472 lines
12 KiB
Plaintext
472 lines
12 KiB
Plaintext
head 1.12;
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access;
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symbols;
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locks; strict;
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1.12
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date 2009.11.20.02.02.02; author LeeBelbin; state Exp;
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branches;
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next 1.11;
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1.11
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date 2006.07.25.02.24.55; author DonovanSharp; state Exp;
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branches;
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next 1.10;
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1.10
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date 2006.07.18.07.10.16; author DonovanSharp; state Exp;
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branches;
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next 1.9;
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1.9
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date 2006.07.18.04.48.36; author DonovanSharp; state Exp;
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branches;
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next 1.8;
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1.8
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date 2006.07.07.02.39.07; author DonovanSharp; state Exp;
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branches;
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next 1.7;
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1.7
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date 2006.07.06.05.50.03; author DonovanSharp; state Exp;
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branches;
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next 1.6;
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1.6
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date 2006.07.06.03.10.41; author DonovanSharp; state Exp;
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branches;
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next 1.5;
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1.5
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date 2006.07.05.05.31.01; author DonovanSharp; state Exp;
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branches;
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next 1.4;
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1.4
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date 2006.06.23.02.25.06; author DonovanSharp; state Exp;
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branches;
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next 1.3;
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1.3
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date 2006.06.22.02.48.57; author DonovanSharp; state Exp;
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branches;
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next 1.2;
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1.2
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date 2006.06.22.01.08.59; author DonovanSharp; state Exp;
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branches;
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next 1.1;
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1.1
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date 2006.06.21.06.59.54; author DonovanSharp; state Exp;
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branches;
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next ;
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desc
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@@
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1.12
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log
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@none
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@
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text
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@%META:TOPICINFO{author="LeeBelbin" date="1258682522" format="1.1" version="1.12"}%
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%META:TOPICPARENT{name="CodedDescription"}%
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---++Main.BDI Part 0: Introduction and Primer to the Main.BDI Standard
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---+++4.5 Elements within <SamplingEvent>
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The element <SamplingUnit> contains raw sample data for a specimen. <SamplingEvent> contains information about where and when that sampling occurred.
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A simple Main.BDI instance document representing a sampling event has the basic structure shown below and in example 4.5.1.1.
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%ATTACHURL%/sampledata4.gif
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Example 4.5.1.1 - A simple sampling event
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<table bgcolor="#ddddff" border="0" width="100%" cellpadding="5" cellspacing="5" style="border-collapse: collapse" bordercolor="#111111">
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<tr>
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<td>
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<verbatim>
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<SampleData>
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<SamplingEvent id="TJM45337">
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<DateTime minute="17" hour="7" day="17" month="7" year="2006"/>
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<DateTimeSpanEnd minute="27" hour="7" day="17" month="7" year="2006"/>
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<GeographicArea ref="g2"/>
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<Coordinates latitude="20.44" longitude="139.29"/>
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<SamplingUnit>
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<Quantitative ref="ch1" value="12"/>
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</SamplingUnit>
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...etc
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</SampleData>
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</verbatim>
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</td>
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</tr>
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</table>
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<DateTime> records the date and time when the sampling event occurred, either as a single time point or as the start of a time period.
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<DateTimeSpanEnd> records the end of a time span if event timing is recorded as such.
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Both date/times may be incomplete in ways not expressible in xs:datetime, e.g. the day and year may be known, but month unknown.
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<GeographicArea> is a reference to a geographic area at which the event occurred. This is defined in the element <GeographicAreas> with the basic structure shown below and in example 4.5.1.2.
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%ATTACHURL%/geographicarea.gif
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Example 4.5.1.2 Defining geographic areas
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<table bgcolor="#ddddff" border="0" width="100%" cellpadding="5" cellspacing="5" style="border-collapse: collapse" bordercolor="#111111">
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<tr>
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<td>
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<verbatim>
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<GeographicAreas>
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<GeographicArea id="g1">
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<Representation>
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<Label>Worldwide</Label>
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</Representation>
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</GeographicArea>
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<GeographicArea id="g2">
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<Representation>
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<Label>Europe</Label>
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</Representation>
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</GeographicArea>
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</GeographicAreas>
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</verbatim>
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</td>
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</tr>
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</table>
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<Coordinates> records a point on earth at which the event occurred. Elements available are <Latitude>, <Longitude>, <GeodeticDatum>; <Verbatim> (a textual representation of the original location data) and <Literal> (a free-form string in addition to or instead of numeric coordinates (i.e. Charley's Creek, near Chinchilla).
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Example 4.5.1.3 Use of the <Coordinate> element
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<table bgcolor="#ddddff" border="0" width="100%" cellpadding="5" cellspacing="5" style="border-collapse: collapse" bordercolor="#111111">
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<tr>
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<td>
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<verbatim>
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<SampleData>
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<SamplingEvent id="AQ578462">
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<DateTime></DateTime>
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<Coordinates latitude="26.5" longitude="150.5"
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geodeticdatum="GDA94" verbatim="5km NW of Roma"/>
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<SamplingUnit>
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<Categorical ref="c1">
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<State ref="s1"/>
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</Categorical>
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</SamplingUnit>
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</SamplingEvent>
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</SampleData>
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</verbatim>
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</td>
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</tr>
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</table>
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---++++4.5.2. <noautolink>SamplingUnit</noautolink>
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A sampling unit may be an individual organism, a leaf of a tree, a piece of tissue, etc. In each sampling unit multiple characters may have been observed together ('paired observations'). Example: 'leaf shape, length, and width' of a single leaf). Value frequencies (e. g., '2.3': observed 4 x) are not supported; they are useful when only a single character variable is supported, but complicate paired observations unnecessarily. Char. values with a frequency should be entered in repeated <noautolink>SamplingUnits</noautolink>.
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A simple Main.BDI code snippet representing part of the sample data above has the basic structure shown below and in Example 4.5.2.1.
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%ATTACHURL%/samplingunit2.gif
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Example 4.5.2.1. Recording sampling data in Main.BDI
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<table bgcolor="#ddddff" border="0" width="100%" cellpadding="5" cellspacing="5" style="border-collapse: collapse" bordercolor="#111111">
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<tr>
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<td>
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<verbatim>
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<SampleData>
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<SamplingEvent id="sev1000">
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<DateTime></DateTime>
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<SamplingUnit>
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<Categorical ref="c1">
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<State ref="s2"/>
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</Categorical>
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<Quantitative ref="c2" value="110"/>
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</SamplingUnit>
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<SamplingUnit>
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<Categorical ref="c1">
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<State ref="s1"/>
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</Categorical>
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<Quantitative ref="c2" value="112"/>
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</SamplingUnit>
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<SamplingUnit>
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<Categorical ref="c1">
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<State ref="s1"/>
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</Categorical>
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<Quantitative ref="c2" value="110"/>
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</SamplingUnit>
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<SamplingUnit>
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<Categorical ref="c1">
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<State ref="s1"/>
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</Categorical>
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<Quantitative ref="c2" value="118"/>
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</SamplingUnit>
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</SamplingEvent>
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</SampleData>
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</verbatim>
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</td>
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</tr>
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</table>
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-- Main.DonovanSharp - 21 Jun 2006
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%META:FILEATTACHMENT{name="geographicarea.gif" attr="" autoattached="1" comment="" date="1153205684" path="geographicarea.gif" size="2794" user="Main.DonovanSharp" version="2"}%
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%META:FILEATTACHMENT{name="samplingunit2.gif" attr="" autoattached="1" comment="" date="1153206390" path="samplingunit2.gif" size="30913" user="Main.DonovanSharp" version="1"}%
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%META:FILEATTACHMENT{name="sampledata4.gif" attr="" autoattached="1" comment="" date="1153197893" path="sampledata4.gif" size="28691" user="Main.DonovanSharp" version="1"}%
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%META:TOPICMOVED{by="DonovanSharp" date="1153196197" from="SDD.SamplingUnit" to="SDD.SamplingEvent"}%
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@
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1.11
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log
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@d1 1
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a1 1
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%META:TOPICINFO{author="DonovanSharp" date="1153794295" format="1.1" version="1.11"}%
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d3 1
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a3 1
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---++SDD Part 0: Introduction and Primer to the SDD Standard
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d9 1
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a9 1
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A simple SDD instance document representing a sampling event has the basic structure shown below and in example 4.5.1.1.
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d111 1
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a111 1
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A simple SDD code snippet representing part of the sample data above has the basic structure shown below and in Example 4.5.2.1.
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d115 1
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a115 1
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Example 4.5.2.1. Recording sampling data in SDD
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@
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1.10
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log
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text
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@d1 1
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a1 1
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%META:TOPICINFO{author="DonovanSharp" date="1153206616" format="1.1" reprev="1.10" version="1.10"}%
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d107 1
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a107 1
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---++++4.5.2. SamplingUnit
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d109 1
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a109 1
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A sampling unit may be an individual organism, a leaf of a tree, a piece of tissue, etc. In each sampling unit multiple characters may have been observed together ('paired observations'). Example: 'leaf shape, length, and width' of a single leaf). Value frequencies (e. g., '2.3': observed 4 x) are not supported; they are useful when only a single character variable is supported, but complicate paired observations unnecessarily. Char. values with a frequency should be entered in repeated SamplingUnits.
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@
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1.9
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log
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text
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@d1 1
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a1 1
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%META:TOPICINFO{author="DonovanSharp" date="1153198116" format="1.1" reprev="1.9" version="1.9"}%
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d9 1
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a9 1
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A simple SDD instance document representing a sampling event has the basic structure shown below.
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d13 1
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a13 1
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---++++4.5.1 Sample data elements
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d15 1
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a15 1
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---++++4.5.1.1 DateTime
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d17 2
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a18 1
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Date and time when event occurred; single point, or start of span.
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d20 13
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a32 1
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---++++4.5.1.2 DateTimeSpanEnd
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d34 9
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a42 1
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The end of a time span if event timing is recorded as such.
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d45 1
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a45 1
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---++++4.5.1.3 GeographicArea
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d47 1
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a47 1
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A reference to a geographic area at which the event occurred.
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d49 4
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d78 1
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a78 1
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---++++4.5.1.4 Coordinates
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d80 1
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a80 1
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A point on earth at which the event occurred. Elements available are <Latitude>, <Longitude>, <GeodeticDatum>; <Verbatim> (a textual representation of the original location data) and <Literal> (a free-form string in addition to or instead of numeric coordinates (i.e. Charley's Creek, near Chinchilla).
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d107 1
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a107 1
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---++++4.5.1.5 SamplingEvent
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d111 1
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a111 1
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%ATTACHURL%/samplingunit2.jpg
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d113 4
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d161 2
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a162 3
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%META:FILEATTACHMENT{name="sampledata2.jpg" attr="" autoattached="1" comment="" date="1150873076" path="sampledata2.jpg" size="19199" user="Main.DonovanSharp" version="1"}%
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%META:FILEATTACHMENT{name="sampledata3.jpg" attr="" autoattached="1" comment="" date="1152154542" path="sampledata3.jpg" size="36147" user="Main.DonovanSharp" version="1"}%
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%META:FILEATTACHMENT{name="samplingunit.jpg" attr="" autoattached="1" comment="" date="1150944537" path="samplingunit.jpg" size="10520" user="Main.DonovanSharp" version="1"}%
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a163 1
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%META:FILEATTACHMENT{name="samplingunit2.jpg" attr="" autoattached="1" comment="" date="1152154388" path="samplingunit2.jpg" size="38179" user="Main.DonovanSharp" version="1"}%
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@
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1.8
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text
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@d1 1
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a1 1
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%META:TOPICINFO{author="DonovanSharp" date="1152239947" format="1.1" reprev="1.8" version="1.8"}%
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d5 1
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a5 1
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---+++4.5 Sample data
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d7 1
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a7 1
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Raw sample data are recorded here. The analysed and generalized (e. g. using statistical measures) results are normally also reflected under [[SummaryData][<SummaryData>]] (with origin = 'calculated' and <BasedOnSample> referring to a sample ID).
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d9 1
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a9 1
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%ATTACHURL%/sampledata4.jpg
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d11 2
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d82 1
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a82 1
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---++++4.5.1.5 SamplingUnit
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d135 1
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a135 1
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%META:FILEATTACHMENT{name="sampledata4.jpg" attr="" autoattached="1" comment="" date="1152155391" path="sampledata4.jpg" size="30321" user="Main.DonovanSharp" version="1"}%
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d137 1
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@
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1.7
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text
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@d1 1
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a1 1
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%META:TOPICINFO{author="DonovanSharp" date="1152165003" format="1.1" version="1.7"}%
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a7 2
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%ATTACHURL%/sampledata3.jpg
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@
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1.6
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text
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@d1 1
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a1 1
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%META:TOPICINFO{author="DonovanSharp" date="1152155441" format="1.1" reprev="1.6" version="1.6"}%
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d28 5
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d48 5
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d57 5
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d77 5
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d88 5
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d124 5
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@
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1.5
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@d1 1
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a1 1
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%META:TOPICINFO{author="DonovanSharp" date="1152077461" format="1.1" version="1.5"}%
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d9 1
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a9 1
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%ATTACHURL%/sampledata2.jpg
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d11 2
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d66 1
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a66 1
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%ATTACHURL%/samplingunit.jpg
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d103 1
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d105 2
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@
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1.4
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@d1 1
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a1 1
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%META:TOPICINFO{author="DonovanSharp" date="1151029506" format="1.1" reprev="1.4" version="1.4"}%
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d7 1
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a7 1
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Raw sample data are recorded here. The analysed and generalized (e. g. using statistical measures) results are normally also reflected under SummaryData (with origin = 'calculated' and BasedOnSample referring to a sample ID).
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@
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1.3
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@d1 1
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a1 1
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%META:TOPICINFO{author="DonovanSharp" date="1150944537" format="1.1" reprev="1.3" version="1.3"}%
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d26 15
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d43 1
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a43 1
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A point on earth at which the event occurred.
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d45 15
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d100 2
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a101 2
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%META:FILEATTACHMENT{name="sampledata2.jpg" attachment="sampledata2.jpg" attr="" comment="" date="1150873076" path="sampledata2.jpg" size="19199" stream="sampledata2.jpg" user="Main.DonovanSharp" version="1"}%
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%META:FILEATTACHMENT{name="samplingunit.jpg" attachment="samplingunit.jpg" attr="" comment="" date="1150944537" path="samplingunit.jpg" size="10520" stream="samplingunit.jpg" user="Main.DonovanSharp" version="1"}%
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@
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1.2
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@d1 1
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a1 1
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%META:TOPICINFO{author="DonovanSharp" date="1150938539" format="1.1" version="1.2"}%
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d5 1
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a5 1
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---+++4.5 Sample Data
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d11 1
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d13 1
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d15 53
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d71 1
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@
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1.1
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@d1 1
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a1 1
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%META:TOPICINFO{author="DonovanSharp" date="1150873194" format="1.1" reprev="1.1" version="1.1"}%
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d7 1
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d10 1
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@
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