Thanks again, Matt.
I went through required packages again as suggested, a common output in R is
the following (for all packages): as root,
"> install.packages("randomForest", dependencies=TRUE)
trying URL
'https://cran.cnr.berkeley.edu/bin/macosx/el-capitan/contrib/3.4/randomForest_4.6-12.tgz'
Content type 'application/x-gzip' length 176377 bytes (172 KB)
==================================================
downloaded 172 KB
The downloaded binary packages are in
/tmp/RtmpP65gVF/downloaded_packages”
Should I go over each package to install it or this message includes
installation?
Thank you,
-L
> On Nov 6, 2017, at 10:31 AM, Glasser, Matthew <[email protected]> wrote:
>
> You could ask on the FSL list, but I think it would make sense to go through
> the setup instructions again and make sure you aren’t missing any of the
> required R packages.
>
> Peace,
>
> Matt.
>
> From: Marta Moreno <[email protected]
> <mailto:[email protected]>>
> Date: Monday, November 6, 2017 at 9:29 AM
> To: Matt Glasser <[email protected] <mailto:[email protected]>>
> Cc: HCP Users <[email protected]
> <mailto:[email protected]>>
> Subject: Re: [HCP-Users] HCP_hp2000.RData
>
> Thank you, Matt. I found the only one and following error in
> Results/RS_fMRI_2/RS_fMRI_2_hp2000.ica:
>
> "Error in ctreefit(object = object, controls = controls, weights = weights,
> :
> no slot of name "remove_weights" for this object of class "TreeGrowControl"
> Calls: eval -> eval -> <Anonymous> -> ctreefit -> .Call
> Execution halted”
>
> Any idea what should I do to fix this problem? I do not have R-devel
> installed, is this required and/or related to this problem?
>
> Thank you,
>
> -L
>
>
>
>
>
>> On Nov 4, 2017, at 4:55 PM, Glasser, Matthew <[email protected]
>> <mailto:[email protected]>> wrote:
>>
>> You will need to look into the logs more carefully (i.e. in subfolders of
>> the FIX folder) and you will likely find some issue with the R packages you
>> have installed.
>>
>> Peace,
>>
>> Matt.
>>
>> From: <[email protected]
>> <mailto:[email protected]>> on behalf of Marta Moreno
>> <[email protected] <mailto:[email protected]>>
>> Date: Saturday, November 4, 2017 at 3:28 PM
>> To: HCP Users <[email protected]
>> <mailto:[email protected]>>
>> Subject: [HCP-Users] HCP_hp2000.RData
>>
>> Dear experts,
>>
>> I am getting the following error running hip_fix, my RSfMRI data is similar
>> to HCP data but I am getting the following error running hcp_fix
>> RS_fMRI_2/RS_fMRI_2.nii.gz 2000:
>>
>> "FIX Classifying components in Melodic directory: RS_fMRI_2_hp2000.ica using
>> training file: /usr/local/fix1.065/training_files/HCP_hp2000.RData and
>> threshold 10
>> No valid labelling file specified"
>>
>> I checked the settings and everything looks good. I do not see errors in
>> <subject.ica>/.fix.log. Any idea what might be the problem?
>>
>> Thank you,
>>
>> -L
>>
>> _______________________________________________
>> HCP-Users mailing list
>> [email protected] <mailto:[email protected]>
>> http://lists.humanconnectome.org/mailman/listinfo/hcp-users
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