Hi,
1. Where do you have the dual regression script?
2. Have you you make it executable? chmod a+x dual regression?
3. How are you calling it? when you are at the directory you should do ./dual regression melodic.nii.gz 1 design.mat design.con 5000 results 'cat .filelist'
The signs that go with cat .filelist should be inclinated to the right and there ir a space between cat and .filelist
Rosalia.
El 20/03/2013 16:18, "carole menuel" <
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I have just updating my FSL at 5.02. I just running dual_regression and Ihave always the same problems
I've looked on the list and it seems this problem has come up before and was possibly a python issue? Try updating to the most recent version of FSL and see if that helps. There were 2-3 patches after 5.0.0 was released and FSL runs much more smoothly with the latest version in my experience.
Cheers,
Jeanette
On Wed, Mar 20, 2013 at 8:52 AM, carole menuel
<[log in to unmask]> wrote:
Hi
Thanks for your response
i am running dual_regression where my directory is located Documents/dualregressionextreme
dual_regression
groupmelodic.ica/melodic_IC.nii.gz 1 design.mat design.con 5000
dualregressionoutput2 dualregressioninput/sub3.nii.gz
dualregressioninput/sub5.nii.gz dualregressioninput/sub6.nii.gz
dualregressioninput/sub10.nii.gz dualregressioninput/sub11.nii.gz
dualregressioninput/sub13.nii.gz dualregressioninput/sub16.nii.gz
dualregressioninput/sub19.nii.gz dualregressioninput/sub20.nii.gz
dualregressioninput/sub21.nii.gz dualregressioninput/sub26.nii.gz
dualregressioninput/sub29.nii.gz dualregressioninput/sub31.nii.gz
dualregressioninput/sub38.nii.gz dualregressioninput/sub43.nii.gz
dualregressioninput/sub44.nii.gz dualregressioninput/sub47.nii.gz
dualregressioninput/tem1.nii.gz dualregressioninput/tem2.nii.gz
dualregressioninput/tem3.nii.gz dualregressioninput/tem4.nii.gz
dualregressioninput/tem5.nii.gz dualregressioninput/tem6.nii.gz
dualregressioninput/tem7.nii.gz dualregressioninput/tem8.nii.gz
dualregressioninput/tem9.nii.gz dualregressioninput/tem10.nii.gz
dualregressioninput/tem11.nii.gz dualregressioninput/tem12.nii.gz
dualregressioninput/tem13.nii.gz dualregressioninput/tem14.nii.gz
dualregressioninput/tem16.nii.gz dualregressioninput/tem17.nii.gz
dualregressioninput/tem18.nii.gz dualregressioninput/tem19.nii.gz
dualregressioninput/tem20.nii.gz dualregressioninput/tem21.nii.gz
dualregressioninput/tem22.nii.gz dualregressioninput/tem23.nii.gz
dualregressioninput/tem25.nii.gz dualregressioninput/tem26.nii.gz
dualregressioninput/tem27.nii.gz dualregressioninput/tem28.nii.gz
dualregressioninput/tem29.nii.gz dualregressioninput/tem30.nii.gz
caro
Envoyé le : Mercredi 20 mars 2013 14h34
Objet : Re: [FSL] Aw: Re: [FSL] dual regression
Hi,
Looks like your design.grp has the correct number of lines, so I'm assuming the design.mat does (I think you pasted the wrong file, but that's okay I don't need to see your design.mat).
Does .filelist have the correct number of lines in it? 45.
Although it may not matter (depending on where you're running the command from), it may help to type out the full path to the files you're calling in dual_regression.
Jeanette
On Wed, Mar 20, 2013 at 8:01 AM, carole menuel
<[log in to unmask]> wrote:
FSL version 5.0.0
dual_regression groupICA.gica/groupmelodic.ica/melodic_IC
1 design.mat design.con 5000 output `cat groupICA.gica/.filelist`
thanks
Carole
Envoyé le : Mercredi 20 mars 2013 12h13
Objet : Re: [FSL] Aw: Re: [FSL] dual regression
Hi,
Which FSL version are you using?
Which command line are you using?
Rosalia.
El 20/03/2013 12:07, "carole menuel" <
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dear rosalia
i haven't used another computer my matrix and all my input data are in the same directory so i don't understand the problem of path...
Hi,
I run melodic in one computer. Then, I copied all the output files to another computer to run dual regression. The problem is that the .filelist file had the path from the first computer and, therefore, I was having the same problems for running dual regression script.
Rosalia.
El 20/03/2013 11:58, "Lysiann Kalmbach" <
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Dear Rosalia, thank for your fast answer. What do you mean with you changed to PC- I think everything should be fine there :/
Hi,
I had the same error. Be sure that the .filelist has the correct PATH. I changed of pc and I forgot this and I had problems.
Hope this helps.
Rosalia.
El 20/03/2013 11:10, "carole menuel" <
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Hi Jeanette
i send you my design matrix because I don't understand my problem perhaps you can find it
thanks for your help
Carole
design.con
/ContrastName1 group A > group B
/ContrastName2 group B > group A
/ContrastName3 group A mean
/ContrastName4 group B mean
/NumWaves 2
/NumContrasts 4
/PPheights 1.000000e+00 1.000000e+00 1.000000e+00 1.000000e+00
/RequiredEffect 1.287 1.287 1.015 0.791
/Matrix
1.000000e+00 -1.000000e+00
-1.000000e+00
1.000000e+00
1.000000e+00 0.000000e+00
0.000000e+00 1.000000e+00
design.grp
/NumWaves 1
/NumPoints 45
/Matrix
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
2
2
2
2
2
2
2
2
2
2
2
2
2
2
2
2
2
2
2
2
2
2
2
2
2
2
2
2
Sorry, I missed your second error:
numbers of rows in design matrix doesn't match number of "time point" in input data!
You need to be sure the design matrix you are inputting has exactly the same number of rows as the number of data sets you are inputting into the dual regression script. Sounds like you have 45 subjects, so be sure your design matrix has 45 rows and you are inputting exactly 45 data sets.
Cheers,
Jeanette
On Tue, Mar 19, 2013 at 9:46 AM, SUBSCRIBE FSL caro
<[log in to unmask]">[log in to unmask]> wrote:
Hi jeanette
Thanks for your response but my software works correctly so i think is not a problem of path because i already check it. Have you an other idea ?
For the design matrix problem have you a suggestion!
Thanks
Caro