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add notebook on how to use 2 logfiles
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‎notebooks/using_2_logfiles.ipynb‎

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{
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"cells": [
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{
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"cell_type": "markdown",
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"metadata": {},
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"source": [
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"# saving two `_events.tsv` for the same run"
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]
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},
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{
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"cell_type": "code",
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"execution_count": 32,
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"metadata": {},
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"outputs": [],
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"source": [
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"% add the relevant functions from the src folder\n",
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"addpath(genpath(fullfile(pwd, '..', 'src')));\n",
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"\n",
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"cfg.dir.output = fullfile(pwd, 'output');\n",
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"\n",
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"cfg.task.name = 'test task';\n",
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"\n",
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"cfg.subject.subjectNb = 1;\n",
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"cfg.subject.runNb = 1;\n",
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"\n",
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"cfg.testingDevice = 'mri';\n",
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"\n",
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"cfg.verbose = true;"
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]
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},
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{
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"cell_type": "markdown",
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"metadata": {},
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"source": [
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"## create a first logfile"
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]
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},
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{
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"cell_type": "code",
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"execution_count": 33,
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"metadata": {
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"scrolled": true
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},
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"outputs": [
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{
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"name": "stdout",
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"output_type": "stream",
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"text": [
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"\r\n",
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"Data will be saved in this directory:\r\n",
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"\t/home/remi/github/CPP_BIDS/notebooks/output/source/sub-001/ses-001/func\r\n",
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"\r\n",
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"Data will be saved in this file:\r\n",
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"\tsub-001_ses-001_task-testTask_run-001_events_date-202010191333.tsv\r\n"
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]
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}
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],
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"source": [
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"[cfg] = createFilename(cfg);\n",
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"logFile.extraColumns = {'target_position', 'target_type'};"
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]
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},
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{
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"cell_type": "code",
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"execution_count": 34,
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"metadata": {},
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"outputs": [
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{
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"name": "stdout",
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"output_type": "stream",
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"text": [
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"onset\tduration\ttrial_type\ttarget_position\ttarget_type\r\n"
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]
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}
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],
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"source": [
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"logFile = saveEventsFile('open', cfg, logFile);"
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]
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},
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{
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"cell_type": "markdown",
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"metadata": {},
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"source": [
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"## create a second logfile"
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]
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},
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{
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"cell_type": "code",
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"execution_count": 35,
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"metadata": {},
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"outputs": [
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{
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"name": "stdout",
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"output_type": "stream",
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"text": [
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"\r\n",
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"Data will be saved in this directory:\r\n",
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"\t/home/remi/github/CPP_BIDS/notebooks/output/source/sub-001/ses-001/func\r\n",
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"\r\n",
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"Data will be saved in this file:\r\n",
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"\tsub-001_ses-001_task-testTask_acq-extraInfo_run-001_events_date-202010191333.tsv\r\n"
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]
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}
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],
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"source": [
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"% we use a copy of the configuration and we modify the 'acq' field in the BIDS naming convention\n",
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"cfg_2 = cfg;\n",
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"cfg_2.suffix.acquisition = 'extraInfo';\n",
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"\n",
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"[cfg_2] = createFilename(cfg_2);\n",
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"logFile_2.extraColumns = {'target_color'};"
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]
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},
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{
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"cell_type": "code",
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"execution_count": 36,
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"metadata": {},
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"outputs": [
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{
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"name": "stdout",
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"output_type": "stream",
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"text": [
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"onset\tduration\ttrial_type\ttarget_color\r\n"
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]
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}
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],
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"source": [
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"logFile_2 = saveEventsFile('open', cfg_2, logFile_2);\n",
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"clear cfg2 % we don't need it anymore as this was only need to create the new filename"
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]
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},
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{
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"cell_type": "markdown",
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"metadata": {},
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"source": [
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"## log file into the 2 different files"
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]
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},
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{
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"cell_type": "code",
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"execution_count": 37,
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"metadata": {},
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"outputs": [
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{
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"name": "stdout",
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"output_type": "stream",
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"text": [
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"2.000000\t0.500000\tmotion_up\t2.000000\tvisual\t\n",
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"3.000000\t1.000000\tmotion_down\t1.000000\tvisual\t\n",
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"\n",
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"\n",
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"2.000000\t0.500000\tmotion_up\tred\t\n",
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"3.000000\t1.000000\tmotion_down\tblue\t\n"
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]
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}
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],
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"source": [
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"% Trial one\n",
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"logFile(1,1).onset = 2;\n",
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"logFile(1,1).trial_type = 'motion_up';\n",
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"logFile(1,1).duration = 0.5;\n",
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"logFile(1,1).target_position = 2;\n",
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"logFile(1,1).target_type = 'visual';\n",
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"\n",
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"% we do have to repeat some information here for onset, duration, trial type\n",
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"logFile_2(1,1).onset = 2;\n",
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"logFile_2(1,1).trial_type = 'motion_up';\n",
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"logFile_2(1,1).duration = 0.5;\n",
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"logFile_2(1,1).target_color = 'red';\n",
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"\n",
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"% Trial two\n",
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"logFile(2,1).onset = 3;\n",
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"logFile(2,1).trial_type = 'motion_down';\n",
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"logFile(2,1).duration = 1;\n",
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"logFile(2,1).target_position = 1;\n",
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"logFile(2,1).target_type = 'visual';\n",
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"\n",
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"logFile_2(2,1).onset = 3;\n",
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"logFile_2(2,1).trial_type = 'motion_down';\n",
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"logFile_2(2,1).duration = 1;\n",
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"logFile_2(2,1).target_color = 'blue';\n",
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"\n",
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"% save to the tsv file\n",
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"logFile = saveEventsFile('save', cfg, logFile);\n",
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"\n",
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"% skip lines for display\n",
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"fprintf(1, '\\n\\n')\n",
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"\n",
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"logFile_2 = saveEventsFile('save', cfg, logFile_2);"
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]
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}
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],
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"metadata": {
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"kernelspec": {
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"display_name": "Octave",
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"language": "octave",
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"name": "octave"
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},
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"language_info": {
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"file_extension": ".m",
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"help_links": [
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{
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"text": "GNU Octave",
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"url": "https://www.gnu.org/software/octave/support.html"
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},
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{
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"text": "Octave Kernel",
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"url": "https://github.com/Calysto/octave_kernel"
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},
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{
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"text": "MetaKernel Magics",
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"url": "https://metakernel.readthedocs.io/en/latest/source/README.html"
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}
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],
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"mimetype": "text/x-octave",
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"name": "octave",
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"version": "4.2.2"
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}
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},
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"nbformat": 4,
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"nbformat_minor": 4
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}

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