From sophie.forster at gmail.com Fri Mar 2 04:35:11 2018 From: sophie.forster at gmail.com (Sophie Forster) Date: Fri, 2 Mar 2018 12:35:11 +0000 Subject: [Gppi-commits] [SPM] Error in gPPI In-Reply-To: References: Message-ID: Apologies - I just realised I forgot to copy reply to list, so am resending an edited version copying the gPPI list: Great thank you for this advice - it worked! I have also subscribed to the > list. It now ran through to the end, but at the very end it says the > following: > > *Moving Contrast Images* > *error moving contrast PPI_PPI_contrast1* > *error moving contrast PPI_PPI_contrast1* > *Moving Contrast Images* > *error moving contrast PPI_PPI_contrast2* > *error moving contrast PPI_PPI_contrast2* > > The error lines are not in red though, they are part of the output. I > noticed that minor features of the output are different from the readme > file, for example after the spm_fmri_spm_ui section the next one is spm_spm > rather than spm_spm_WB, and the output in that section starts with Chunk > 3/3 rather than initialising parameters. I am guessing these differences > might be because I'm using SPM12 but thought I would mention it just in > case. > > I then tried looking at the output SPM.mat in the sampledata/stats/PPI_rmedPrec > folder and it opens fine, although the comparison file in PPI_rmedPrec_results > folder doesn't: when I get to the point of clicking apply masking none in > the GUI it throws the following error: > > *SPM12: spm_results_ui (v6647) 16:33:16 - 01/03/2018* > *========================================================================* > * SPM computation : ...initialising*Error > using spm_data_read (line 81) > Unknown data type. > > Error in spm_getSPM (line 618) > Z = min(Z,spm_data_read(xCon(i).Vspm,'xyz',XYZ)); > > Error in spm_results_ui > > Error while evaluating UIControl Callback. > > > Perhaps this is simply because I am using SPM12 and the prior SPM.mat made > in SPM8, in which case maybe the installation was ok? In terms of the > actual files in the sampledata/statsfolder versus the PPI_rmedPrec_results > folder, they are similar, except that the sampledata version has two fewer > contrasts. Thank you so much for your help with this - I really appreciate > it. > > Sophie > > > On 1 March 2018 at 03:31, MCLAREN, Donald > wrote: > >> Hi Sophie, >> >> If you go to http://www.nitrc.org/projects/gppi, there is a mailing list >> specific to the gppi toolbox. >> >> The error seems to be cause by conflicting copies of the "contains" >> command. >> >> Try renaming contains.m in the gPPI directory to old_contains.m >> >> If this works, problem solved, if not, I'll have to track down where >> contains.m is used and rename the function for you. >> >> >> Best Regards, >> Donald McLaren, PhD >> >> >> On Wed, Feb 28, 2018 at 10:35 AM, Sophie Forster < >> sophie.forster at gmail.com> wrote: >> >>> Hi, >>> >>> I installed gPPI on a mac and have been trying to follow the 'testing >>> the toolbox installation' instructions from the PPPI manual, using SPM 12. >>> I hit an error message(I've copied the output just before to show the point >>> at which it comes): >>> >>> VOI has 549 voxels in 3x3x3 space. This is in the the same space as the >>> input data and functional mask. >>> >>> Operands to the || and && operators must be convertible to logical scalar >>> values. >>> >>> Error in dlmwrite (line 133) >>> useVectorized = realdata && precnIsNumeric && ~contains('%\',dlm) ... >>> >>> Error in PPPI (line 861) >>> dlmwrite([P.subject '_' region1 '_session' num2str(z) '_' >>> P.method >>> '_PPI_regressors.txt'],[OUT.PPI.C OUT.P.C OUT.Y.C OUT.C.C],' '); >>> >>> Error in runOnSampleData (line 49) >>> PPPI(P, ['/Users/Sophie/Downloads/running_gPPI_generic' filesep >>> 'sampleData' >>> filesep 'stats' filesep 'gPPI_sampleDataTest.mat']); >>> >>> Operands to the || and && operators must be convertible to logical scalar >>> values. >>> >>> Error in rmiml.hasReqDataFile >>> >>> Error in rmiml.visibleInToolstrip >>> >>> Operands to the || and && operators must be convertible to logical scalar >>> values. >>> >>> Error in rmiml.hasReqDataFile >>> >>> Error in rmiml.visibleInToolstrip >>> >>> I can't see anything in the archives about this error so wondered if >>> someone might have an idea what I have done wrong? Apologies if it (as is >>> likely) is something silly - I have run gPPI successfully before but it's >>> been a few years now and clearly I'm rusty. Thanks! >>> >>> Sophie >>> >>> -------------- next part -------------- An HTML attachment was scrubbed... URL: