Hi,
Well, just run it from the command line with default options then:
melodic -i filtered_func_data -v --report --Oall -m mask
hth
Christian
On 5 May 2011, at 19:01, Sudhin A. Shah wrote:
>
> Hi,
>
> Sorry that this is still an issue but I have gone through line by line and cannot find anything like this.
>
> below is what I have under Melodic Version..
> Melodic Version 3.10
>
> Melodic results will be in filtered_func_data.ica
>
> Create mask ... done
> Reading data file filtered_func_data ... done
> Estimating data smoothness ... done
> Removing mean image ... done
> Normalising by voxel-wise variance ... done
> Excluding voxels with constant value ... done
>
> Data size : 172 x 22684
>
> Starting PCA ... done
> Start whitening using 69 dimensions ...
> retaining 85.6914 percent of the variability
> ... done
>
> Starting ICA estimation using symm
>
> Thanks,
> S
>
> On 05/04/11, "Christian F. Beckmann" <
[log in to unmask]> wrote:
>> Hi
>>
>> Well, it will contain the entire path - ie. the line after the 'Melodic Version 3.10' should look like
>>
>> /bladiblah/wherever/you/installed/fsl/bin/melodic <many options>
>>
>> hth
>> Christian
>>
>> On 4 May 2011, at 17:33, Sudhin A. Shah wrote:
>>
>> > Hi,
>> >
>> > I have looked through the log and there is no line that starts with 'melodic'.
>> >
>> > The log starts with
>> > /bin/cp /tmp/feat_d1Psxp.fsf design.fsf
>> >
>> > In the log there is a section:
>> >
>> > Melodic Version 3.10
>> >
>> > Melodic results will be in filtered_func_data.ica
>> >
>> > But no line..
>> >
>> > Thank you,
>> > S
>> >
>> >
>> > On 05/04/11, "Christian F. Beckmann" <
[log in to unmask]> wrote:
>> >>
>> >> Hi
>> >>
>> >> If you go through the log then you should find a line starting with 'melodic' - that's line us the entire command line call. Just use that with the --Oall option.
>> >> Hth
>> >> Christian
>> >>
>> >>
>> >>
>> >> On 03.05.2011, at 23:40, "Sudhin A. Shah" <
[log in to unmask]> wrote:
>> >>
>> >>
>> >>>
>> >>> Hi,
>> >>>
>> >>> Sorry if this is an obvious answer but I have only run Melodic from the GUI. Can you please point me to the command line option?
>> >>>
>> >>> Do I need to first create a design.fsf? And if so, how would I do that?
>> >>>
>> >>> Thank you,
>> >>>
>> >>> S
>> >>> On 05/02/11, "Christian F. Beckmann" <
[log in to unmask]> wrote:
>> >>>> Hi,
>> >>>>
>> >>>> Use the --Oall command line option and then look at melodic_pcaD
>> >>>> hth
>> >>>> Christian
>> >>>>
>> >>>> On 29 Apr 2011, at 19:07, Sudhin A. Shah wrote:
>> >>>>
>> >>>> > Hi,
>> >>>> >
>> >>>> > I am using Melodic for ICA. I am interested in the PCA eigenvalues. In the output folder, I can only find eigenvalues_percent (% of explained variance).
>> >>>> >
>> >>>> > Is there anyway to obtain the eigenvalues?
>> >>>> >
>> >>>> > Thanks,
>> >>>> > S
>> >>>> >
>> >>>> >
>> >>>
>> >>> -
>> >>
>> >
>> >
>
> --
> Sudhin A. Shah
> Postdoctoral Fellow
> Laboratory of Cognitive Neuromodulation
> Weill Cornell Medical College, NY,NY
> (212) 746-4514