Thanks again.

I am getting an error with the installation, please advice. See below:

> install_version("kernlab", version = "0.9-24", repos = "http://cran.us.r-project.org")

Downloading package from url: http://cran.us.r-project.org/src/contrib/Archive/kernlab/kernlab_0.9-24.tar.gz

Installing kernlab

Installation failed: run(bin, args = real_cmdargs, stdout_line_callback = real_callback(stdout),      stderr_line_callback = real_callback(stderr), stdout_callback = real_block_callback,      stderr_callback = real_block_callback, echo_cmd = echo, echo = show,      spinner = spinner, error_on_status = fail_on_status, timeout = timeout) : System command error

nstallation failed: run(bin, args = real_cmdargs, stdout_line_callback = real_callback(stdout),      stderr_line_callback = real_callback(stderr), stdout_callback = real_block_callback,      stderr_callback = real_block_callback, echo_cmd = echo, echo = show,      spinner = spinner, error_on_status = fail_on_status, timeout = timeout) : System command error

On Nov 7, 2017, at 10:12 AM, Niels Bergsland <[log in to unmask]> wrote:

Sorry, I had a typo there, you need to specify the version the same way that it's listed in the archive link.

So it would be something like:

install_version("kernlab", version = "0.9-24", repos = "http://cran.us.r-project.org")

which will result in it pulling the following:

http://cran.us.r-project.org/src/contrib/Archive/kernlab/kernlab_0.9-24.tar.gz


On Tue, Nov 7, 2017 at 4:03 PM, Marta Moreno <[log in to unmask]> wrote:
>
> Thanks.
>
> I have installed dev_tools, and then type what was suggested for specific version but I am getting the following error
>
> > require(devtools)
> Loading required package: devtools
> > install_version("kernlab", version = "0.9.24", repos = "http://cran.us.r-project.org")
> Error in install_version("kernlab", version = "0.9.24", repos = "http://cran.us.r-project.org") :
>   version '0.9.24' is invalid for package ‘kernlab’
>
>
> On Nov 7, 2017, at 8:02 AM, Niels Bergsland <[log in to unmask]> wrote:
>
> You can't install specific versions that way. You can either install the package dev_tools so that you can do something like:
>
> install_version("kernlab", version = "0.9.24", repos = "http://cran.us.r-project.org")
>
> Otherwise you can something like:
>
> packageurl <- "https://cran.r-project.org/src/contrib/Archive/kernlab/kernlab_0.9-24.tar.gz"
> install.packages(packageurl, repos=NULL, type="source")
>
>
>
> On Tue, Nov 7, 2017 at 1:46 PM, Marta Moreno <[log in to unmask]> wrote:
> >
> > Thanks.
> >
> > I am using R version 3.3.2 now but still I am getting same message of package not available, see below:
> > "install.packages("kernlab0.9.24", dependencies=TRUE)
> > package ‘kernlab_0.9.24’ is not available (for R version 3.3.2)"
> >
> > On Nov 7, 2017, at 7:37 AM, Niels Bergsland <[log in to unmask]> wrote:
> >
> > The list of packages is correct but it doesn't specify a specific version(s) of R itself to be used. Might be helpful for others to add when you get a chance.
> >
> > On Tue, Nov 7, 2017 at 1:28 PM, Stephen Smith <[log in to unmask]> wrote:
> >>
> >> hi - AFAIK the list at
> >> https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/FIX/UserGuide
> >> is up to date - but it's really hard to keep the R versions/package version numbering up to date because the R community keeps breaking compatibility with different versions......!
> >>
> >> Cheers.
> >>
> >>
> >>
> >> On 7 Nov 2017, at 12:20, Marta Moreno <[log in to unmask]> wrote:
> >>
> >> Thanks.
> >> What is the R version required to have these packageVersions installed? I am downgrading R and still package ‘kernlab_0.9.24’ is not available for the R version.
> >>
> >>
> >> On Nov 7, 2017, at 12:32 AM, Niels Bergsland <[log in to unmask]> wrote:
> >>
> >> Hi,
> >> If you install these specific versions, it should work as expected:
> >>
> >> > packageVersion('kernlab')
> >> [1] ‘0.9.24’
> >> > packageVersion('ROCR')
> >> [1] ‘1.0.7’
> >> > packageVersion('class')
> >> [1] ‘7.3.14’
> >> > packageVersion('party')
> >> [1] ‘1.0.25’
> >> > packageVersion('e1071')
> >> [1] ‘1.6.7’
> >> > packageVersion('randomForest')
> >> [1] ‘4.6.12’
> >>
> >>
> >> On Tue, Nov 7, 2017 at 04:54 Marta Moreno <[log in to unmask]> wrote:
> >>>
> >>> Dear experts,
> >>>
> >>> I am running hcp_fix and getting the following error:
> >>> "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”
> >>>
> >>> In the log file: .fix_2b_predict.log, I found the following error message:
> >>> "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”
> >>>
> >>> I am running R 4.3.2 and packageVersion("party”) is 1.2.3. Fix version is 1.065. Please advice.
> >>>
> >>> Thank you,
> >>>
> >>> -L
> >>>
> >> --
> >> Niels Bergsland
> >> Integration Director / Research Assistant Professor of Neurology
> >> Buffalo Neuroimaging Analysis Center / University at Buffalo
> >> 100 High St. Buffalo NY 14203
> >> [log in to unmask]
> >>
> >>
> >>
> >>
> >> ---------------------------------------------------------------------------
> >> Stephen M. Smith, Professor of Biomedical Engineering
> >> Head of Analysis,  Oxford University FMRIB Centre
> >>
> >> FMRIB, JR Hospital, Headington, Oxford  OX3 9DU, UK
> >> +44 (0) 1865 222726  (fax 222717)
> >> [log in to unmask]    http://www.fmrib.ox.ac.uk/~steve
> >> ---------------------------------------------------------------------------
> >>
> >> Stop the cultural destruction of Tibet
> >>
> >>
> >>
> >>
> >>
> >
> >
> >
> > --
> > Niels Bergsland
> > Integration Director / Research Assistant Professor of Neurology
> > Buffalo Neuroimaging Analysis Center / University at Buffalo
> > 100 High St. Buffalo NY 14203
> > [log in to unmask]
> >
> >
>
>
>
> --
> Niels Bergsland
> Integration Director / Research Assistant Professor of Neurology
> Buffalo Neuroimaging Analysis Center / University at Buffalo
> 100 High St. Buffalo NY 14203
> [log in to unmask]
>
>



--
Niels Bergsland
Integration Director / Research Assistant Professor of Neurology
Buffalo Neuroimaging Analysis Center / University at Buffalo
100 High St. Buffalo NY 14203
[log in to unmask]