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# Version 1.2.1
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- Added a requirements.txt file to ensure compatibility
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- Added new options 'Missing Events Bypass' and 'Analysis Clearing Bypass' to the Preferences Menu
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- Missing Events Bypass allows comparing events in the Group Viewers even if not all participants in the group have the event present. Fixes [Issue 28](https://git.research.dezeeuw.ca/tyler/flares/issues/28)
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- Clicking Process after an analysis has been performed will now clear the existing analysis by default with a popup warning that the analysis will be cleared
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- Analysis Clearing Bypass will prevent the popup and will not clear the existing analysis data. Fixes [Issue 41](https://git.research.dezeeuw.ca/tyler/flares/issues/41)
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- Clicking 'Clear' should now actually properly clear all data. Hopefully fixes [Issue 9](https://git.research.dezeeuw.ca/tyler/flares/issues/9) for good
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- Setting SHORT_CHANNEL to False will now grey out SHORT_CHANNEL_REGRESSION, as it is impossible to regress what does not exist. Sets SHORT_CHANNEL_REGRESSION to False under the hood when it is greyed out regardless of what is displayed. Fixes [Issue 47](https://git.research.dezeeuw.ca/tyler/flares/issues/47)
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- Projects can now be saves if files have different parent folders. Fixes [Issue 48](https://git.research.dezeeuw.ca/tyler/flares/issues/48)
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- It is no longer possible to attempt a save before any data has been processed. A popup will now display if a save is attempted with nothing to save
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- Fixed a bug where LONG_CHANNEL_THRESH was not being applied in the processing steps
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- Added a new option in the Analysis window for Group Functional Connectivity. Implements [Issue 50](https://git.research.dezeeuw.ca/tyler/flares/issues/50)
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- Group Functional connectivity is still in development and the results should currently be taken with a grain of salt
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- A warning is displayed when entering the Group Functional Connectivity Viewer disclosing this
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- Fixed a bug when updating optode positions that would prevent .txt files from being selected. Fixes [Issue 54](https://git.research.dezeeuw.ca/tyler/flares/issues/54)
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- Fixed a bug where the secondary download server would never get contacted if the primary failed
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- Automatic downloads will now ignore prerelease versions. Fixes [Issue 52](https://git.research.dezeeuw.ca/tyler/flares/issues/52)
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# Version 1.2.0
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- This is a save-breaking release due to a new save file format. Please update your project files to ensure compatibility. Fixes [Issue 30](https://git.research.dezeeuw.ca/tyler/flares/issues/30)
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- Added new parameters to the right side of the screen
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- These parameters include SHOW_OPTODE_NAMES, SECONDS_TO_STRIP_HR, MAX_LOW_HR, MAX_HIGH_HR, SMOOTHING_WINDOW_HR, HEART_RATE_WINDOW, BAD_CHANNELS_HANDLING, MAX_DIST, MIN_NEIGHBORS, L_TRANS_BANDWIDTH, H_TRANS_BANDWIDTH, RESAMPLE, RESAMPLE_FREQ, STIM_DUR, HRF_MODEL, HIGH_PASS, DRIFT_ORDER, FIR_DELAYS, MIN_ONSET, OVERSAMPLING, SHORT_CHANNEL_REGRESSION, NOISE_MODEL, BINS, and VERBOSITY.
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- Certain parameters now have dependencies on other parameters and will now grey out if they are not used
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- All the new parameters have default values matching the underlying values in version 1.1.7
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- The order of the parameters have changed to match the order that the code runs when the Process button is clicked
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- Moved TIME_WINDOW_START and TIME_WINDOW_END to the 'Other' category
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- Fixed a bug causing SCI to not work when HEART_RATE was set to False
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- Bad channels can now be dealt with by taking no action, removing them completely, or interpolating them based on their neighbours. Interpolation remains the default option
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- Fixed an underlying deprecation warning
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- Fixed an issue causing some overlay elements to not render on the brain for certain devices
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- Fixed a crash when rendering some Inter-Group images with only one participant in a group
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- Fixed a crash when attempting to fOLD channels without the fOLD dataset installed
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- Lowered the number of rectangles in the progress bar to 24 after combining some actions
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- Fixed the User Guide window to properly display information about the 24 stages and added a link to the Git wiki page
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- MAX_WORKERS should now properly repect the value set
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- Added a new CSV export option to be used by other applications
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- Added support for updating optode positions directly from an .xlsx file from a Polhemius system
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- Fixed an issue where the dropdowns in the Viewer windows would immediately open and close when using a trackpad
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- glover and spm hrf models now function as intended without crashing. Currently, group analysis is still only supported by fir. Fixes [Issue 8](https://git.research.dezeeuw.ca/tyler/flares/issues/8)
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- Clicking 'Clear' should now properly clear all data. Fixes [Issue 9](https://git.research.dezeeuw.ca/tyler/flares/issues/9)
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- Revamped the fold channels viewer to not hang the application and to better process multiple participants at once. Fixes [Issue 34](https://git.research.dezeeuw.ca/tyler/flares/issues/34), [Issue 31](https://git.research.dezeeuw.ca/tyler/flares/issues/31)
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- Added a Preferences menu to the navigation bar
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- Two preferences have been added allowing to bypass the warning of 2D data detected and save files being from previous, potentially breaking versions
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- Fixed a typo when saving a CSV that stated a SNIRF was being saved
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- Loading a save file now properly restores AGE, GENDER, and GROUP. Fixes [Issue 40](https://git.research.dezeeuw.ca/tyler/flares/issues/40)
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- Saving a project now no longer makes the main window go not responding. Fixes [Issue 43](https://git.research.dezeeuw.ca/tyler/flares/issues/43)
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- Memory usage should no longer grow when generating lots of images multiple times. Fixes [Issue 36](https://git.research.dezeeuw.ca/tyler/flares/issues/36)
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- Added a new option in the Analysis window for Functional Connectivity
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- Functional connectivity is still in development and the results should currently be taken with a grain of salt
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- A warning is displayed when entering the Functional Connectivity Viewer disclosing this
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# Version 1.1.7
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- Fixed a bug where having both a L_FREQ and H_FREQ would cause only the L_FREQ to be used
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- Changed the default H_FREQ from 0.7 to 0.3
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- Added a PSD graph, along with 2 heart rate images to the individual participant viewer
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- The PSD graph is used to help calculate the heart rate, whereas the other 2 are currently just for show
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- SCI is now done using a .6hz window around the calculated heart rate compared to a window around an average heart rate
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- Fixed an issue with some epochs figures not showing under the participant analysis
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- Removed SECONDS_TO_STRIP from the preprocessing options
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- Added new parameters to the right side of the screen
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- These parameters include TRIM, SECONDS_TO_KEEP, OPTODE_PLACEMENT, HEART_RATE, WAVELET, IQR, WAVELET_TYPE, WAVELET_LEVEL, ENHANCE_NEGATIVE_CORRELATION, SHORT_CHANNEL_THRESH, LONG_CHANNEL_THRESH, and DRIFT_MODEL
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- Changed number of rectangles in the progress bar to 25 to account for the new options
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# Version 1.1.6
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- Fixed Process button from appearing when no files are selected
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- Fix for instand child process crash on Windows
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- Fixed a bug that would cause an instant child process crash on Windows
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- Added L_FREQ and H_FREQ parameters for more user control over low and high pass filtering
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@@ -72,7 +141,7 @@
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- Added a group option when clicking on a participant's file
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- If no group is specified, the participant will be added to the "Default" group
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- Added option to update the optode positions in a snirf file from the Options menu (F6)
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- Fixed [Issue 3](https://git.research.dezeeuw.ca/tyler/flares/issues/3), [Issue 4](https://git.research.dezeeuw.ca/tyler/flares/issues/4), [Issue 17](https://git.research.dezeeuw.ca/tyler/flares/issues/17), [Issue 21](https://git.research.dezeeuw.ca/tyler/flares/issues/21), [Issue 22](https://git.research.dezeeuw.ca/tyler/flares/issues/22)
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- Fixed [Issue 3](https://git.research.dezeeuw.ca/tyler/flares/issues/3), [Issue 5](https://git.research.dezeeuw.ca/tyler/flares/issues/5), [Issue 17](https://git.research.dezeeuw.ca/tyler/flares/issues/17), [Issue 21](https://git.research.dezeeuw.ca/tyler/flares/issues/21), [Issue 22](https://git.research.dezeeuw.ca/tyler/flares/issues/22)
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# Version 1.0.1
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