AFNI Message Board

Dear AFNI users-

We are very pleased to announce that the new AFNI Message Board framework is up! Please join us at:

https://discuss.afni.nimh.nih.gov

Existing user accounts have been migrated, so returning users can login by requesting a password reset. New users can create accounts, as well, through a standard account creation process. Please note that these setup emails might initially go to spam folders (esp. for NIH users!), so please check those locations in the beginning.

The current Message Board discussion threads have been migrated to the new framework. The current Message Board will remain visible, but read-only, for a little while.

Sincerely, AFNI HQ

History of AFNI updates  

|
May 29, 2019 09:38AM
I very appreciate it, Dr. Gang.

Please find the following lines containing the content of the Terminal messages:

3dMVM -COMPARE_masked -jobs 1 \
> -bsVars 'group*class' \
> -SS_type 3 \
> -num_glt 1 \
> -gltLabel 1 FSD_vs_HV -gltCode 1 'group : 1*FSD -1*HV' \
> -mask mask_resamp_bin+tlrc. \
> -dataTable @dataTable_new.txt
Read 300 items
Loading required package: lme4
Loading required package: Matrix
************
Welcome to afex. For support visit: [afex.singmann.science]
- Functions for ANOVAs: aov_car(), aov_ez(), and aov_4()
- Methods for calculating p-values with mixed(): 'KR', 'S', 'LRT', and 'PB'
- 'afex_aov' and 'mixed' objects can be passed to emmeans() for follow-up tests
- NEWS: library('emmeans') now needs to be called explicitly!
- Get and set global package options with: afex_options()
- Set orthogonal sum-to-zero contrasts globally: set_sum_contrasts()
- For example analyses see: browseVignettes("afex")
************

Attaching package: ‘afex’

The following object is masked from ‘package:lme4’:

lmer

Warning messages:
1: package ‘afex’ was built under R version 3.4.4
2: package ‘lme4’ was built under R version 3.4.4
3: package ‘Matrix’ was built under R version 3.4.4
Loading required package: car
Loading required package: carData
Warning messages:
1: package ‘car’ was built under R version 3.4.4
2: package ‘carData’ was built under R version 3.4.4

++++++++++++++++++++++++++++++++++++++++++++++++++++
***** Summary information of data structure *****
74 subjects : s103 s107 s109 s110 s112 s113 s114 s115 s116 s117 s118 s121 s122 s123 s129 s130 s132 s133 s134 s135 s138 s139 s140 s143 s145 s146 s148 s149 s151 s153 s154 s155 s305 s307 s308 s309 s315 s317 s319 s322 s323 s324 s325 s330 s335 s337 s338 s340 s341 s348 s349 s352 s355 s501 s502 s511 s531 s532 s534 s536 s538 s541 s542 s543 s544 s545 s546 s547 s549 s551 s552 s553 s554 s556
74 response values
3 levels for factor group : FSD HV URF
2 levels for factor class : 1 2
1 post hoc tests

Contingency tables of subject distributions among the categorical variables:

class
group 1 2
FSD 0 21
HV 32 0
URF 0 21

Tabulation of subjects against each of the categorical variables:
~~~~~~~~~~~~~~
lop$nSubj vs group:

FSD HV URF
s103 0 1 0
s107 0 1 0
s109 0 1 0
s110 0 1 0
s112 0 1 0
s113 0 1 0
s114 0 1 0
s115 0 1 0
s116 0 1 0
s117 0 1 0
s118 0 1 0
s121 0 1 0
s122 0 1 0
s123 0 1 0
s129 0 1 0
s130 0 1 0
s132 0 1 0
s133 0 1 0
s134 0 1 0
s135 0 1 0
s138 0 1 0
s139 0 1 0
s140 0 1 0
s143 0 1 0
s145 0 1 0
s146 0 1 0
s148 0 1 0
s149 0 1 0
s151 0 1 0
s153 0 1 0
s154 0 1 0
s155 0 1 0
s305 1 0 0
s307 1 0 0
s308 1 0 0
s309 1 0 0
s315 1 0 0
s317 1 0 0
s319 1 0 0
s322 1 0 0
s323 1 0 0
s324 1 0 0
s325 1 0 0
s330 1 0 0
s335 1 0 0
s337 1 0 0
s338 1 0 0
s340 1 0 0
s341 1 0 0
s348 1 0 0
s349 1 0 0
s352 1 0 0
s355 1 0 0
s501 0 0 1
s502 0 0 1
s511 0 0 1
s531 0 0 1
s532 0 0 1
s534 0 0 1
s536 0 0 1
s538 0 0 1
s541 0 0 1
s542 0 0 1
s543 0 0 1
s544 0 0 1
s545 0 0 1
s546 0 0 1
s547 0 0 1
s549 0 0 1
s551 0 0 1
s552 0 0 1
s553 0 0 1
s554 0 0 1
s556 0 0 1

~~~~~~~~~~~~~~
lop$nSubj vs class:

1 2
s103 1 0
s107 1 0
s109 1 0
s110 1 0
s112 1 0
s113 1 0
s114 1 0
s115 1 0
s116 1 0
s117 1 0
s118 1 0
s121 1 0
s122 1 0
s123 1 0
s129 1 0
s130 1 0
s132 1 0
s133 1 0
s134 1 0
s135 1 0
s138 1 0
s139 1 0
s140 1 0
s143 1 0
s145 1 0
s146 1 0
s148 1 0
s149 1 0
s151 1 0
s153 1 0
s154 1 0
s155 1 0
s305 0 1
s307 0 1
s308 0 1
s309 0 1
s315 0 1
s317 0 1
s319 0 1
s322 0 1
s323 0 1
s324 0 1
s325 0 1
s330 0 1
s335 0 1
s337 0 1
s338 0 1
s340 0 1
s341 0 1
s348 0 1
s349 0 1
s352 0 1
s355 0 1
s501 0 1
s502 0 1
s511 0 1
s531 0 1
s532 0 1
s534 0 1
s536 0 1
s538 0 1
s541 0 1
s542 0 1
s543 0 1
s544 0 1
s545 0 1
s546 0 1
s547 0 1
s549 0 1
s551 0 1
s552 0 1
s553 0 1
s554 0 1
s556 0 1

***** End of data structure information *****
++++++++++++++++++++++++++++++++++++++++++++++++++++

Reading input files now...

Reading input files: Done!

If the program hangs here for more than, for example, half an hour,
kill the process because the model specification or the GLT coding
is likely inappropriate.

~~~~~~~~~~~~~~~~~~~ Model test failed! ~~~~~~~~~~~~~~~~~~~
Possible reasons:

0) Make sure that R packages afex and phia have been installed. See the 3dMVM
help documentation for more details.

1) Inappropriate model specification with options -bsVars, -wsVars, or -qVars.
Note that within-subject or repeated-measures variables have to be declared
with -wsVars.

2) Incorrect specifications in general linear test coding with -gltCode.

3) Mistakes in data table. Check the data structure shown above, and verify
whether there are any inconsistencies.

4) Inconsistent variable names which are case sensitive. For example, factor
named Group in model specification and then listed as group in the table header
would cause grief for 3dMVM.

5) Not enough number of subjects. This may happen when there are two or more
withi-subject factors. For example, a model with two within-subject factors with
m and n levels respectively requires more than (m-1)*(n-1) subjects to be able to
model the two-way interaction with the multivariate approach.


** Error:
Quitting due to model test failure...



______________________

Thank you so much for your time.

Respectfully,
Sanaz
Subject Author Posted

which package to use for ANCOVA

mvantieghem May 29, 2015 05:50PM

Re: which package to use for ANCOVA

gang May 29, 2015 06:06PM

Re: which package to use for ANCOVA

Sanaz_khosravani May 23, 2019 04:03PM

Re: which package to use for ANCOVA

gang May 24, 2019 10:26AM

Re: which package to use for ANCOVA

Sanaz_khosravani May 24, 2019 11:50AM

Re: which package to use for ANCOVA

gang May 24, 2019 12:24PM

Re: which package to use for ANCOVA

Sanaz_khosravani May 24, 2019 04:01PM

Re: which package to use for ANCOVA

gang May 24, 2019 05:04PM

Re: which package to use for ANCOVA

Sanaz_khosravani May 27, 2019 03:58PM

Re: which package to use for ANCOVA

gang May 28, 2019 05:30PM

Re: which package to use for ANCOVA

Sanaz_khosravani May 29, 2019 09:38AM

Re: which package to use for ANCOVA

gang May 29, 2019 11:40AM

Re: which package to use for ANCOVA

Sanaz_khosravani May 29, 2019 02:05PM

Re: which package to use for ANCOVA

Sanaz_khosravani May 29, 2019 05:35PM