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Merge branch 'Tethys' of https://github.com/douggillespie/PAMGuard into Tethys

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README.html
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@ -478,9 +478,8 @@ files) file performance</span></b><span lang=EN-US> when scrolling through
audio data in Viewer mode. </span></p>
<p class=MsoNormal><b><span lang=EN-US>Viewer Launch</span></b><span
lang=EN-US> by right clicking on sqlite database and selecting ‘open with / Pamguard
ViewerMode launcher’ menu option.</span></p>
lang=EN-US> by right clicking on sqlite database and selecting <20>open with / Pamguard
ViewerMode launcher<65> menu option.</span></p>
<h2><span lang=EN-US>Bug Fixes</span></h2>
<p class=MsoNormal><b><span lang=EN-US>Logger Forms</span></b></p>
@ -527,7 +526,7 @@ clicks not being correctly reassigned to different events. </span></p>
<p class=MsoNormal><b><span lang=EN-US>Screen Position</span></b><span
lang=EN-US>: When using multiple monitors, if you move a configuration to a
computer with a different monitor layout, the GUI should work out if it’s
computer with a different monitor layout, the GUI should work out if it’s
opening on a screen area which no longer exists and move itself onto the
primary monitor. </span></p>
@ -549,8 +548,8 @@ were reading local time, even when set to use UTC. </span></p>
which mostly occurred when processing large datasets of many offline files, has
been fixed.</span></p>
<p class=MsoNormal><span lang=EN-US>Data Map: “Scroll To Data” pop-up menu,
which didn’t always scroll to the correct place, is now fixed. </span></p>
<p class=MsoNormal><span lang=EN-US>Data Map: “Scroll To Data” pop-up menu,
which didn’t always scroll to the correct place, is now fixed. </span></p>
<p class=MsoNormal><span lang=EN-US>Bearing Localiser offline: If reprocessing
bearings, the localizer was not correctly loading required raw or FFT data to
@ -573,7 +572,7 @@ files and stores them within the PAMGuard configuration. This does not affect
processing, but is important for record keeping. </span></p>
<p class=MsoNormal><span lang=EN-US>GPS options to use any valid RMC or GGA
string. Not all GPS receivers output their RMC data as GPRMC – e.g. some may
string. Not all GPS receivers output their RMC data as GPRMC – e.g. some may
output as GNRMC. A new option allows the GPS module to use any string, whatever
the first two characters of the string name may be. </span></p>
@ -582,14 +581,14 @@ the first two characters of the string name may be. </span></p>
<h2><span lang=EN-US>Bug Fixes</span></h2>
<p class=MsoNormal><span lang=EN-US>Use of localization sensor and orientation
data for static hydrophones had a bug whereby it would continually ‘forget’
data for static hydrophones had a bug whereby it would continually ‘forget’
angle offsets applied to static hydrophones in viewer mode. This is now fixed. </span></p>
<p class=MsoNormal><span lang=EN-US>Click tool bar: Correctly shows event
selection options even if no species classification options are in place. </span></p>
<p class=MsoNormal><span lang=EN-US>Fixed Landmarks: Earlier versions were
‘losing’ these every time PAMGuard started or new data were loaded in viewer
‘losing’ these every time PAMGuard started or new data were loaded in viewer
mode. Now fixed. </span></p>
<p class=MsoNormal><span lang=EN-US>ROCCA: Fixed (another) memory leak which
@ -608,11 +607,11 @@ processing.</span></p>
<p class=MsoNormal><span lang=EN-US>New sound type for simulated sounds which
generates random chirps between around 200 and 800Hz, roughly the frequency
you’d expect sound from higher frequency baleen whales, such as humpbacks, to
you’d expect sound from higher frequency baleen whales, such as humpbacks, to
vocalise at. &nbsp;&nbsp;</span></p>
<p class=MsoNormal><span lang=EN-US>Hiding tool tips. A menu item to
permanently turn off all tool tips, or tap the ‘Esc’ key to turn them off for 6
permanently turn off all tool tips, or tap the ‘Esc’ key to turn them off for 6
seconds if they are getting in the way, particularly when trying to interact
with displays using the mouse. </span></p>
@ -633,7 +632,7 @@ whistle classification module.</span></p>
<h2><span lang=EN-US>New Features</span></h2>
<p class=MsoNormal><span lang=EN-US>SoundTrap SUD file reading. If you’re using
<p class=MsoNormal><span lang=EN-US>SoundTrap SUD file reading. If you’re using
SoundTrap autonomous recorders from Ocean Instruments, you no longer need to
decompress the SoundTrap files prior to processing. This will save time and a
lot of disk space. Extraction of clicks from the inbuilt SoundTrap Click
@ -697,7 +696,7 @@ audio files. </span></p>
<h2><span lang=EN-US>Bug Fixes</span></h2>
<p class=MsoNormal><span lang=EN-US>Soundtrap DWV import. Will now generate
binary files even if DWV file doesnÂ’t exist (which is correct behavior in
binary files even if DWV file doesn’t exist (which is correct behavior in
quiet conditions when no clicks were detected). </span></p>
<p class=MsoNormal><span lang=EN-US>Spectrogram. Changes to stop occasional
@ -732,8 +731,8 @@ running in real time. Added template names based on file names. </p>
<p class=MsoNormal>#13 Merging files when offline processing file folders: Had
an error introduced in last release which caused it to fail to recognise gaps
between files, meaning that some output data (i.e. after a gap) would have an
incorrect time stamp. This did not affect data if the ‘merge contiguous
files’ option was not selected. </p>
incorrect time stamp. This did not affect data if the ‘merge contiguous
files’ option was not selected. </p>
<p class=MsoNormal>#14 Logger forms data were not plotting correctly. This was
due to the required data selection functions not being fully implemented. This
@ -805,7 +804,7 @@ downloads area <a href="http://www.pamguard.org/downloads.php?cat_id=3">here</a>
<p class=MsoNormal><b><span lang=EN-US>Detection Group Localiser</span></b><span
lang=EN-US> </span></p>
<p class=MsoNormal>This module has been renamed “Detection Grouper”, so
<p class=MsoNormal>This module has been renamed “Detection Grouper”, so
as to avoid confusion with the Group 3D localizer. This is because the
Detection Grouper is more for organizing data into groups to be localized than
it is for doing localization.</p>
@ -927,10 +926,10 @@ included in a future release. </p>
<p class=MsoListParagraph style='text-indent:-18.0pt'><span lang=EN-US>17. </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>An implementation of the Generalized Power Law Detector,
developed by Tyler Helble ([Helble et al., ‘A generalized power-law detection
algorithm for humpback whale vocalizations’, The Journal of the Acoustical
Society of America, vol. 131, no. 4, pp. 2682–2699, 2012) is now available.
For details, see the online help </p>
developed by Tyler Helble ([Helble et al., ‘A generalized power-law
detection algorithm for humpback whale vocalizations’, The Journal of the
Acoustical Society of America, vol. 131, no. 4, pp. 2682–2699, 2012) is now
available. For details, see the online help </p>
<p class=MsoListParagraph style='text-indent:-18.0pt'><span lang=EN-US>18. </span><span
lang=EN-US style='font-size:7.0pt;font-family:"Times New Roman",serif'>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</span><span
@ -2202,7 +2201,7 @@ file format is the addition of a Unique Data Identifier (UID) to each unit of
data. This is intended to aid in offline analysis by making it easier for the
user to link what they are seeing on different PAMGuard displays and also to
link with any data post processed in Matlab or other custom analysis software.
UID’s are also added to PAMGuard database tables. </span></p>
UID’s are also added to PAMGuard database tables. </span></p>
<h4><span lang=EN-US>Converting Old Data</span></h4>
@ -2210,13 +2209,13 @@ UID’s are also added to PAMGuard database tables. </span></p>
viewer they will automatically be converted. For safety, the original binary
files will not be overwritten and the new data will be placed in a new folder
on your computer with the same path as the old data, but suffixed with
‘_WithUID’, e.g. if your binary data were previously stored in the folder
‘_WithUID’, e.g. if your binary data were previously stored in the folder
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
in both the binary files and in database tables, the same UID’s will be used
in both the binary files and in database tables, the same UID’s will be used
in both data stores. </span></p>
<h3><span lang=EN-US>New Displays</span></h3>
@ -2450,7 +2449,7 @@ November 2016</span></h1>
<p class=MsoListParagraph style='text-indent:-18.0pt'><span lang=EN-US>1.&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;
Bug 303. Some ASIO sound cards not working with either ASIO system in PAMGuard.
For the PAMGuard ASIO system, this was due to a data format used by some sound
cards never being properly implemented. For the “New ASIO system” which
cards never being properly implemented. For the “New ASIO system” which
is based on jAsioHost, the unpacking of that format contained a bug which
returned incorrect numbers, so data were swamped with noise. Both systems are
now fixed. By preference, users should use the PAMGuard ASIO system since the