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Minor updates
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@glatard
glatard committed Oct 24, 2016
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Showing 1 changed file with 53 additions and 53 deletions.
106 changes: 53 additions & 53 deletions cbrain_task_descriptors/qeeg.json
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Expand Up @@ -2,33 +2,31 @@
"name": "qeeg",
"tool-version": "undefined",
"description": "qeeg application",
"command-line": "qeegt.sh [input_directory]/[basename] [state] [lwin] [fmin] [freqres] [fmax] [wbands] [brain] [pg_apply] [bbsm] [nbsm] [spectra] [bbsmz] [nbsmz] [ssz] [corr] [cohe] [phdiff] [fcorr] [storexyz]",
"command-line": "qeegt.sh --input [input_directory]/[basename] --state [state] --lwin [lwin] --fmin [fmin] --freqres [freqres] --fmax [fmax] --wbands [wbands] [brain] [pg_apply] [bbsm] [nbsm] [spectra] [bbsmz] [nbsmz] [ssz] [corr] [cohe] [phdiff] [fcorr] [storexyz]",
"docker-image": "mcin/qeeg:latest",
"docker-index": "http://index.docker.io",
"schema-version": "0.2",
"inputs": [{
"id": "input_directory",
"name": "Input directory",
"type": "File",
"description": "Directory containing the files to process",
"description": "Directory containing the files to process.",
"command-line-key": "[input_directory]",
"command-line-flag": "--input",
"list": false,
"optional": false
}, {
"id": "basename",
"name": "Basename",
"type": "String",
"description": "Basename of the file to process in the input directory",
"description": "Basename of the file to process in the input directory.",
"command-line-key": "[basename]",
"list": false,
"optional": false
}, {
"id": "state",
"name": "State",
"type": "String",
"command-line-flag": "--state",
"description": "Example: \"A\". EEG state to be analyzed. The program will look for existing analysis windows labelled as state 'A' (Eyes Closed)",
"description": "Example: \"A\". EEG state to be analyzed. The program will look for existing analysis windows labelled as state 'A' (Eyes Closed).",
"default-value": "A",
"command-line-key": "[state]",
"list": false,
Expand All @@ -37,20 +35,18 @@
"id": "lwin",
"name": "Window length",
"type": "Number",
"command-line-flag": "--lwin",
"default-value": 2.56,
"description": "Length of the analysis window in seconds",
"description": "Length of the analysis window in seconds.",
"command-line-key": "[lwin]",
"minimum": 0,
"list": false,
"optional": false
}, {
"id": "fmin",
"name": "fmin",
"command-line-flag": "--fmin",
"default-value": 0.390625,
"type": "Number",
"description": "Low cut frequency for analysis. Example: \"0.390625\"",
"description": "Low cut frequency for analysis. Example: \"0.390625\".",
"command-line-key": "[fmin]",
"minimum": 0,
"list": false,
Expand All @@ -59,147 +55,151 @@
"id": "freqres",
"name": "freqres",
"type": "Number",
"command-line-flag": "--freqres",
"default-value": 0.390625,
"description": "Fequency resolution for analysis. Example: \"0.390625\". The analysis will use a frequency band like this: fmin:freqres:fmax. The program will compare this interval with the interval that is obtained for the real frequency parameters of the signal and will match both of them",
"description": "Fequency resolution for analysis. Example: \"0.390625\". The analysis will use a frequency band like this: fmin:freqres:fmax. The program will compare this interval with the interval that is obtained for the real frequency parameters of the signal and will match both of them.",
"command-line-key": "[freqres]",
"list": false,
"optional": false
}, {
"id": "fmax",
"name": "fmax",
"command-line-flag": "--fmax",
"type": "Number",
"default-value": 19.11,
"description": "High cut frequency for analysis. Example: \"19.11\"",
"description": "High cut frequency for analysis. Example: \"19.11\".",
"command-line-key": "[fmax]",
"list": false,
"optional": false
}, {
"id": "wbands",
"name": "wbands",
"command-line-flag": "--wbands",
"default-value": "1.56 3.51; 3.9 7.41; 7.8 12.48; 12.87 19.11; 1.56 30",
"type": "String",
"description": "Broad Bands definition. A string representing a 5x2 matrix of real numbers, where rows are separated by ';' and columns by spaces. Example: \"1.56 3.51; 3.9 7.41; 7.8 12.48; 12.87 19.11; 1.56 30\"",
"description": "Broad Bands definition. A string representing a 5x2 matrix of real numbers, where rows are separated by ';' and columns by spaces. Example: \"1.56 3.51; 3.9 7.41; 7.8 12.48; 12.87 19.11; 1.56 30\".",
"command-line-key": "[wbands]",
"list": false,
"optional": false
}, {
"id": "brain",
"name": "Brain",
"description": "Restricts the inverse solution to only gray matter. Otherwise, deep structure (basal ganglia) will be included in the grid",
"description": "Restricts the inverse solution to only gray matter. Otherwise, deep structure (basal ganglia) will be included in the grid.",
"default-value": true,
"type": "Flag",
"command-line-key": "[brain]",
"command-line-flag": "--brain"
"command-line-flag": "--brain",
"optional": true
}, {
"id": "pg_apply",
"name": "PG Apply",
"default-value": true,
"type": "Number",
"description": "Substracts the Global Scale Factor (Geometric Power) from the EEG signal",
"type": "Flag",
"description": "Substracts the Global Scale Factor (Geometric Power) from the EEG signal.",
"command-line-key": "[pg_apply]",
"command-line-flag": "--pg_apply"
"command-line-flag": "--pg_apply",
"optional": true

}, {
"id": "bbsm",
"name": "Broad Band Spectral Model",
"type": "Flag",
"default-value": true
"default-value": true,
"description": "Calculates the Broad Band Spectral Model.",
"command-line-key": "[bbsm]",
"command-line-flag": "--bbsm"
"command-line-flag": "--bbsm",
"optional": true
}, {
"id": "nbsm",
"name": "Narrow Band Spectral Model",
"type": "Flag",
"default-value": true
"default-value": true,
"description": "Calculates the Narrow Band Spectral Model.",
"command-line-key": "[nbsm]",
"command-line-flag": "--nbsm"
"command-line-flag": "--nbsm",
"optional": true
}, {
"id": "spectra",
"name": "Spectra",
"type": "Flag",
"default-value": true
"default-value": true,
"description": "Calculates the Spectra at the EEG sources.",
"command-line-key": "[spectra]",
"command-line-flag": "--spectra"
"command-line-flag": "--spectra",
"optional": true
}, {
"id": "bbsmz",
"name": "Broad Band Spectral Model Z values",
"type": "Flag",
"default-value": true
"default-value": true,
"description": "Calculates the Broad Band Spectral Model Z values.",
"command-line-key": "[bbsmz]",
"command-line-flag": "--bbsmz"
"command-line-flag": "--bbsmz",
"optional": true
}, {
"id": "nbsmz",
"name": "Narrow Band Spectral Model Z values",
"type": "Flag",
"default-value": true
"default-value": true,
"description": "Calculates the Narrow Band Spectral Model Z values.",
"command-line-key": "[nbsmz]",
"command-line-flag": "--nbsmz"
"command-line-flag": "--nbsmz",
"optional": true
}, {
"id": "Source Spectra Z",
"name": "SSZ",
"id": "ssz",
"name": "Source Spectra Z",
"type": "Flag",
"default-value": true
"default-value": true,
"description": "Calculates the Sources Spectra Z values.",
"command-line-key": "[ssz]",
"command-line-flag": "--ssz"
"command-line-flag": "--ssz",
"optional": true
}, {
"id": "corr",
"name": "Correlations matrix",
"type": "Flag",
"default-value": true
"default-value": true,
"description": "Calculates the correlations matrix bewteen all pairs of channels for each epoch.",
"command-line-key": "[corr]",
"command-line-flag": "--corr"
"command-line-flag": "--corr",
"optional": true
}, {
"id": "cohe",
"name": "Coherence matrix",
"type": "Flag",
"default-value": true
"default-value": true,
"description": "Calculates the coherence matrix bewteen all pairs of channels for each frequency.",
"command-line-key": "[cohe]",
"command-line-flag": "--cohe"
"command-line-flag": "--cohe",
"optional": true
}, {
"id": "phdiff",
"name": "Phase difference matrix",
"type": "Flag",
"default-value": true
"default-value": true,
"description": "Calculates the phase difference matrix bewteen all pairs of channels for each frequency.",
"command-line-key": "[phdiff]",
"command-line-flag": "--phdiff"
"command-line-key": "[phdiff]",
"command-line-flag": "--phdiff",
"optional": true
}, {
"id": "fcorr",
"name": "Frequency domain correlations",
"type": "Flag",
"default-value": true
"default-value": true,
"description": "Calculates the frequency domain correlations bewteen all pairs of channels for each frequency and each epoch.",
"command-line-key": "[fcorr]",
"command-line-flag": "--fcorr"
"command-line-flag": "--fcorr",
"optional": true

}, {
"id": "storexyz",
"name": "XYZ components",
"type": "Flag",
"default-value": true
"default-value": true,
"description": "Stores the XYZ components of the solutions at the sources.",
"command-line-key": "[storexyz]",
"command-line-flag": "--storezyx"
"command-line-flag": "--storexyz",
"optional": true
}

],
"groups" : [
{
"id" : "flags",
"name" : "Flags",
"members" : [ "bbsm", "nbsm", "spectra", "bbsmz", "nbsmz", "ssz", "corr", "cohe", "phdiff", "fcorr", "storexyz" ]
}
],
"output-files": [
{
"id": "folder_out",
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