Activity for tobias moser
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tobias moser committed [r602]
change empty epoch creation for eyelink import; scale according to sampling rate
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adapt parameters for hprf and psrf in manual and code from published papers
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ensure marker_chan has same dimension as data_fn
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remove join from import eyelink to support older matlab versions
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fix parameters for response function according to manual and paper
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reformat code for glm
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Hi Giulia to me it seems that the events have timings which relate to the original data file and sould be corrected to agree with the trimming. According to tscr_S01_EXP_GSR.mat the trimpoints (in 'infos.trimpoints') are [401.9960 1.5330+e03]. Therefore you could correct your timings for the dcm like this: timingfile = load('S01_all_onsets.mat') datafile = load('tscr_S01_EXP_GSR.mat') timingfile.events{1} = timingfile.events{1} - datafile.infos.trimpoints(1) timingfile.events{2} = timingfile.events{2}...
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change to older lyx version
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update default values
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support multiple sessions with labchart direct import
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add new manual
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update version and make eyelink import faster
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Hi Jacob unfortunately I'm unable to reproduce that error. I think there is something different/unexpected with your datafile. Could you please provide me an example file with which I should be able to reproduce that error? (You could also send it as private message to me) Best Tobias
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fix bugs and change version and manual
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add new release 4.0.2 branch
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adjust convertions au2unit, adjust review, change toolbox detection
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fix area2diameter bug again
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Hi Ambra Yes, thank you (: Best Tobias
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fix area2diameter conversion bug
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Hi Ambra Thank you for the Information. I completely agree with you and changed this accordingly in the repository. If you haven't changed your code yet, you could download the function from the repository or from here: https://sourceforge.net/p/pspm/svn/HEAD/tree/trunk/pspm_convert_area2diameter.m (doesn't work at the time, but this should be the URL) Best Tobias
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Hi Hannah Sorry for the late response. According to the data you sent me, I think the parameter for the contrast vector is wrong. If you want to report all the contrasts, just leave it empty, or use indexes if you want to report specific contrasts (i.e. [2 4] for the 2nd and 4th contrast). Does this work? Otherwise could you also tell me what parameters you use to report the second level model? Best Tobias
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version changes
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implement hoeks pupil erlang response function
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update version in quit
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update version
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remove wrong manual
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minor fixes to minor release 4.0.1
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minor changes and prepare minor release
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bugfix
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new large spike compensation
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Hi Hannah Thank you for the example file. Unfortunately I am still not able to reproduce the problem you described above. Could you also send me the file you get after creating the second level contrasts (sorry, I was a bit in a rush last week and forgot to mention this)? Could you also provide me the contrasts you specify to report the second level model? Regarding filter settings, these can be set in the GLM using 'Filter settings' > 'Edit settings' (in the GUI). For artefact removal we have automatic...
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Hi Hannah To me this looks like there might be something wrong with the specification of the contrasts. But this is just a guess. Could you send me an example model file (the file you pass as an argument to the second level review method to create the second level model)? Then I can check whether there is something wrong with the model-file. Best Tobias
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fix for unit conversion
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Hi Maddison I assume you are trying to create a matlab file in order to import the data. If you have the data as a table you could use table2array() to convert the data into the format expected by PsPM. Use something similar to the following lines to create a file in the format expected by PsPM: >> % this is to check whether your data really is a table >> class(data_table) ans = 'table' >> data = table2array(data_table); % convert the table to a matrix >> save('some_file.mat', 'data'); % save the...
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Hi Maddison then you may have left some required field unspecified. Ensure every field with <-X is specified. If everything is specified then you should see something happening in the matlab console, once you hit run. best Tobias
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Hi Maddison the sampling rate is the number of samples (measurements) you have per second. Trim is used to remove unused data at the beginning and at the end of the recorded data. Usually data starts with the first and ends with the last trigger/marker. If this is the case, you could trim at the start and end marker with some offset. For offsets: values below 0 are used to trim before the marker (for start markers) and values above 0 are used to trim after the marker (for end markers). Have you already...
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update dcumentation for unit change and further changes to functions
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change to not predefine units
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Hi Maddison I'm not sure what you mean by headers? Do you use a specific software to export the data as matlab file? I assume the matlab file does not need any headers. I suggest to import data and triggers together. As stated in the manual (available here: https://sourceforge.net/p/pspm/svn/HEAD/tree/branches/v4.0/Manual/PsPM%204.0%20Manual.pdf?format=raw) in section 11.1 Import the .mat-file must contain a variable data. This variable is expected to be either a cell array with each cell containing...
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Hi Maddison The green button does not light up because for both channels you left the sampling rate unspecified. If you specify this, the import should work. Using the latest PsPM version you should be able to import marker channels from both file types (matlab and text files). As you were able to specify a marker channel in the text file import I assume you already have the latest PsPM version. best Tobias
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Hi Maddison What you describe seems correct to me. Therefore I'm not sure where the problem is. Could you provide me some additional information? Is there an error appearing in the matlab console? How does your data file look like? Maybe you could provide me an example file? best Tobias
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Hi Lauren the latest version of PsPM now supports importing continuous event data for text files. If you do not have the latest version, you can download it here: https://sourceforge.net/projects/pspm/files/ . Best Tobias
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fix missing value problem for design matrix
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move offset if drop offset markers
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fix multi session bug
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add drop offset markers as option to trim
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additions for find valid fixations and conversion
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rewrite pspm find valid fixation
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accept all changes
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add function to set epochs to NaN
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some reformating
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revert poly changes
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new conversion + remove poly
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code formating + glm
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Hi Maddison In a nutshell: The process of analyzing SCR data can be automated Epoch size is unlimited by PsPM Data should be preprocessed as is explained in the PsPM-Manual The outcome ranges from data to chart form For further details may I refer you to the PsPM-Manual which gives detailed explanations on your questions. It also contains tutorials on how to analyze SCR data. Best Tobias
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do not check for ratio if splitpoints are given
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remove keyboard
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change prfx for splitsessions&fix glm downsampling
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Hi Ondrej Thank you for the report. As you already pointed out, the import function for .acq files in PsPM only supports file versions up to 3.9. For newer file versions we encourage you to convert the .acq files to .mat files using bioread (available here https://github.com/njvack/bioread or over pip) and then import them with the implemented PsPM import function ("bioread-converted Biopac Acqknowledge" / acq_bioread). As the load_acq.m does not support as many file versions as bioread does, we...
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several fixes
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dcm edge bug
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update manual to corresponding version
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correct splitted to split
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no manual in trunk
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create 4.0 branch
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prepare new release
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prepare new release
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adjust eyelink manual
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new default conversion values mat file
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remove keyboard
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Hi Michał libmex.dylib does not seem to be found, which is a bit odd because it should be present, as it is part of Matlab itself. Also referring to fieldtrip, it should be compatible with MacOS without recompiling it. Maybe you could solve the problem by changing the search path for dylib. Unfortunately I'm not very familiar with MacOS but a bit of googling led me to http://www.manpagez.com/man/1/dyld/ . So maybe you could try to modify your environment using setenv() / getenv() to correct the search...
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rewrite version check
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small bugfix + fix test
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update documentation + version
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several minor changes
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add comments
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change from options to model
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add substhresh and missing in dcm to documentation
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enable missing epochs for pspm_dcm
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add citations + edit pspm matlab requirements
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small changes
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describe pupil conversion in import functions header
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set units to mm after pupil conversion
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minor manual change + update release checklist
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changes to manual + small bug in init
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furhter eyelink conversion changes
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rename scr_butter.mat to pspm_butter.mat
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change eyelink conversion functions
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further structural changes
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some structural changes
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adjust pupil transfer in manual
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Manual changes & Pupil transfer
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Manual changes
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coding style changes + endmarker per file
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update manual with version changes for v3.2
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typos
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