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Dear AFNI users-

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Sincerely, AFNI HQ

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Sara H
June 27, 2013 01:44PM
Dear all,
I am actually getting the same error. I tried to run: file_tool - test -infile -3dLME.sh
command, but it was not recognizing my file. I feel like it may be something specific to my environment, but I am just not sure. Also, I am using nifti files created via SPM8, if that would make a difference, I just am not sure. Specifically what I am trying to do is have Time (T1, T2) as a within subjects variable, with ability as a predictor of changes in brain activation over time for the specific contrast which is entered in the input file. Below is my code:

3dLME -prefix diff_ability \
-model "Time*ability" \
-qVars "ability" \
-qVarCenters ".042" \
-ranEff '~1+ability' \
-SS_type 3 \
-num_glt 2 \
-gltLabel 1 'T2-T1' -gltCode 1 'cond : 1*T2 -1*T1' \
-gltLabel 2 'T1-T2' -gltCode 2 'cond : 1*T1 -1*T2' \
-dataTable \
subj cond ability InputFile \
1030 T1 -1.017526938 /nii_palid/1030.1/wordsRPxmask_fixationBL_melodic/con_0003.img \
1189 T1 -0.98112646 /nii_palid/1189.1/wordsRPxmask_fixationBL_melodic/con_0003.img \
1101 T1 -0.907346883 /nii_palid/1101.1/wordsRPxmask_fixationBL_melodic/con_0003.img \
1960 T1 -0.881102601 /nii_palid/1960.1/wordsRPxmask_fixationBL_melodic/con_0003.img \
1691 T1 -0.83335444 /nii_palid/1691.1/wordsRPxmask_fixationBL_melodic/con_0003.img \
1624 T1 -0.688944297 /nii_palid/1624.1/wordsRPxmask_fixationBL_melodic/con_0003.img \
1212 T1 -0.412258292 /nii_palid/1212.1/wordsRPxmask_fixationBL_melodic/con_0003.img \
1478 T1 -0.348496428 /nii_palid/1478.1/wordsRPxmask_fixationBL_melodic/con_0003.img \
1715 T1 -0.17507587 /nii_palid/1715.1/wordsRPxmask_fixationBL_melodic/con_0003.img \
1276 T1 -0.101675354 /nii_palid/1276.1/wordsRPxmask_fixationBL_melodic/con_0003.img \
1036 T1 -0.082086909 /nii_palid/1036.1/wordsRPxmask_fixationBL_melodic/con_0003.img \
1075 T1 -0.075764227 /nii_palid/1075.1/wordsRPxmask_fixationBL_melodic/con_0003.img \
1964 T1 0.135318565 /nii_palid/1964.1/wordsRPxmask_fixationBL_melodic/con_0003.img \
1841 T1 0.180886352 /nii_palid/1841.1/wordsRPxmask_fixationBL_melodic/con_0003.img \
2175 T1 0.265751024 /nii_palid/2175.1/wordsRPxmask_fixationBL_melodic/con_0003.img \
500 T1 0.374157944 /nii_palid/500.1/wordsRPxmask_fixationBL_melodic/con_0003.img \
1651 T1 0.426714426 /nii_palid/1651.1/wordsRPxmask_fixationBL_melodic/con_0003.img \
1474 T1 0.598028695 /nii_palid/1474.1/wordsRPxmask_fixationBL_melodic/con_0003.img \
1211 T1 0.855459409 /nii_palid/1211.1/wordsRPxmask_fixationBL_melodic/con_0003.img \
467 T1 0.97843359 /nii_palid/467.1/wordsRPxmask_fixationBL_melodic/con_0003.img \
1284 T1 0.998681882 /nii_palid/1284.1/wordsRPxmask_fixationBL_melodic/con_0003.img \
780 T1 1.049465228 /nii_palid/780.1/wordsRPxmask_fixationBL_melodic/con_0003.img \
1563 T1 1.608975529 /nii_palid/1563.1/wordsRPxmask_fixationBL_melodic/con_0003.img \
1030 T2 -1.017526938 /nii_palid/1030.2/wordsRPxmask_fixationBL_melodic/con_0003.img \
1189 T2 -0.98112646 /nii_palid/1189.2/wordsRPxmask_fixationBL_melodic/con_0003.img \
1101 T2 -0.907346883 /nii_palid/1101.2/wordsRPxmask_fixationBL_melodic/con_0003.img \
1960 T2 -0.881102601 /nii_palid/1960.2/wordsRPxmask_fixationBL_melodic/con_0003.img \
1691 T2 -0.83335444 /nii_palid/1691.2/wordsRPxmask_fixationBL_melodic/con_0003.img \
1624 T2 -0.688944297 /nii_palid/1624.2/wordsRPxmask_fixationBL_melodic/con_0003.img \
1212 T2 -0.412258292 /nii_palid/1212.2/wordsRPxmask_fixationBL_melodic/con_0003.img \
1478 T2 -0.348496428 /nii_palid/1478.2/wordsRPxmask_fixationBL_melodic/con_0003.img \
1715 T2 -0.17507587 /nii_palid/1715.2/wordsRPxmask_fixationBL_melodic/con_0003.img \
1276 T2 -0.101675354 /nii_palid/1276.2/wordsRPxmask_fixationBL_melodic/con_0003.img \
1036 T2 -0.082086909 /nii_palid/1036.2/wordsRPxmask_fixationBL_melodic/con_0003.img \
1075 T2 -0.075764227 /nii_palid/1075.2/wordsRPxmask_fixationBL_melodic/con_0003.img \
1964 T2 0.135318565 /nii_palid/1964.2/wordsRPxmask_fixationBL_melodic/con_0003.img \
1841 T2 0.180886352 /nii_palid/1841.2/wordsRPxmask_fixationBL_melodic/con_0003.img \
2175 T2 0.265751024 /nii_palid/2175.2/wordsRPxmask_fixationBL_melodic/con_0003.img \
500 T2 0.374157944 /nii_palid/500.2/wordsRPxmask_fixationBL_melodic/con_0003.img \
1651 T2 0.426714426 /nii_palid/1651.2/wordsRPxmask_fixationBL_melodic/con_0003.img \
1474 T2 0.598028695 /nii_palid/1474.2/wordsRPxmask_fixationBL_melodic/con_0003.img \
1211 T2 0.855459409 /nii_palid/1211.2/wordsRPxmask_fixationBL_melodic/con_0003.img \
467 T2 0.97843359 /nii_palid/467.2/wordsRPxmask_fixationBL_melodic/con_0003.img \
1284 T2 0.998681882 /nii_palid/1284.2/wordsRPxmask_fixationBL_melodic/con_0003.img \
780 T2 1.049465228 /nii_palid/780.2/wordsRPxmask_fixationBL_melodic/con_0003.img \
1563 T2 1.608975529 /nii_palid/1563.2/wordsRPxmask_fixationBL_melodic/con_0003.img \
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Subject Author Posted

3dLME R error

lynnac March 07, 2013 09:43AM

Re: 3dLME R error

rick reynolds March 07, 2013 09:58AM

Re: 3dLME R error

gang March 07, 2013 10:12AM

Re: 3dLME R error

lynnac March 07, 2013 10:30AM

Re: 3dLME R error

lynnac March 07, 2013 12:20PM

Re: 3dLME R error

gang March 07, 2013 12:39PM

Re: 3dLME R error

lynnac March 07, 2013 12:50PM

Re: 3dLME R error

lynnac March 07, 2013 01:03PM

Re: 3dLME R error

gang March 07, 2013 01:17PM

Re: 3dLME R error

lynnac March 07, 2013 01:21PM

Re: 3dLME R error

lynnac March 07, 2013 10:25AM

Re: 3dLME R error

lynnac March 12, 2013 12:33PM

Re: 3dLME R error

gang March 12, 2013 01:25PM

Re: 3dLME R error

lynnac March 12, 2013 01:28PM

Re: 3dLME R error

gang March 12, 2013 04:07PM

Re: 3dLME R error

lynnac March 12, 2013 04:33PM

Re: 3dLME R error

lynnac March 12, 2013 05:21PM

Re: 3dLME R error

Sara H June 27, 2013 01:44PM

Re: 3dLME R error

rick reynolds June 27, 2013 01:56PM

Re: 3dLME R error

Sara H June 27, 2013 04:18PM

Re: 3dLME R error

rick reynolds June 27, 2013 04:31PM

Re: 3dLME R error

gang June 27, 2013 05:18PM

Re: 3dLME R error

Sara H June 27, 2013 06:00PM

Re: 3dLME R error

rick reynolds June 27, 2013 08:46PM

Re: 3dLME R error

Isaac Schwabacher June 28, 2013 01:28PM

Re: 3dLME R error

gang June 28, 2013 01:43PM

Re: 3dLME R error

Isaac Schwabacher June 28, 2013 01:59PM

Re: 3dLME R error

Sara H June 28, 2013 04:55PM

Re: 3dLME R error

gang June 28, 2013 06:31PM