© Benjamin Schmid and Taishi Yoshii

Source code

is hosted on github.

Versions and Changes

• Version v1.0 (download)
  
  • Fix an issue with Java 7 that causes an IllegalStateException.
  
  
  
• Version v0.9 (download)
  
  • Make ActogramJ a Maven project, so it can be compiled with Fiji's new compilation workflow.
  • Provide source code on github (https://github.com/bene51/ActogramJ).
  • New icons.
  • Restore pointer mode (pointing, selection, or drawing a freerunning period triangle) when changing the displayed actogram.
  • Clamp the selection in case the mouse is moved outside of the actogram data (instead of not drawing the selection at all).
  • Introduce markers.
  • Calculate the acrophases over a selection (and optionally fit a regression line to them).
  • Calculate the on-/offsets over a selection (and optionally fit regression lines to them).
  
  
  
• Version v0.8 (download)
  
  • Fix a bug when exporting multiple actograms to pdf.
  • Let the user choose an upper and a lower limit for the activity:
    Lower values than the lower limit count as 0. Higher values than the upper limit count as 'upper limit'
    
  • Allow to open files which are separated by other characters than tabs.
  
  
  
• Version v0.7 (download)
  
  • Update ActogramJ so that it now works (and needs) the itext version which is currently included in Fiji, i.e. itextpdf-5.1.1.jar
  
  
  
• Version v0.6 (download)
  
  • Fix an error which occurred sometimes when zooming in.
  • Draw line numbers in the actograms.
  • Draw a title for each actogram.
  • The default number of indicated peaks in periodograms is now 1.
  • Allow for optional downsampling before calculating periodograms.
  • Replace "_convolved" with "_smoothed" in the name of calculated actograms.
  • Fix an error in writing text to Pdfs.
  • The jar archive contains now the source code.
  
  
  
• Version v0.5 (download)
  
  • In the average activity pattern dialog, use a default sigma of 0.
  • In the average activity pattern dialog, take the interval duration into account when calculating the default period.
  • Same for the periodogram dialog.
  • In the periodogram dialog, narrow the lower and upper period limits for faster computation.
  • Periodograms: Use gaussian smoothing instead of downsampling.
  
  
  
• Version v0.4 (download)
  
  • Fix the calculation of p values in the periodograms. For the Fourier method, p values are disabled because they would require the periodogram to be calculated for all possible period lengths, which in general takes too long to calculate.
  • For other types of periodograms, the user can now specify the p value level.
  • Fix axis calibration in the periodogram diagrams.
  • In the "Open" dialog, the input fields "number of rows" and "number of columns" are replaced by "end row" and "end column".
  • Fix some problems with zooming.
  • Implement the calculation of average activity patterns.
  
  
  
• Version v0.3 (download)
  
  • Make preview table in the 'Open' dialog capable of reading lines with a different number of columns.
  • Introduce three modes for pointing, selecting and manual determination of the freerunning period.
  • Implement generic drawing to do screen and pdf rendering with the same code.
  • Allow to change the ratio w:h of an actogram.
  • Introduce environmental bars for light, temperature, etc.
  • Automatic determination of the freerunning period with the Fourier, Chi-Square (Enright) and Lomb-Scargle methods.
  • Simplify the 'Calculate' window.
  • Fix wrong sorting for multiple selected actograms.
  • Adjustable units for the freerunning period string.
  • Introduce zoom out.
  • Allow to open several actogram files with the same parameters simultaneously.
  • Add a menu bar.
  • Implement normalizing of multiple actograms to the same overall activity.
  • Add documentation.
  
  
  
• Version v0.2 (download)
  
  • Calibration bar with adjustable number of subdivisions The number of subdivisions can be adjusted by clicking on the 'Preferences' icon.
  • Allow to remove files from the display by right-clicking.
  • 'Freerunning period' is in black now.
  • In the 'Preferences' dialog, 'number of periods per line' is changed to 'number of plots'.
  • Simple calculations of actograms, invoked by clicking on the 'Calculate' icon.
    • Summing or averaging the displayed/selected actograms.
    • Smoothing individual actograms.
    The results of the calculations are displayed under the tree entry 'Calculated'.
  • The preview table in the open dialog does not crash any more when the file to open contains plain text at the beginning.
  • Fix the constant shift at the beginning of the actograms.
  
  
  
• Version v0.1 (download)
  
  • First public version.