V2.02.13c

Release for installation on teaching lab machines.

README.html

@@ -310,7 +310,7 @@ locate and classify marine mammals using Passive Acoustic Monitoring.</p>
 
 <p class=MsoNormal>See <a href="http://www.pamguard.org">http://www.pamguard.org</a></p>
 
-<p class=MsoNormal>Code is not on GitHub at <a
+<p class=MsoNormal>Code is now on GitHub at <a
 href="https://github.com/PAMGuard">https://github.com/PAMGuard</a>. </p>
 
 <h1><a name="_Toc444450391"></a><a name="_Toc444450027"></a><a
@@ -385,10 +385,13 @@ PamguardBeta_ViewerMode.exe):</p>
 
 <p class=MsoNormal><em><span style='font-family:"Calibri",sans-serif'>&nbsp;</span></em></p>
 
+<p class=MsoNormal><b><u><span style='font-size:12.0pt;font-family:"Cambria",serif'><a
+href="#_Version_2.02.14_October">Latest Version 2.02.14 October 2024</a></span></u></b></p>
+
 <h1><a name="_LATEST_VERSION_2.02.03"></a><a name="_VERSION_2.02.07_January"></a><a
 name="_Latest_Version_2.02.10"></a><em><span style='font-size:12.0pt;
-font-family:"Cambria",serif;font-style:normal'><a href="#_Version_2.02.11_April">Latest
+font-family:"Cambria",serif;font-style:normal'><a href="#_Version_2.02.11_April">Version
-Version 2.02.13 August 2024</a></span></em></h1>
+2.02.13 August 2024</a></span></em></h1>
 
 <h1><em><span style='font-size:12.0pt;font-family:"Cambria",serif;font-style:
 normal'><a href="#_Version_2.02.10_January">Version 2.02.10 January 2024</a></span></em></h1>
@@ -465,7 +468,8 @@ Version 2.00.10 June 2017</a></span></h1>
 name="_Latest_Version_2.02.05"></a><a name="_Latest_Version_2.02.06"></a><a
 name="_Latest_Version_2.02.07"></a><a name="_Latest_Version_2.02.08"></a><a
 name="_Version_2.02.09_June"></a><a name="_Version_2.02.10_January"></a><a
-name="_Version_2.02.11_April"></a>Version whatevers next</h1>
+name="_Version_2.02.11_April"></a><a name="_Version_2.02.14_October"></a>Version
+2.02.14 October 2024</h1>
 
 <h2>New Features</h2>
 
@@ -473,6 +477,8 @@ name="_Version_2.02.11_April"></a>Version whatevers next</h1>
 whistle/encounter threshold is applied as an absolute value, or as the
 difference between the highest and second-highest votes.</p>
 
+<p class=MsoNormal>Tethys: Export of Group3D Localiser data</p>
+
 <h2>Bug Fixes</h2>
 
 <p class=MsoNormal>Ishmael Matched Filter detector. Improved correlation
@@ -494,12 +500,23 @@ rate as it would if a soundcard were present. </p>
 <p class=MsoNormal>Click Detector click selection on the display. Fixed issue
 with wrong click being selected when display was highly zoomed in (Issue 158). </p>
 
+<p class=MsoNormal>File processing. Sometimes only processing last file when
+reprocessing data (issue 162).</p>
+
+<p class=MsoNormal>Added ability for exporter to read annotations. Added
+ability to export CPOD and FPOD data.</p>
+
+<p class=MsoNormal>Fixed various bugs in CPOD and FPOD displays and importer. Updated
+CPOD help file.</p>
+
+<p class=MsoNormal>&nbsp;</p>
+
 <h1>Version 2.02.13 August 2024</h1>
 
 <h2>New Features</h2>
 
-<p class=MsoNormal>Deep Learning Classifier. Major upgrade to support for Deep Learning
+<p class=MsoNormal>Deep Learning Classifier. Major upgrade to support for Deep
-models in PAMGuard. See online help for details.</p>
+Learning models in PAMGuard. See online help for details.</p>
 
 <p class=MsoNormal>Click detector: Remembers locations of displays and doesn’t
 continually reset them. </p>
@@ -597,8 +614,8 @@ Pamguard ViewerMode
 
 <p class=MsoNormal><b><span lang=EN-US>Logger Forms</span></b></p>
 
-<p class=MsoNormal><span lang=EN-US>Boolean (logical true/false, yes/no) data were
+<p class=MsoNormal><span lang=EN-US>Boolean (logical true/false, yes/no) data
-not showing correctly in Viewer mode. Now fixed</span></p>
+were not showing correctly in Viewer mode. Now fixed</span></p>
 
 <p class=MsoNormal><span lang=EN-US>Data selectors for plotting on map were not
 working, also fixed</span></p>
@@ -904,11 +921,11 @@ font-family:"Times New Roman",serif'>&nbsp;</span></p>
 
 <h2>File Format Change</h2>
 
-<p class=MsoNormal>Changes have been made to the binary file format to support the
+<p class=MsoNormal>Changes have been made to the binary file format to support
-output of additional noise outputs for certain detectors (See below). Binary
+the output of additional noise outputs for certain detectors (See below).
-files created with this version will not be compatible with earlier versions
+Binary files created with this version will not be compatible with earlier
-2.01.### and below. This version will read and may convert earlier format
+versions 2.01.### and below. This version will read and may convert earlier
-binary files.</p>
+format binary files.</p>
 
 <p class=MsoNormal style='margin-bottom:0cm'><span style='font-size:12.0pt;
 font-family:"Times New Roman",serif'>&nbsp;</span></p>
@@ -1023,8 +1040,8 @@ off the side of whistles </p>
 
 <p class=MsoListParagraph style='text-indent:-18.0pt'><span lang=EN-US>13. </span><span
 lang=EN-US style='font-size:7.0pt;font-family:"Times New Roman",serif'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</span><span
-lang=EN-US> </span>Extend the Hyperbolic Localiser to handle 2D planar arrays (previously
+lang=EN-US> </span>Extend the Hyperbolic Localiser to handle 2D planar arrays
-limited to 3D volumetric arrays) </p>
+(previously limited to 3D volumetric arrays) </p>
 
 <p class=MsoListParagraph style='text-indent:-18.0pt'><span lang=EN-US>14. </span><span
 lang=EN-US style='font-size:7.0pt;font-family:"Times New Roman",serif'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</span><span
@@ -1798,8 +1815,8 @@ lang=EN-US> </span>Added print screen button to capture/save all PAMGuard
 screens to file and log the information to the database.</p>
 
 <p class=MsoListParagraph style='text-indent:-18.0pt'><span lang=EN-US>8. </span><span
-lang=EN-US style='font-size:7.0pt;font-family:"Times New Roman",serif'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</span>
+lang=EN-US style='font-size:7.0pt;font-family:"Times New Roman",serif'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</span><span
-Updates to the Ishmael module.</p>
+lang=EN-US> </span>Updates to the Ishmael module.</p>
 
 <p class=MsoListParagraph style='text-indent:-18.0pt'><span lang=EN-US>9. </span><span
 lang=EN-US style='font-size:7.0pt;font-family:"Times New Roman",serif'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</span><span
@@ -2320,21 +2337,22 @@ compatible with older versions of PAMGuard. If you open older data sets with
 the PAMGuard Viewer the older data will be converted to the new format (see
 below for details).</span></p>
 
-<p class=MsoNormal><span lang=EN-US>The most significant change in the binary
+<p class=MsoNormal><span lang=EN-US>The most significant change in the binary file
-file format is the addition of a Unique Data Identifier (UID) to each unit of
+format is the addition of a Unique Data Identifier (UID) to each unit of data.
-data. This is intended to aid in offline analysis by making it easier for the
+This is intended to aid in offline analysis by making it easier for the user to
-user to link what they are seeing on different PAMGuard displays and also to
+link what they are seeing on different PAMGuard displays and also to link with
-link with any data post processed in Matlab or other custom analysis software.
+any data post processed in Matlab or other custom analysis software. UID’s are
-UID’s are also added to PAMGuard database tables. </span></p>
+also added to PAMGuard database tables. </span></p>
 
 <h4><span lang=EN-US>Converting Old Data</span></h4>
 
 <p class=MsoNormal><span lang=EN-US>If old data are opened with the PAMGuard
-viewer they will automatically be converted. For safety, the original binary files
+viewer they will automatically be converted. For safety, the original binary
-will not be overwritten and the new data will be placed in a new folder on your
+files will not be overwritten and the new data will be placed in a new folder
-computer with the same path as the old data, but suffixed with ‘_WithUID’, e.g.
+on your computer with the same path as the old data, but suffixed with
-if your binary data were previously stored in the folder C:\MySurvey\binarydata
+‘_WithUID’, e.g. if your binary data were previously stored in the folder
-the new data will be written to C:\MySurvey\binarydata_WithUID. </span></p>
+C:\MySurvey\binarydata the new data will be written to
+C:\MySurvey\binarydata_WithUID. </span></p>
 
 <p class=MsoNormal><span lang=EN-US>The additional UID column will be added to
 all database tables and populated with unique values. For data which are stored
@@ -2353,11 +2371,11 @@ Note that this display is only available if you are running Java 8 or later. </s
 
 <h3><span lang=EN-US>Event Marking and the Detection Group Localiser</span></h3>
 
-<p class=MsoNormal><span lang=EN-US>A new system of event marking which can be used
+<p class=MsoNormal><span lang=EN-US>A new system of event marking which can be
-both online and offline has been added to PAMGuard. Details are in the PAMGuard
+used both online and offline has been added to PAMGuard. Details are in the
-help file (Displays/Display Marking). Data can be selected on the Map, the
+PAMGuard help file (Displays/Display Marking). Data can be selected on the Map,
-Spectrogram Display and the new Time Display FX in a similar way and sent to
+the Spectrogram Display and the new Time Display FX in a similar way and sent
-other PAMGuard modules. The new marking and data selection system works with
+to other PAMGuard modules. The new marking and data selection system works with
 the new Detection Group Localiser. The Detection Group Localiser extends the
 functionality which always existed in the click detector to other types of data
 (e.g. Whistles) so that they can be grouped and tracked using target motion
@@ -2444,14 +2462,14 @@ switches/parameters to be included in *.ini files.</p>
 
 <p class=MsoListParagraph style='text-indent:-18.0pt'><span lang=EN-US>1.</span><span
 lang=EN-US style='font-size:7.0pt;font-family:"Times New Roman",serif'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
-</span><span lang=EN-US>Bug 308. Map Overlay Control. </span>Storage of data saying
+</span><span lang=EN-US>Bug 308. Map Overlay Control. </span>Storage of data
-what get's plotted on each map and for how long became corrupted and the list
+saying what get's plotted on each map and for how long became corrupted and the
-grew to a ridiculous size. Code has been put in place to a) stop it happening
+list grew to a ridiculous size. Code has been put in place to a) stop it
-again and b) to repair any configuration files which are corrupted. Corrupted
+happening again and b) to repair any configuration files which are corrupted.
-files will be slow to load, slow to save and will be &gt; several megabytes in
+Corrupted files will be slow to load, slow to save and will be &gt; several
-size. It may be necessary to delete the PamguardSettings table in any databases
+megabytes in size. It may be necessary to delete the PamguardSettings table in
-since these too may have become oversized which will slow down viewer mode
+any databases since these too may have become oversized which will slow down
-PAMGuard start-up.</p>
+viewer mode PAMGuard start-up.</p>
 
 <p class=MsoListParagraph style='text-indent:-18.0pt'><span lang=EN-US>2.</span><span
 lang=EN-US style='font-size:7.0pt;font-family:"Times New Roman",serif'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
@@ -2697,16 +2715,16 @@ the online help. Users of the Click Detector will notice the following changes:<
 
 <p class=MsoListParagraph style='text-indent:-18.0pt'><span lang=EN-US>1.</span><span
 lang=EN-US style='font-size:7.0pt;font-family:"Times New Roman",serif'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
-</span><span lang=EN-US>There is now a choice of least squares and Simplex
+</span><span lang=EN-US>There is now a choice of least squares and Simplex based
-based algorithms for real-time animal tracking. The improved algorithms also
+algorithms for real-time animal tracking. The improved algorithms also provide
-provide better error information both for display on the map and for storage in
+better error information both for display on the map and for storage in the
-the database. </span></p>
+database. </span></p>
 
 <p class=MsoListParagraph style='text-indent:-18.0pt'><span lang=EN-US>2.</span><span
 lang=EN-US style='font-size:7.0pt;font-family:"Times New Roman",serif'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
-</span><span lang=EN-US>The number of data streams associated with the click detector
+</span><span lang=EN-US>The number of data streams associated with the click
-has been tidied up so that there are a) All Click, b) Tracked Clicks (those
+detector has been tidied up so that there are a) All Click, b) Tracked Clicks
-which are part of an event) and c) Events. </span></p>
+(those which are part of an event) and c) Events. </span></p>
 
 <p class=MsoListParagraph style='text-indent:-18.0pt'><span lang=EN-US>3.</span><span
 lang=EN-US style='font-size:7.0pt;font-family:"Times New Roman",serif'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
@@ -2969,11 +2987,11 @@ boundaries when file durations are set to a maximum fixed value. </p>
 <p class=MsoListParagraph style='text-indent:-18.0pt'><span lang=EN-US>5.</span><span
 lang=EN-US style='font-size:7.0pt;font-family:"Times New Roman",serif'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
 </span>Bug 262. Access to SQLite database conversion. This would fail when
-tables were present which were not created by PAMGuard. &nbsp;Fixes have been
+tables were present which were not created by PAMGuard. &nbsp;Fixes have been put
-put in place for spaces in the table name or for not having an 'Id' column.
+in place for spaces in the table name or for not having an 'Id' column. Fixes
-Fixes have not been implemented for spaces in a column name or use of a
+have not been implemented for spaces in a column name or use of a reserved word
-reserved word as a column name, however if either of these problems do exist it
+as a column name, however if either of these problems do exist it will no
-will no longer crash but issue a clear warning and carry onto the next table.</p>
+longer crash but issue a clear warning and carry onto the next table.</p>
 
 <p class=MsoNormal style='margin-left:18.0pt'><span lang=EN-US>&nbsp;</span></p>
 
@@ -3323,8 +3341,9 @@ to read on a time. Fixed</p>
 
 <p class=MsoNormal><i>Menu Layout</i></p>
 
-<p class=MsoNormal>The PAMGuard menus have been rearranged into a more intuitive
+<p class=MsoNormal>The PAMGuard menus have been rearranged into a more
-grouping which we believe will help users find functionality more easily. </p>
+intuitive grouping which we believe will help users find functionality more
+easily. </p>
 
 <p class=MsoNormal>'Detection' menu has been renamed to 'Settings' since many
 menu items within this menu were not directly to do with 'Detection'.</p>
@@ -3365,8 +3384,8 @@ Visual Methods</p>
 <p class=MsoNormal>'<i>Multi Threading</i>' menu item moved from 'Detection'
 (now 'Settings') to 'File'</p>
 
-<p class=MsoNormal>'<i>Start</i>' and '<i>Stop</i>' menu items removed. PAMGuard
+<p class=MsoNormal>'<i>Start</i>' and '<i>Stop</i>' menu items removed.
-should be started and stopped using the red and black buttons.</p>
+PAMGuard should be started and stopped using the red and black buttons.</p>
 
 <p class=MsoNormal><b>New Modules</b></p>
 
@@ -3507,10 +3526,10 @@ whistle.</p>
 <p class=MsoNormal><b>Bug Fixes</b></p>
 
 <ol style='margin-top:0cm' start=1 type=1>
- <li class=MsoNormal style='margin-bottom:0cm'>Reading of wav files. Modifications
+ <li class=MsoNormal style='margin-bottom:0cm'>Reading of wav files.
-     to the Java wav file reading code in order to read wav files between 2 and
+     Modifications to the Java wav file reading code in order to read wav files
-     4 GByte in size (the wav standard extends to 4 Gbyte, but Java for some
+     between 2 and 4 GByte in size (the wav standard extends to 4 Gbyte, but
-     reason only supports up to 2Gbyte)</li>
+     Java for some reason only supports up to 2Gbyte)</li>
  <li class=MsoNormal style='margin-bottom:0cm'>Ishmael Detector configuration.
      It was impossible to correctly configure these detectors and configuration
      settings were not being saved correctly. This has now been rectified. </li>
@@ -3581,12 +3600,12 @@ survey software package.</p>
 
 <p class=MsoNormal style='margin-left:36.0pt'><i>Core Functionality</i></p>
 
-<p class=MsoNormal style='margin-left:36.0pt'>New storage options have been implemented
+<p class=MsoNormal style='margin-left:36.0pt'>New storage options have been
-which give the user greater control of where data are stored. </p>
+implemented which give the user greater control of where data are stored. </p>
 
-<p class=MsoNormal style='margin-left:36.0pt'>Modules have been arranged into
+<p class=MsoNormal style='margin-left:36.0pt'>Modules have been arranged into different
-different groups in the configuration menus and tool tip texts have been added
+groups in the configuration menus and tool tip texts have been added to these
-to these menus to provide additional information to users. &nbsp;</p>
+menus to provide additional information to users. &nbsp;</p>
 
 <p class=MsoNormal style='margin-left:36.0pt'><i>Radar Display</i></p>
 
@@ -3599,8 +3618,8 @@ mode, making is easy to scroll through and view data for short time periods. </p
 
 <p class=MsoNormal style='margin-left:36.0pt'><i>GPS</i></p>
 
-<p class=MsoNormal style='margin-left:36.0pt'>Function to import GPS data from
+<p class=MsoNormal style='margin-left:36.0pt'>Function to import GPS data from other
-other data sources for the PAMGuard viewer. </p>
+data sources for the PAMGuard viewer. </p>
 
 <p class=MsoNormal style='margin-left:36.0pt'><i>Database</i></p>
 
@@ -3669,8 +3688,8 @@ inter-detection interval.</p>
 margin-left:36.0pt'>&nbsp;</p>
 
 <p class=MsoNormal style='margin-top:0cm;margin-right:0cm;margin-bottom:0cm;
-margin-left:36.0pt'>Target Motion Analysis: Updated target motion analysis module
+margin-left:36.0pt'>Target Motion Analysis: Updated target motion analysis
-so that it works in three (as opposed to two) dimensions.</p>
+module so that it works in three (as opposed to two) dimensions.</p>
 
 <p class=MsoNormal style='margin-top:0cm;margin-right:0cm;margin-bottom:0cm;
 margin-left:36.0pt'>&nbsp;</p>
@@ -3813,8 +3832,8 @@ Symbol'>'</span><span style='font-size:7.0pt;font-family:"Times New Roman",serif
 
 <p class=MsoListParagraph style='text-indent:-18.0pt'><span style='font-family:
 Symbol'>'</span><span style='font-size:7.0pt;font-family:"Times New Roman",serif'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
-</span>Bearings can be calculated using the envelope of the waveform rather than
+</span>Bearings can be calculated using the envelope of the waveform rather
-the full waveform. The waveform or envelope can also be filtered prior to
+than the full waveform. The waveform or envelope can also be filtered prior to
 bearing calculation.</p>
 
 <p class=MsoListParagraph style='text-indent:-18.0pt'><span style='font-family:
@@ -3900,9 +3919,9 @@ Symbol'>'</span><span style='font-size:7.0pt;font-family:"Times New Roman",serif
 
 <p class=MsoListParagraph style='text-indent:-18.0pt'><span style='font-family:
 Symbol'>'</span><span style='font-size:7.0pt;font-family:"Times New Roman",serif'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
-</span>Filter and Decimator modules output data name. These were not unique in previous
+</span>Filter and Decimator modules output data name. These were not unique in
-versions which made it impossible for downstream modules to connect to the
+previous versions which made it impossible for downstream modules to connect to
-correct data stream. This has been fixed. </p>
+the correct data stream. This has been fixed. </p>
 
 <p class=MsoListParagraph style='text-indent:-18.0pt'><span style='font-family:
 Symbol'>'</span><span style='font-size:7.0pt;font-family:"Times New Roman",serif'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
@@ -4121,8 +4140,8 @@ existing configurations. </p>
 
 <p class=MsoNormal>Sound acquisition</p>
 
-<p class=MsoNormal>Changes made for a previous Mac build now incorporated into main
+<p class=MsoNormal>Changes made for a previous Mac build now incorporated into
-Beta branch. This should allow for basic 2 channel sound acquisition using
+main Beta branch. This should allow for basic 2 channel sound acquisition using
 Macs. </p>
 
 <p class=MsoNormal>Bug Fixes</p>
@@ -4214,9 +4233,9 @@ Symbol'>'</span><span style='font-size:7.0pt;font-family:"Times New Roman",serif
 
 <p class=MsoListParagraph style='text-indent:-18.0pt'><span style='font-family:
 Symbol'>'</span><span style='font-size:7.0pt;font-family:"Times New Roman",serif'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
-</span>False buffer overflows at low sample rates stopped (size of data in
+</span>False buffer overflows at low sample rates stopped (size of data in individual
-individual data blocks had been increased at low sample rates, but when this
+data blocks had been increased at low sample rates, but when this exceeded 3s a
-exceeded 3s a false buffer overflow would occur).</p>
+false buffer overflow would occur).</p>
 
 <p class=MsoNormal>&nbsp;</p>
 
@@ -4925,7 +4944,8 @@ Symbol'>'</span><span style='font-size:7.0pt;font-family:"Times New Roman",serif
 
 <h2>0.5b&nbsp;&nbsp;&nbsp; 31 August 2007 </h2>
 
-<p class=MsoNormal>Requires Java 6 Update 2 (http://java.com/en/download/manual.jsp)</p>
+<p class=MsoNormal>Requires Java 6 Update 2
+(http://java.com/en/download/manual.jsp)</p>
 
 <p class=MsoNormal>Major new features include:</p>
 

pom.xml

@@ -4,7 +4,7 @@
   <modelVersion>4.0.0</modelVersion>
   <groupId>org.pamguard</groupId>
   <artifactId>Pamguard</artifactId>
-  <version>2.02.13b</version>
+  <version>2.02.13c</version>
   <name>Pamguard</name>
   <description>Pamguard using Maven to control dependencies</description>
 	<url>www.pamguard.org</url>

src/PamController/PamguardVersionInfo.java

@@ -31,7 +31,7 @@ public class PamguardVersionInfo {
 	 * Version number, major version.minorversion.sub-release.
 	 * Note: can't go higher than sub-release 'f'
 	 */
-	static public final String version = "2.02.13b";
+	static public final String version = "2.02.13c";
 	
 	/**
 	 * Release date