Error in re-building vignettes:
  ...
Observations with missing time information found - removing 1 rows
Discrete time points created:  3
Warning:  measures of time dependent predictor 1 occurring at final measurement occasion removed, as they have no time to impact processes
Extracting first non-missing value for time independent predictors
imputedefs==FALSE (default, recommended) so setting observations with no time value to NA
Running ctsemCarefulFit with 16 parameters

Begin fit attempt 1 of at maximum 16 tries

 Lowest minimum so far:  4190.79777550122

Solution found

Running ctsemCarefulFit with 15 parameters

Begin fit attempt 1 of at maximum 16 tries

 Lowest minimum so far:  4196.73541494046

Solution found

NPSOL optimizer not available - switching to CSOLNP - consider installing OpenMx using command:  source('http://openmx.psyc.virginia.edu/getOpenMx.R') 
Running ctsem with 16 parameters
Running ctsemCarefulFit with 19 parameters

Begin fit attempt 1 of at maximum 16 tries

 Lowest minimum so far:  4151.1313211327

Solution found

Plotting fit
Plotting fit
Running ctsemCarefulFit with 23 parameters

Begin fit attempt 1 of at maximum 16 tries

 Lowest minimum so far:  4254.37894236719

 Not all eigenvalues of Hessian are greater than 0: 24915.81770684, 4505.43622793148, 1516.30105262505, 1044.23688298424, 756.933389409129, 505.228218554546, 400.012082453449, 328.621459333327, 256.968369760283, 252.219382435663, 216.301558786934, 197.195903303706, 180.872829508156, 129.312532285403, 115.430844141746, 99.1977160939545, 77.9612547677208, 45.8258109970299, 22.3490127530054, 5.77149283024165, 3.04639531353032, 1.07208309086639, -0.0000000780165081418082

Begin fit attempt 2 of at maximum 16 tries

 Not all eigenvalues of Hessian are greater than 0: 24915.81770684, 4505.43622793148, 1516.30105262505, 1044.23688298424, 756.933389409129, 505.228218554546, 400.012082453449, 328.621459333327, 256.968369760283, 252.219382435663, 216.301558786934, 197.195903303706, 180.872829508156, 129.312532285403, 115.430844141746, 99.1977160939545, 77.9612547677208, 45.8258109970299, 22.3490127530054, 5.77149283024165, 3.04639531353032, 1.07208309086639, -0.0000000780165081418082

Begin fit attempt 3 of at maximum 16 tries

 Not all eigenvalues of Hessian are greater than 0: 24915.7885200533, 4505.44527554433, 1516.28884040288, 1044.21048231784, 756.922210781556, 505.227055286751, 400.004330669108, 328.6059897883, 256.947823411162, 252.211722444558, 216.302209095254, 197.196572253397, 180.862875165747, 129.30388863, 115.416192608982, 99.1911491843669, 77.9583045868811, 45.8167153123053, 22.3300597409113, 5.76785653513864, 3.03645303667891, 1.0669750514276, -0.000133180711324489

Begin fit attempt 4 of at maximum 16 tries

 Not all eigenvalues of Hessian are greater than 0: 24915.7943350771, 4505.45366972057, 1516.2867254402, 1044.20832147211, 756.909749437515, 505.225624497111, 399.99590986727, 328.612782027091, 256.93541171857, 252.208069505257, 216.302985614919, 197.188160806889, 180.856481177899, 129.302960153936, 115.411189087122, 99.1778650068017, 77.9565704070625, 45.8096620087927, 22.3282183538908, 5.75531339847041, 3.03351084329888, 1.06619828758733, -0.000281151441263349

Begin fit attempt 5 of at maximum 16 tries

 Not all eigenvalues of Hessian are greater than 0: 24915.8025778942, 4505.44122944124, 1516.29635186755, 1044.21731605349, 756.916646453036, 505.225321298193, 399.995920220751, 328.616931937904, 256.957658441479, 252.218217765017, 216.303075384843, 197.19658435775, 180.859609466281, 129.298719581219, 115.408044235744, 99.1836057830094, 77.9649169698141, 45.8163890990169, 22.3373967199035, 5.76793335891688, 3.04418768805255, 1.06906845751858, -0.000000318452723385389

Begin fit attempt 6 of at maximum 16 tries

 Lowest minimum so far:  4254.37894236681

 Not all eigenvalues of Hessian are greater than 0: 24915.7996611906, 4505.43763896952, 1516.30439430711, 1044.22523899068, 756.934565308793, 505.227876948701, 400.003651000027, 328.6302474394, 256.962228026338, 252.210903286815, 216.304380729032, 197.196571701842, 180.870477155086, 129.308213829092, 115.41749000939, 99.1912370685736, 77.9627255207809, 45.815262194476, 22.3454256469259, 5.77219895511757, 3.04924852971514, 1.06833931738719, -0.00000925297160460168

Begin fit attempt 7 of at maximum 16 tries

 Not all eigenvalues of Hessian are greater than 0: 24915.7996611906, 4505.43763896952, 1516.30439430711, 1044.22523899068, 756.934565308793, 505.227876948701, 400.003651000027, 328.6302474394, 256.962228026338, 252.210903286815, 216.304380729032, 197.196571701842, 180.870477155086, 129.308213829092, 115.41749000939, 99.1912370685736, 77.9627255207809, 45.815262194476, 22.3454256469259, 5.77219895511757, 3.04924852971514, 1.06833931738719, -0.00000925297160460168

Begin fit attempt 8 of at maximum 16 tries

 Lowest minimum so far:  4254.37894236671

 Not all eigenvalues of Hessian are greater than 0: 24915.7681282054, 4505.44642799935, 1516.29417552993, 1044.21848424514, 756.922119959377, 505.22627028969, 400.00433009272, 328.623731168215, 256.94778285771, 252.216249845772, 216.304052167786, 197.188852490707, 180.865080467469, 129.299599783411, 115.403840171735, 99.1869434350754, 77.9624089355907, 45.8048585159328, 22.344943629398, 5.76272994903925, 3.0450858282413, 1.07069801049795, -0.000000042143655610968

Begin fit attempt 9 of at maximum 16 tries

 Lowest minimum so far:  4254.37894236671

Solution found

MANIFESTMEANS contained character labels - setting matrix to 0
MANIFESTVAR contained character labels - setting matrix to 0
T0TDPREDCOV contained character labels - setting matrix to 0
TRAITTDPREDCOV contained character labels - setting matrix to 0
Discrete time points created:  20
Warning:  measures of time dependent predictor 1 occurring at final measurement occasion removed, as they have no time to impact processes
imputedefs==FALSE (default, recommended) so setting observations with no time value to NA
MANIFESTMEANS contained character labels - setting matrix to 0
MANIFESTVAR contained character labels - setting matrix to 0
T0TDPREDCOV contained character labels - setting matrix to 0
TRAITTDPREDCOV contained character labels - setting matrix to 0
Discrete time points created:  20
Warning:  measures of time dependent predictor 1 occurring at final measurement occasion removed, as they have no time to impact processes
imputedefs==FALSE (default, recommended) so setting observations with no time value to NA
MANIFESTMEANS contained character labels - setting matrix to 0
MANIFESTVAR contained character labels - setting matrix to 0
T0TDPREDCOV contained character labels - setting matrix to 0
TRAITTDPREDCOV contained character labels - setting matrix to 0
Discrete time points created:  20
Warning:  measures of time dependent predictor 1 occurring at final measurement occasion removed, as they have no time to impact processes
imputedefs==FALSE (default, recommended) so setting observations with no time value to NA
MANIFESTMEANS contained character labels - setting matrix to 0
MANIFESTVAR contained character labels - setting matrix to 0
T0TDPREDCOV contained character labels - setting matrix to 0
TRAITTDPREDCOV contained character labels - setting matrix to 0
Discrete time points created:  20
Warning:  measures of time dependent predictor 1 occurring at final measurement occasion removed, as they have no time to impact processes
imputedefs==FALSE (default, recommended) so setting observations with no time value to NA
Time dependent predictors with 0 variance and free TDPREDVAR matrix detected - fixing TDPREDVAR matrix diagonal to 0.01 to allow estimation.
Running ctsemCarefulFit with 28 parameters

Begin fit attempt 1 of at maximum 16 tries

 Lowest minimum so far:  1756.22268306062

Solution found

Warning in (diag(TDPREDVAR)) + diag(ridging, n.TDpred) :
  Recycling array of length 1 in vector-array arithmetic is deprecated.
  Use c() or as.vector() instead.

Warning in (diag(TDPREDVAR)) + diag(ridging, n.TDpred) :
  Recycling array of length 1 in vector-array arithmetic is deprecated.
  Use c() or as.vector() instead.

Warning in (diag(TDPREDVAR)) + diag(ridging, n.TDpred) :
  Recycling array of length 1 in vector-array arithmetic is deprecated.
  Use c() or as.vector() instead.

Warning in (diag(TDPREDVAR)) + diag(ridging, n.TDpred) :
  Recycling array of length 1 in vector-array arithmetic is deprecated.
  Use c() or as.vector() instead.

Time dependent predictors with 0 variance and free TDPREDVAR matrix detected - fixing TDPREDVAR matrix diagonal to 0.01 to allow estimation.
transformedParams=TRUE and non positive DIFFUSION diagonal specified, setting to .00001.
Running ctsemCarefulFit with 30 parameters

Begin fit attempt 1 of at maximum 16 tries

 Lowest minimum so far:  1527.67769914636

 Not all eigenvalues of Hessian are greater than 0: 5013967.40250971, 1600513.40079591, 236870.295133556, 41067.5418818812, 26824.3927469686, 20000.0207789765, 19999.9984673141, 19999.9941592999, 19999.9880411786, 19999.982856859, 19999.9807390261, 19999.9783645422, 9743.08596859457, 2209.09958621221, 1549.44639878558, 1220.78192389266, 858.675281030132, 648.890052290913, 289.594322731256, 204.50575611904, 187.816491507598, 164.437654133153, 143.822356450701, 51.124857544795, 22.3758194779366, 10.1703999769515, 4.43274697492977, 3.7277299020322, 0.00000185557333911836, -0.000175025411786338

Begin fit attempt 2 of at maximum 16 tries

 Lowest minimum so far:  1527.67769914582

Solution found

Warning in (diag(TDPREDVAR)) + diag(ridging, n.TDpred) :
  Recycling array of length 1 in vector-array arithmetic is deprecated.
  Use c() or as.vector() instead.

Warning in (diag(TDPREDVAR)) + diag(ridging, n.TDpred) :
  Recycling array of length 1 in vector-array arithmetic is deprecated.
  Use c() or as.vector() instead.

Single subject dataset or Kalman objective specified - ignoring any specified between subject 
      variance matrices (TRAITVAR, T0TRAITEFFECT,MANIFESTTRAITVAR, TIPREDEFFECT, TIPREDVAR, TDTIPREDCOV, T0TIPREDEFFECT)
Running ctsemCarefulFit with 10 parameters

Begin fit attempt 1 of at maximum 16 tries

 Lowest minimum so far:  -119.382333796691

Solution found


Begin fit attempt 1 of at maximum 6 tries

 Lowest minimum so far:  2112.24501947508

 OpenMx status code 6 not in list of acceptable status codes, 0
 OpenMx status code 6 not in list of acceptable status codes, 0

Begin fit attempt 2 of at maximum 6 tries

 OpenMx status code 6 not in list of acceptable status codes, 0
 OpenMx status code 6 not in list of acceptable status codes, 0

Begin fit attempt 3 of at maximum 6 tries

 OpenMx status code 6 not in list of acceptable status codes, 0
 OpenMx status code 6 not in list of acceptable status codes, 0

Begin fit attempt 4 of at maximum 6 tries

 OpenMx status code 6 not in list of acceptable status codes, 0
 OpenMx status code 6 not in list of acceptable status codes, 0

Begin fit attempt 5 of at maximum 6 tries

 OpenMx status code 6 not in list of acceptable status codes, 0
 OpenMx status code 6 not in list of acceptable status codes, 0

Begin fit attempt 6 of at maximum 6 tries

 OpenMx status code 6 not in list of acceptable status codes, 0
 OpenMx status code 6 not in list of acceptable status codes, 0

Retry limit reached
T0VAR contained character labels - setting matrix to 0
T0MEANS contained character labels - setting matrix to 0
MANIFESTMEANS contained character labels - setting matrix to 0
Discrete time points created:  200
imputedefs==FALSE (default, recommended) so setting observations with no time value to NA
Plotting rows 1, 
Single subject dataset or Kalman objective specified - ignoring any specified between subject 
      variance matrices (TRAITVAR, T0TRAITEFFECT,MANIFESTTRAITVAR, TIPREDEFFECT, TIPREDVAR, TDTIPREDCOV, T0TIPREDEFFECT)
transformedParams=TRUE and non positive DIFFUSION diagonal specified, setting to .00001.
Running ctsemCarefulFit with 8 parameters

Begin fit attempt 1 of at maximum 16 tries

 Lowest minimum so far:  691.380364368769

Solution found

transformedParams=TRUE and non positive DIFFUSION diagonal specified, setting to .00001.

Begin fit attempt 1 of at maximum 16 tries

 Fit attempt generated errors

Begin fit attempt 2 of at maximum 16 tries

 Fit attempt generated errors

Begin fit attempt 3 of at maximum 16 tries

 Fit attempt generated errors

Begin fit attempt 4 of at maximum 16 tries

 Fit attempt generated errors

Begin fit attempt 5 of at maximum 16 tries

 Fit attempt generated errors

Begin fit attempt 6 of at maximum 16 tries

 Fit attempt generated errors

Begin fit attempt 7 of at maximum 16 tries

 Fit attempt generated errors

Begin fit attempt 8 of at maximum 16 tries

 Fit attempt generated errors

Begin fit attempt 9 of at maximum 16 tries

 Fit attempt generated errors

Begin fit attempt 10 of at maximum 16 tries

 Fit attempt generated errors

Begin fit attempt 11 of at maximum 16 tries

 Fit attempt generated errors

Begin fit attempt 12 of at maximum 16 tries

 Fit attempt generated errors

Begin fit attempt 13 of at maximum 16 tries

 Fit attempt generated errors

Begin fit attempt 14 of at maximum 16 tries

 Fit attempt generated errors

Begin fit attempt 15 of at maximum 16 tries

 Fit attempt generated errors

Begin fit attempt 16 of at maximum 16 tries

 Fit attempt generated errors

Retry limit reached
All fit attempts resulted in errors - check starting values or model specification
Running ctsemCarefulFit with 16 parameters

Begin fit attempt 1 of at maximum 16 tries

 Lowest minimum so far:  4190.79777549895

Solution found

Running ctsemCarefulFit with 19 parameters

Begin fit attempt 1 of at maximum 16 tries

 Lowest minimum so far:  4151.1313211327

Solution found

Running ctsemCarefulFit with 19 parameters

Begin fit attempt 1 of at maximum 16 tries

 Lowest minimum so far:  4203.31303209726

Solution found

NPSOL optimizer not available - switching to CSOLNP - consider installing OpenMx using command:  source('http://openmx.psyc.virginia.edu/getOpenMx.R') 
Running ctsem with 19 parameters
NPSOL optimizer not available - switching to CSOLNP - consider installing OpenMx using command:  source('http://openmx.psyc.virginia.edu/getOpenMx.R') 
Running ctsem with 19 parameters
Unique discreteDRIFT calculations per step required = 6
Unique discreteCINT calculations per step required = 6
Unique discreteDIFFUSION calculations per step required = 6
2 / 2 latent variables required for covariance calculations
Compiling model - ignore below warning re number of chains
the number of chains is less than 1; sampling not done
Sampling...
The following numerical problems occured the indicated number of times on chain 2
                                                                                                     count
Exception thrown at line 361: multiply: A[1] is nan, but must not be nan!                                3
Exception thrown at line 361: multiply: B[1] is -nan, but must not be nan!                               2
Exception thrown at line 242: multiply: A[22] is -nan, but must not be nan!                              1
Exception thrown at line 430: cholesky_decompose: A is not symmetric. A[1,2] = -nan, but A[2,1] = -n     1
Exception thrown at line 430: cholesky_decompose: Matrix m is not positive definite                      1
Exception thrown at line 432: multiply: A[1] is -nan, but must not be nan!                               1
When a numerical problem occurs, the Hamiltonian proposal gets rejected.
See http://mc-stan.org/misc/warnings.html#exception-hamiltonian-proposal-rejected
If the number in the 'count' column is small, do not ask about this message on stan-users.
The following numerical problems occured the indicated number of times on chain 1
                                                                            count
Exception thrown at line 361: multiply: A[1] is nan, but must not be nan!       6
Exception thrown at line 432: multiply: A[1] is -nan, but must not be nan!      2
Exception thrown at line 242: multiply: A[22] is -nan, but must not be nan!     1
When a numerical problem occurs, the Hamiltonian proposal gets rejected.
See http://mc-stan.org/misc/warnings.html#exception-hamiltonian-proposal-rejected
If the number in the 'count' column is small, do not ask about this message on stan-users.
Getting discreteDRIFT, may take a moment...
removing T0VAR and T0MEANS from parameter matrices because stationary=TRUE
Unique discreteDRIFT calculations per step required = 2
Unique discreteCINT calculations per step required = 2
Unique discreteDIFFUSION calculations per step required = 2
2 / 2 latent variables required for covariance calculations
Compiling model - ignore below warning re number of chains
the number of chains is less than 1; sampling not done
Sampling...
The following numerical problems occured the indicated number of times on chain 1
                                                                          count
Exception thrown at line 281: multiply: A[1] is nan, but must not be nan!     9
When a numerical problem occurs, the Hamiltonian proposal gets rejected.
See http://mc-stan.org/misc/warnings.html#exception-hamiltonian-proposal-rejected
If the number in the 'count' column is small, do not ask about this message on stan-users.
The following numerical problems occured the indicated number of times on chain 2
                                                                                    count
Exception thrown at line 281: multiply: A[1] is nan, but must not be nan!               9
Exception thrown at line 350: cholesky_decompose: Matrix m is not positive definite     2
When a numerical problem occurs, the Hamiltonian proposal gets rejected.
See http://mc-stan.org/misc/warnings.html#exception-hamiltonian-proposal-rejected
If the number in the 'count' column is small, do not ask about this message on stan-users.
Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet,  : 
  Running 'texi2dvi' on 'hierarchical.tex' failed.
LaTeX errors:
! Dimension too large.
\fb@put@frame ...p \ifdim \dimen@ >\ht \@tempboxa 
                                                  \fb@putboxa #1\fb@afterfra...
l.2208 \end{kframe}
                   
! Dimension too large.
\fb@put@frame ...p \ifdim \dimen@ >\ht \@tempboxa 
                                                  \fb@putboxa #1\fb@afterfra...
l.2208 \end{kframe}
                   
! Dimension too large.
\fb@put@frame ...p \ifdim \dimen@ >\ht \@tempboxa 
                                                  \fb@putboxa #1\fb@afterfra...
l.2208 \end{kframe}
                   
! Dimension too large.
\fb@put@frame ...p \ifdim \dimen@ >\ht \@tempboxa 
                                                  \fb@putboxa #1\fb@afterfra...
l.2208 \end{kframe}
                   
! Dimension too large.
\fb@put@frame ...p \ifdim \dimen@ >\ht \@tempboxa 
                                                  \fb@putboxa #1\fb@afterfra.
Calls: buildVignettes -> texi2pdf -> texi2dvi
Execution halted