Check results for 'psychTools'

using R version 4.3.0 beta (2023-04-08 r84203)
using platform: x86_64-apple-darwin20 (64-bit)
R was compiled by
Apple clang version 14.0.3 (clang-1403.0.22.14.1)
GNU Fortran (GCC) 12.2.0
running under: macOS Ventura 13.3
using session charset: UTF-8
checking for file ‘psychTools/DESCRIPTION’ ... OK
this is package ‘psychTools’ version ‘2.3.3’
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 ‘psychTools’ can be installed ... [3s/4s] OK
checking installed package size ... OK
checking package directory ... OK
checking ‘build’ 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 R files for non-ASCII characters ... OK
checking R files for syntax errors ... OK
checking whether the package can be loaded ... [0s/0s] OK
checking whether the package can be loaded with stated dependencies ... [0s/0s] OK
checking whether the package can be unloaded cleanly ... [0s/0s] OK
checking whether the namespace can be loaded with stated dependencies ... [0s/0s] OK
checking whether the namespace can be unloaded cleanly ... [0s/0s] OK
checking loading without being on the library search path ... [0s/0s] OK
checking dependencies in R code ... OK
checking S3 generic/method consistency ... OK
checking replacement functions ... OK
checking foreign function calls ... OK
checking R code for possible problems ... [2s/3s] OK
checking Rd files ... [1s/1s] 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 ... [0s/1s] OK
checking LazyData ... OK
checking data for ASCII and uncompressed saves ... OK
checking sizes of PDF files under ‘inst/doc’ ... OK
checking installed files from ‘inst/doc’ ... OK
checking files in ‘vignettes’ ... OK
checking examples ... [7s/8s] OK
checking for unstated dependencies in vignettes ... OK
checking package vignettes in ‘inst/doc’ ... OK
checking running R code from vignettes ... [45s/37s] OK
  ‘factor.Rnw’... [13s/10s] OK
  ‘mediation.rnw’... [10s/8s] OK
  ‘omega.Rnw’... [2s/2s] OK
  ‘overview.Rnw’... [21s/16s] OK
checking re-building of vignette outputs ... [57s/52s] NOTE
Error(s) in re-building vignettes:
--- re-building ‘factor.Rnw’ using Sweave
Loading required namespace: GPArotation
Number of categories should be increased in order to count frequencies.
Number of categories should be increased in order to count frequencies.
Number of categories should be increased in order to count frequencies.
Loading required namespace: lavaan
Warning in lav_object_post_check(object) :
  lavaan WARNING: some estimated ov variances are negative
For i = 9 j = 1 A cell entry of 0 was replaced with correct = TRUE. Check your data!
For i = 9 j = 1 A cell entry of 0 was replaced with correct = TRUE. Check your data!
Error: processing vignette 'factor.Rnw' failed with diagnostics:
Running 'texi2dvi' on 'factor.tex' failed.
LaTeX errors:
! LaTeX Error: File `gensymb.sty' not found.

Type X to quit or <RETURN> to proceed,
or enter new name. (Default extension: sty)

! Emergency stop.
<read *>

l.24 \usepackage
                {longtable}^^M
! ==> Fatal error occurred, no output PDF file produced!
--- failed re-building ‘factor.Rnw’

--- re-building ‘mediation.rnw’ using Sweave
The replication data matrices were simulated based upon the specified number of subjects and the observed correlation matrix.
The replication data matrices were simulated based upon the specified number of subjects and the observed correlation matrix.
Error: processing vignette 'mediation.rnw' failed with diagnostics:
Running 'texi2dvi' on 'mediation.tex' failed.
LaTeX errors:
! LaTeX Error: File `gensymb.sty' not found.

Type X to quit or <RETURN> to proceed,
or enter new name. (Default extension: sty)

! Emergency stop.
<read *>

l.24 \usepackage
                {longtable}^^M
! ==> Fatal error occurred, no output PDF file produced!
--- failed re-building ‘mediation.rnw’

--- re-building ‘omega.Rnw’ using Sweave
Loading required namespace: GPArotation

Three factors are required for identification -- general factor loadings set to be equal.
Proceed with caution.
Think about redoing the analysis with alternative values of the 'option' setting.

Loading required namespace: lavaan
Error: processing vignette 'omega.Rnw' failed with diagnostics:
Running 'texi2dvi' on 'omega.tex' failed.
LaTeX errors:
! LaTeX Error: File `gensymb.sty' not found.

Type X to quit or <RETURN> to proceed,
or enter new name. (Default extension: sty)

! Emergency stop.
<read *>

l.25 \usepackage
                {longtable}^^M
! ==> Fatal error occurred, no output PDF file produced!
--- failed re-building ‘omega.Rnw’

--- re-building ‘overview.Rnw’ using Sweave
Loading required package: GPArotation

Attaching package: ‘psych’

The following objects are masked from ‘package:GPArotation’:

    equamax, varimin

Pearson correlations of the raw data were found
Warning in cor.smooth(model) :
  Matrix was not positive definite, smoothing was done
Pearson correlations of the raw data were found
Warning in cor.smooth(model) :
  Matrix was not positive definite, smoothing was done
Number of categories should be increased in order to count frequencies.
Number of categories should be increased in order to count frequencies.
Number of categories should be increased in order to count frequencies.
Loading required namespace: lavaan
Warning in lav_object_post_check(object) :
  lavaan WARNING: some estimated ov variances are negative
Warning in log(P) : NaNs produced
Warning in optimize(tetraF, interval = c(-1, 1), rc = rc, cc = cc, tab = tab) :
  NA/Inf replaced by maximum positive value
For i = 9 j = 1 A cell entry of 0 was replaced with correct = TRUE. Check your data!
Error: processing vignette 'overview.Rnw' failed with diagnostics:
Running 'texi2dvi' on 'overview.tex' failed.
LaTeX errors:
! LaTeX Error: File `gensymb.sty' not found.

Type X to quit or <RETURN> to proceed,
or enter new name. (Default extension: sty)

! Emergency stop.
<read *>

l.24 \usepackage
                {longtable}^^M
! ==> Fatal error occurred, no output PDF file produced!
--- failed re-building ‘overview.Rnw’

SUMMARY: processing the following files failed:
  ‘factor.Rnw’ ‘mediation.rnw’ ‘omega.Rnw’ ‘overview.Rnw’

Error: Vignette re-building failed.
Execution halted
checking PDF version of manual ... [6s/7s] OK
DONE
Status: 1 NOTE
using check arguments '--no-clean-on-error '