OK
  • checking data for ASCII and uncompressed saves ... OK
  • checking sizes of PDF files under ‘inst/doc’ ... OK
  • checking installed files from ‘inst/doc’ ... NOTE
    The following files should probably not be installed:
    ‘myVignette.sty’

    Consider the use of a .Rinstignore file: see ‘Writing R Extensions’,
    or move the vignette sources from ‘inst/doc’ to ‘vignettes’.
  • checking examples ... [9s/9s] OK
  • checking for unstated dependencies in tests ... OK
  • checking tests ... [39s/39s] OK
    Running ‘guImmun.R’ [26s/26s]
    Comparing ‘guImmun.Rout’ to ‘guImmun.Rout.save’ ...5,10d4
    < Attaching package: 'lme4'
    <
    < The following object is masked from 'package:stats':
    <
    < AIC, BIC
    <
    24c18
    < mom (Intercept) 1.288 1.1348
    ---
    > mom (Intercept) 1.288 1.1349
    31,32c25,26
    < kid2pY 1.2815 0.1370 9.35 <2e-16 ***
    < mom25pY -0.1284 0.1543 -0.83 0.4054
    ---
    > kid2pY 1.2816 0.1370 9.35 <2e-16 ***
    > mom25pY -0.1284 0.1543 -0.83 0.4055
    34c28
    < ord46 0.1741 0.1992 0.87 0.3821
    ---
    > ord46 0.1740 0.1992 0.87 0.3822
    36,37c30,31
    < ethnN -0.1132 0.3125 -0.36 0.7172
    < ethnS -0.0348 0.2321 -0.15 0.8810
    ---
    > ethnN -0.1131 0.3125 -0.36 0.7173
    > ethnS -0.0347 0.2322 -0.15 0.8810
    42c36
    < husEdU 0.0147 0.2296 0.06 0.9490
    ---
    > husEdU 0.0146 0.2296 0.06 0.9492
    79,80c73,74
    < mom (Intercept) 1.2763 1.130
    < comm (Intercept) 0.5227 0.723
    ---
    > mom (Intercept) 1.2762 1.130
    > comm (Intercept) 0.5228 0.723
    85c79
    < (Intercept) -0.6588 0.2927 -2.25 0.02439 *
    ---
    > (Intercept) -0.6589 0.2927 -2.25 0.02438 *
    87,92c81,86
    < mom25pY -0.1360 0.1537 -0.88 0.37647
    < ord23 -0.1375 0.1605 -0.86 0.39165
    < ord46 0.1556 0.1977 0.79 0.43144
    < ord7p 0.2404 0.2464 0.98 0.32912
    < ethnN -0.2205 0.3095 -0.71 0.47622
    < ethnS -0.0783 0.2311 -0.34 0.73461
    ---
    > mom25pY -0.1359 0.1537 -0.88 0.37652
    > ord23 -0.1375 0.1605 -0.86 0.39166
    > ord46 0.1556 0.1977 0.79 0.43148
    > ord7p 0.2404 0.2464 0.98 0.32913
    > ethnN -0.2206 0.3095 -0.71 0.47600
    > ethnS -0.0784 0.2311 -0.34 0.73438
    94c88
    < momEdS 0.3876 0.2766 1.40 0.16113
    ---
    > momEdS 0.3876 0.2766 1.40 0.16115
    96,97c90,91
    < ruralY -0.6966 0.1945 -3.58 0.00034 ***
    < pcInd81 -0.8355 0.3251 -2.57 0.01016 *
    ---
    > ruralY -0.6965 0.1945 -3.58 0.00034 ***
    > pcInd81 -0.8354 0.3251 -2.57 0.01018 *
    111c105
    < mom (Intercept) 1.2410 1.1140
    ---
    > mom (Intercept) 1.2411 1.1140
    118c112
    < kid2pY 1.2680 0.1357 9.35 < 2e-16 ***
    ---
    > kid2pY 1.2679 0.1357 9.35 < 2e-16 ***
    120,124c114,118
    < ethnN -0.2172 0.3068 -0.71 0.47899
    < ethnS -0.0812 0.2294 -0.35 0.72327
    < momEdP 0.3339 0.1366 2.44 0.01452 *
    < momEdS 0.3266 0.2708 1.21 0.22776
    < momWorkY 0.2538 0.1272 2.00 0.04590 *
    ---
    > ethnN -0.2172 0.3068 -0.71 0.47896
    > ethnS -0.0812 0.2294 -0.35 0.72324
    > momEdP 0.3339 0.1366 2.44 0.01453 *
    > momEdS 0.3266 0.2708 1.21 0.22778
    > momWorkY 0.2538 0.1272 2.00 0.04592 *
    Running ‘lmerTest.R’ [10s/10s]
    Comparing ‘lmerTest.Rout’ to ‘lmerTest.Rout.save’ ...6,11d5
    < Attaching package: 'lme4'
    <
    < The following object is masked from 'package:stats':
    <
    < AIC, BIC
    <
    171c165
    < fm3 7 16519 16567 -8253 0.0 0 1
    ---
    > fm3 7 16519 16567 -8253 0.0 0 <2e-16
    212,213c206,207
    < school (Intercept) 0.08583 0.293
    < Residual 0.56253 0.750
    ---
    > school (Intercept) 0.08583 0.2930
    > Residual 0.56253 0.7500
    297c291
    < Subject (Intercept) 64.0346 8.0022
    ---
    > Subject (Intercept) 64.0345 8.0022
    354c348
    < fm08 12 649.4 690.8 -312.7 0 0 1
    ---
    > fm08 12 649.4 690.8 -312.7 1.68e-06 0 <2e-16
    356c350
    < + logLik(fm08, REML=FALSE), tol=1e-07))
    ---
    > + logLik(fm08, REML=FALSE)))
    365,368c359,362
    < 2: 14869.120: 0.234540 0.0337760
    < 3: 14868.448: 0.257104 0.0405383
    < 4: 14868.361: 0.249359 0.0627849
    < 5: 14868.329: 0.253832 0.0616947
    ---
    > 2: 14869.120: 0.234540 0.0337758
    > 3: 14868.448: 0.257104 0.0405381
    > 4: 14868.361: 0.249359 0.0627845
    > 5: 14868.329: 0.253832 0.0616944
    371,372c365,366
    < 8: 14868.325: 0.254282 0.0585649
    < 9: 14868.325: 0.254614 0.0587517
    ---
    > 8: 14868.325: 0.254282 0.0585648
    > 9: 14868.325: 0.254614 0.0587516
    444c438
    < (Intercept) 5.92742 0.08660 68.4
    ---
    > (Intercept) 5.92741 0.08660 68.4
    446c440
    < sexF 0.09844 0.11455 0.9
    ---
    > sexF 0.09844 0.11454 0.9
    Running ‘versions.R’ [3s/3s]
  • checking for unstated dependencies in vignettes ... OK
  • checking package vignettes in ‘inst/doc’ ... OK
  • checking running R code from vignettes ... [24s/24s] OK
  • checking re-building of vignette PDFs ... [19s/19s] OK
  • checking PDF version of manual ... OK
    NOTE: There was 1 note.
    See
    ‘/home/hornik/tmp/R.check/r-release/Work/PKGS/mlmRev.Rcheck/00check.log’
    for details.