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Detection, Classification, and Localisation of marine mammal and other bioacoustic signals
114 Commits 2 Branches 9 Tags 386 MiB
Java 70.8%
PureBasic 23.2%
HTML 4.1%
CSS 1.9%
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Douglas Gillespie 8a34362261 Squashed commit of the following: 
commit f2860d8154
Author: Douglas Gillespie <50671166+douggillespie@users.noreply.github.com>
Date:   Fri Jun 3 08:48:16 2022 +0100

    Small changes to support Genesis work

commit 91a8e5fec0
Author: Jamie Mac <macster110@gmail.com>
Date:   Fri May 27 06:39:20 2022 -0600

    Added data selectors to Click Train Detector (#34)

    * Updates to click train detector

    New GUI for click train classification - more intuitive and allows users to build more powerful classifiers.
    CPOD data can now build average waveforms.
    CPOD click trains can be viewed in TDisplayFX pop up menu displays
    Fixed Peak Frequency symbol chooser so it saves the colour box settings

    * Create click_train_help.md

    * Update click_train_help.md

    * Screenshots

    * Update click_train_help.md

    * Update click_train_help.md

    * Update click_train_help.md

    * More screenshots

    * Add screenshots

    * Update click_train_help.md

    * Add classifier screenshot

    * Update click_train_help.md

    * Update click_train_help.md

    * Update click_train_help.md

    * Updates and bug fixes to click train detector and CPOD importer

    * Update click_train_help.md

    * Update POM with latest jdl4pam

    * Add screenshots for click train detector help

    * Screenshots

    * Update click_train_help.md

    * Defult option for CPOD and porpoise to click train detector.

    Also a minor

    * Update pom.xml

    * Bug fix for raw spectrogram in TDDisplayFX

    * Update KetosClassifier.java

    * Updates to click train detector

    New GUI for click train classification - more intuitive and allows users to build more powerful classifiers.
    CPOD data can now build average waveforms.
    CPOD click trains can be viewed in TDisplayFX pop up menu displays
    Fixed Peak Frequency symbol chooser so it saves the colour box settings

    * Create click_train_help.md

    * Update click_train_help.md

    * Screenshots

    * Update click_train_help.md

    * More screenshots

    * Update click_train_help.md

    * Update click_train_help.md

    * Add screenshots

    * Add classifier screenshot

    * Update click_train_help.md

    * Updates and bug fixes to click train detector and CPOD importer

    * Update click_train_help.md

    * Update click_train_help.md

    * Update click_train_help.md

    * Update click_train_help.md

    * Add screenshots for click train detector help

    * Screenshots

    * Update click_train_help.md

    * Defult option for CPOD and porpoise to click train detector.

    Also a minor

    * Bug fix for raw spectrogram in TDDisplayFX

    * Update KetosClassifier.java

    * Fix standard classifier JSON logging

    * Update click_train_help.md

    * Fixed bug in sweep classifier when using SoundTrap click detections

    * Added some colour averaging in the TFDisplayFX spectrgoram

    * Bug fix for rainbow click bearings

    Bug fix when rainbow clicks are imported mean bearings cannot be calculated - was an array size issue in DelayGroup

    * Google humpback whale deep learning classifier

    Google's humpback whale deep learning classifier can now be imported.
    Updated TDisplayFX to make the data selection panes cleaner and clearer.
    Updated the TDisplayFX so that predicitons from deep learning models now have some display options e.g. changing colour.

    * Updated the prediction plots on time display

    Deep learning prediciton plots on the time display have now been updated to have some colour options and also act as a legend.

    * Updates to TDisplayFX

    yFIshmael now owrks with TDisplayFX
    TDisplayFX UI changes to make simpler.
    Some abstraction for drawing lines on TDisplayFX

    * Updates to click train detector

    New GUI for click train classification - more intuitive and allows users to build more powerful classifiers.
    CPOD data can now build average waveforms.
    CPOD click trains can be viewed in TDisplayFX pop up menu displays
    Fixed Peak Frequency symbol chooser so it saves the colour box settings

    * Create click_train_help.md

    * Update click_train_help.md

    * Screenshots

    * Update click_train_help.md

    * More screenshots

    * Update click_train_help.md

    * Update click_train_help.md

    * Add screenshots

    * Add classifier screenshot

    * Update click_train_help.md

    * Updates and bug fixes to click train detector and CPOD importer

    * Update click_train_help.md

    * Update click_train_help.md

    * Update click_train_help.md

    * Update click_train_help.md

    * Add screenshots for click train detector help

    * Screenshots

    * Update click_train_help.md

    * Defult option for CPOD and porpoise to click train detector.

    Also a minor

    * Updates to click train detector

    New GUI for click train classification - more intuitive and allows users to build more powerful classifiers.
    CPOD data can now build average waveforms.
    CPOD click trains can be viewed in TDisplayFX pop up menu displays
    Fixed Peak Frequency symbol chooser so it saves the colour box settings

    * Create click_train_help.md

    * Update click_train_help.md

    * Update click_train_help.md

    * Updates and bug fixes to click train detector and CPOD importer

    * Bug fix for raw spectrogram in TDDisplayFX

    * Update KetosClassifier.java

    * Fix standard classifier JSON logging

    * Fixed bug in sweep classifier when using SoundTrap click detections

    * Added some colour averaging in the TFDisplayFX spectrgoram

    * Bug fix for rainbow click bearings

    Bug fix when rainbow clicks are imported mean bearings cannot be calculated - was an array size issue in DelayGroup

    * Google humpback whale deep learning classifier

    Google's humpback whale deep learning classifier can now be imported.
    Updated TDisplayFX to make the data selection panes cleaner and clearer.
    Updated the TDisplayFX so that predicitons from deep learning models now have some display options e.g. changing colour.

    * Updated the prediction plots on time display

    Deep learning prediciton plots on the time display have now been updated to have some colour options and also act as a legend.

    * Updates to TDisplayFX

    yFIshmael now owrks with TDisplayFX
    TDisplayFX UI changes to make simpler.
    Some abstraction for drawing lines on TDisplayFX

    * Merge fixes to click train detector

    * Bug fix to UI

    * Updates to FX GUI

    * Updates to click train detector

    New GUI for click train classification - more intuitive and allows users to build more powerful classifiers.
    CPOD data can now build average waveforms.
    CPOD click trains can be viewed in TDisplayFX pop up menu displays
    Fixed Peak Frequency symbol chooser so it saves the colour box settings

    * Screenshots

    * Updates and bug fixes to click train detector and CPOD importer

    * Updates to click train detector

    New GUI for click train classification - more intuitive and allows users to build more powerful classifiers.
    CPOD data can now build average waveforms.
    CPOD click trains can be viewed in TDisplayFX pop up menu displays
    Fixed Peak Frequency symbol chooser so it saves the colour box settings

    * Updates and bug fixes to click train detector and CPOD importer

    * Fix standard classifier JSON logging

    * Merge fixes to click train detector

    * Updates to click train detector

    New GUI for click train classification - more intuitive and allows users to build more powerful classifiers.
    CPOD data can now build average waveforms.
    CPOD click trains can be viewed in TDisplayFX pop up menu displays
    Fixed Peak Frequency symbol chooser so it saves the colour box settings

    * Screenshots

    * Updates and bug fixes to click train detector and CPOD importer

    * Updates to click train detector

    New GUI for click train classification - more intuitive and allows users to build more powerful classifiers.
    CPOD data can now build average waveforms.
    CPOD click trains can be viewed in TDisplayFX pop up menu displays
    Fixed Peak Frequency symbol chooser so it saves the colour box settings

    * Screenshots

    * Updates and bug fixes to click train detector and CPOD importer

    * Fix standard classifier JSON logging

    * Google humpback whale deep learning classifier

    Google's humpback whale deep learning classifier can now be imported.
    Updated TDisplayFX to make the data selection panes cleaner and clearer.
    Updated the TDisplayFX so that predicitons from deep learning models now have some display options e.g. changing colour.

    * Bug fix to UI

    * Bug fixes to FX GUI

    * Updates to click train detector

    * Squashed commit of the following:

    commit 9f998165ee
    Author: Douglas Gillespie <50671166+douggillespie@users.noreply.github.com>
    Date:   Mon May 2 19:40:24 2022 +0100

        Updates to support ContactCollator plugin (#33)

        * Change synchronization on RawDataTransforms soit uses the owner data
        holder, not itself for synchronization. Otherwise you get thread locks.

        * fix problem in SummaryComand

        * Update command line options

        * Change synchronization on RawDataTransforms soit uses the owner data
        holder, not itself for synchronization. Otherwise you get thread locks.

        * Update command line options

        * Update DecimatorParams.java

        * couple of updates to support new contact collator plugin

        * Sorting out sample rate info in clip display to support Contact Collator
        plugin

        * FLAC Speed

        Improve flac speed

        * Update .gitignore

        * Update .gitignore

        * Updates to support new features in Contact Collator

        * Small update to RawDatautils to handle null data

    * Updates to click train detector

    * Squashed commit of the following:

    commit 62b020b320
    Author: Douglas Gillespie <50671166+douggillespie@users.noreply.github.com>
    Date:   Sat May 14 06:52:20 2022 +0100

        Add a new offlinefileslist function

    commit 3a9a5311aa
    Author: Douglas Gillespie <50671166+douggillespie@users.noreply.github.com>
    Date:   Wed Apr 27 09:43:31 2022 +0100

        Update .gitignore

    commit 9f998165ee
    Author: Douglas Gillespie <50671166+douggillespie@users.noreply.github.com>
    Date:   Mon May 2 19:40:24 2022 +0100

        Updates to support ContactCollator plugin (#33)

        * Change synchronization on RawDataTransforms soit uses the owner data
        holder, not itself for synchronization. Otherwise you get thread locks.

        * fix problem in SummaryComand

        * Update command line options

        * Change synchronization on RawDataTransforms soit uses the owner data
        holder, not itself for synchronization. Otherwise you get thread locks.

        * Update command line options

        * Update DecimatorParams.java

        * couple of updates to support new contact collator plugin

        * Sorting out sample rate info in clip display to support Contact Collator
        plugin

        * FLAC Speed

        Improve flac speed

        * Update .gitignore

        * Update .gitignore

        * Updates to support new features in Contact Collator

        * Small update to RawDatautils to handle null data

    * Updated data selector for click train detector

    * Click train detector updates and bug fixes

    Fixed very annoying bug which meant templates did not show properly when the dialog was first opened in swing.

    Added feature to simple classifier were % of clicks of one click classification (or other data selector paramter) can be used to classify.

    Co-authored-by: Douglas Gillespie <50671166+douggillespie@users.noreply.github.com>

commit 7a08005ba8
Author: Douglas Gillespie <50671166+douggillespie@users.noreply.github.com>
Date:   Fri May 27 13:18:02 2022 +0100

    Sort out a couple of issues with scroll play mode timing

commit e2b48c8e07
Author: Douglas Gillespie <50671166+douggillespie@users.noreply.github.com>
Date:   Tue May 17 21:06:48 2022 +0100

    Changes to corner layout

commit 62b020b320
Author: Douglas Gillespie <50671166+douggillespie@users.noreply.github.com>
Date:   Sat May 14 06:52:20 2022 +0100

    Add a new offlinefileslist function

commit 3a9a5311aa
Author: Douglas Gillespie <50671166+douggillespie@users.noreply.github.com>
Date:   Wed Apr 27 09:43:31 2022 +0100

    Update .gitignore

commit 9f998165ee
Author: Douglas Gillespie <50671166+douggillespie@users.noreply.github.com>
Date:   Mon May 2 19:40:24 2022 +0100

    Updates to support ContactCollator plugin (#33)

    * Change synchronization on RawDataTransforms soit uses the owner data
    holder, not itself for synchronization. Otherwise you get thread locks.

    * fix problem in SummaryComand

    * Update command line options

    * Change synchronization on RawDataTransforms soit uses the owner data
    holder, not itself for synchronization. Otherwise you get thread locks.

    * Update command line options

    * Update DecimatorParams.java

    * couple of updates to support new contact collator plugin

    * Sorting out sample rate info in clip display to support Contact Collator
    plugin

    * FLAC Speed

    Improve flac speed

    * Update .gitignore

    * Update .gitignore

    * Updates to support new features in Contact Collator

    * Small update to RawDatautils to handle null data
2022-06-04 11:00:30 +01:00
.settings Bug fixes (#31) 2022-04-28 10:52:03 +01:00
buildconfigurations Squashed commit of the following: 2022-06-04 11:00:30 +01:00
lib64 Commit PAMGuard code from SVN r6251 to GIT 2022-01-07 10:41:38 +00:00
liblinux Commit PAMGuard code from SVN r6251 to GIT 2022-01-07 10:41:38 +00:00
repo Add some jar files which are not in Maven so can now build on a virgin 2022-02-02 14:11:09 +00:00
src Squashed commit of the following: 2022-06-04 11:00:30 +01:00
.classpath Squashed commit of the following: 2022-06-04 11:00:30 +01:00
.fatjar Commit PAMGuard code from SVN r6251 to GIT 2022-01-07 10:41:38 +00:00
.gitattributes Initial commit 2022-01-07 10:27:52 +00:00
.gitignore Squashed commit of the following: 2022-06-04 11:00:30 +01:00
.project Fixes to NoGUI, Network send and spectrogram graphics. (#23) 2022-02-27 14:06:26 +00:00
BlankAccess._accdb Commit PAMGuard code from SVN r6251 to GIT 2022-01-07 10:41:38 +00:00
BlankOOo._odb Commit PAMGuard code from SVN r6251 to GIT 2022-01-07 10:41:38 +00:00
buoynet.exe Commit PAMGuard code from SVN r6251 to GIT 2022-01-07 10:41:38 +00:00
dependency-reduced-pom.xml Updates to readme and version info for release of V2.02.03 2022-02-08 17:32:13 +00:00
javaOptions32.PNG Commit PAMGuard code from SVN r6251 to GIT 2022-01-07 10:41:38 +00:00
javaOptions64.PNG Commit PAMGuard code from SVN r6251 to GIT 2022-01-07 10:41:38 +00:00
libgcc_s_dw2-1.dll Commit PAMGuard code from SVN r6251 to GIT 2022-01-07 10:41:38 +00:00
libstdc++-6.dll Commit PAMGuard code from SVN r6251 to GIT 2022-01-07 10:41:38 +00:00
LICENSE Create LICENSE 2022-01-07 11:27:26 +00:00
License_GNU_GPL3.html Commit PAMGuard code from SVN r6251 to GIT 2022-01-07 10:41:38 +00:00
License_GNU_GPL3.txt Commit PAMGuard code from SVN r6251 to GIT 2022-01-07 10:41:38 +00:00
missing_Java.html Commit PAMGuard code from SVN r6251 to GIT 2022-01-07 10:41:38 +00:00
msvcr100.dll Commit PAMGuard code from SVN r6251 to GIT 2022-01-07 10:41:38 +00:00
NetworkMonitor.exe Commit PAMGuard code from SVN r6251 to GIT 2022-01-07 10:41:38 +00:00
PamguardBeta32_MixedMode.l4j.ini Commit PAMGuard code from SVN r6251 to GIT 2022-01-07 10:41:38 +00:00
PamguardBeta32_ViewerMode.l4j.ini Commit PAMGuard code from SVN r6251 to GIT 2022-01-07 10:41:38 +00:00
PamguardBeta32.l4j.ini Commit PAMGuard code from SVN r6251 to GIT 2022-01-07 10:41:38 +00:00
PamguardSettings.psf Commit PAMGuard code from SVN r6251 to GIT 2022-01-07 10:41:38 +00:00
PamSettingsFiles.psg Commit PAMGuard code from SVN r6251 to GIT 2022-01-07 10:41:38 +00:00
pom.xml Click train, CPOD, Time Base Display, Ishmael updates and Google deep learning integration (#28) 2022-04-20 12:27:21 +01:00
README.html Updates to readme and version info for release of V2.02.03 2022-02-08 17:32:13 +00:00
readme.md Update readme.md 2022-01-07 11:47:50 +00:00
recentDatabase.psg Commit PAMGuard code from SVN r6251 to GIT 2022-01-07 10:41:38 +00:00
vcruntime140.dll Commit PAMGuard code from SVN r6251 to GIT 2022-01-07 10:41:38 +00:00
WMM.COF Commit PAMGuard code from SVN r6251 to GIT 2022-01-07 10:41:38 +00:00

readme.md

This is the main code repository for the PAMGuard software.

This repository was created on 7 January 2022 from sourceforge SVN repository at https://sourceforge.net/p/pamguard/svn/HEAD/tree/ revision r6278.

If you are a PAMGuard developer, you should clone and branch this repository and share with any collaborators in your own workspace. When your work is ready, contact the PAMGuard team to have your changes merged back into this repo.