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<!DOCTYPE article PUBLIC "-//NLM//DTD Journal Publishing with OASIS Tables v3.0 20080202//EN" "journalpub-oasis3.dtd">
<article xmlns:xlink="http://www.w3.org/1999/xlink" xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:oasis="http://docs.oasis-open.org/ns/oasis-exchange/table" xml:lang="en" dtd-version="3.0" article-type="research-article"><?xmltex \bartext{Model evaluation paper}?>
  <front>
    <journal-meta><journal-id journal-id-type="publisher">GMD</journal-id><journal-title-group>
    <journal-title>Geoscientific Model Development</journal-title>
    <abbrev-journal-title abbrev-type="publisher">GMD</abbrev-journal-title><abbrev-journal-title abbrev-type="nlm-ta">Geosci. Model Dev.</abbrev-journal-title>
  </journal-title-group><issn pub-type="epub">1991-9603</issn><publisher>
    <publisher-name>Copernicus Publications</publisher-name>
    <publisher-loc>Göttingen, Germany</publisher-loc>
  </publisher></journal-meta>
    <article-meta>
      <article-id pub-id-type="doi">10.5194/gmd-16-2851-2023</article-id><title-group><article-title>An internal solitary wave forecasting model in the northern <?xmltex \hack{\break}?> South China Sea (ISWFM-NSCS)</article-title><alt-title>ISWFM-NSCS</alt-title>
      </title-group><?xmltex \runningtitle{ISWFM-NSCS}?><?xmltex \runningauthor{Y. Gong et al.}?>
      <contrib-group>
        <contrib contrib-type="author" corresp="no" rid="aff1">
          <name><surname>Gong</surname><given-names>Yankun</given-names></name>
          
        </contrib>
        <contrib contrib-type="author" corresp="no" rid="aff2">
          <name><surname>Chen</surname><given-names>Xueen</given-names></name>
          
        </contrib>
        <contrib contrib-type="author" corresp="no" rid="aff1">
          <name><surname>Xu</surname><given-names>Jiexin</given-names></name>
          
        </contrib>
        <contrib contrib-type="author" corresp="no" rid="aff1">
          <name><surname>Xie</surname><given-names>Jieshuo</given-names></name>
          
        </contrib>
        <contrib contrib-type="author" corresp="no" rid="aff1">
          <name><surname>Chen</surname><given-names>Zhiwu</given-names></name>
          
        <ext-link>https://orcid.org/0000-0001-6588-030X</ext-link></contrib>
        <contrib contrib-type="author" corresp="no" rid="aff1">
          <name><surname>He</surname><given-names>Yinghui</given-names></name>
          
        </contrib>
        <contrib contrib-type="author" corresp="yes" rid="aff1 aff3 aff4">
          <name><surname>Cai</surname><given-names>Shuqun</given-names></name>
          <email>caisq@scsio.ac.cn</email>
        </contrib>
        <aff id="aff1"><label>1</label><institution>State Key Laboratory of Tropical Oceanography, South China Sea
Institute of Oceanology, Chinese Academy of Sciences, Guangzhou, 510301,
China</institution>
        </aff>
        <aff id="aff2"><label>2</label><institution>College of Oceanic and Atmospheric Sciences, Ocean University of
China, Qingdao, 266100, China</institution>
        </aff>
        <aff id="aff3"><label>3</label><institution>Institution of South China Sea Ecology and Environmental Engineering, Chinese Academy of Sciences,<?xmltex \hack{\break}?> Guangzhou, 510301, China</institution>
        </aff>
        <aff id="aff4"><label>4</label><institution>College of Earth and Planetary Sciences, University of Chinese Academy of Sciences, Beijing, 100049, China</institution>
        </aff>
      </contrib-group>
      <author-notes><corresp id="corr1">Shuqun Cai (caisq@scsio.ac.cn)</corresp></author-notes><pub-date><day>25</day><month>May</month><year>2023</year></pub-date>
      
      <volume>16</volume>
      <issue>10</issue>
      <fpage>2851</fpage><lpage>2871</lpage>
      <history>
        <date date-type="received"><day>28</day><month>November</month><year>2022</year></date>
           <date date-type="rev-request"><day>9</day><month>January</month><year>2023</year></date>
           <date date-type="rev-recd"><day>25</day><month>April</month><year>2023</year></date>
           <date date-type="accepted"><day>25</day><month>April</month><year>2023</year></date>
      </history>
      <permissions>
        <copyright-statement>Copyright: © 2023 Yankun Gong et al.</copyright-statement>
        <copyright-year>2023</copyright-year>
      <license license-type="open-access"><license-p>This work is licensed under the Creative Commons Attribution 4.0 International License. To view a copy of this licence, visit <ext-link ext-link-type="uri" xlink:href="https://creativecommons.org/licenses/by/4.0/">https://creativecommons.org/licenses/by/4.0/</ext-link></license-p></license></permissions><self-uri xlink:href="https://gmd.copernicus.org/articles/16/2851/2023/gmd-16-2851-2023.html">This article is available from https://gmd.copernicus.org/articles/16/2851/2023/gmd-16-2851-2023.html</self-uri><self-uri xlink:href="https://gmd.copernicus.org/articles/16/2851/2023/gmd-16-2851-2023.pdf">The full text article is available as a PDF file from https://gmd.copernicus.org/articles/16/2851/2023/gmd-16-2851-2023.pdf</self-uri>
      <abstract><title>Abstract</title>

      <p id="d1e161">Internal solitary waves (ISWs) are a ubiquitous
phenomenon in the dynamic ocean system, which play a crucial role in driving
transport through turbulent mixing. Over the past few decades, numerical
modelling has become a vital approach to investigate the generation mechanism
and spatial distribution of ISWs. The northern South China Sea (NSCS) has
been treated as a physical oceanographic focus of ISWs in massive numerical
studies since the last century. However, there has been no systematic evaluation of a reliable three-dimensional (3D) model about accurately reproducing ISW
characteristics in the NSCS. In this study, we implement a 3D ISW
forecasting model in the NSCS and quantitatively evaluate the requirements
of factors (i.e. model resolution, tidal forcing, and stratification
selection) in accurately depicting ISW properties by comparison with
observational data at a mooring station in the vicinity of the Dongsha
Atoll. Firstly, the 500 m resolution model can basically reproduce the
principal ISW characteristics, while the 250 m resolution model would be a
better solution to identify wave properties, specifically increasing 40 %
accuracy of predicting characteristic half-widths. Nonetheless, a 250 m resolution model spends nearly 5-fold the computational resources of a 500 m resolution model in the same model domain. Compared with the former two,
the model with a lower resolution of 1000 m severely underestimates the
nonlinearity of ISWs, resulting in an incorrect ISW field in the NSCS.
Secondly, the model with 8 (or 13) primary tidal constituents can
accurately reproduce the real ISW field in the NSCS, while the one with four
main harmonics (M2, S2, K1 and O1) would underestimate averaged wave-induced
velocity for about 38 % and averaged mode-1 wave amplitude for about
15 %. Thirdly, the model with the initial condition of field-extracted
stratification gives a better performance in predicting some wave properties
than the model with climatological stratification, namely 13 % improvement
of arrival time and 46 % improvement of characteristic half-width.
Finally, background currents, spatially varying stratification and external
(wind) forcing are discussed to reproduce a more realistic ISW field in the
future numerical simulations.</p>
  </abstract>
    
<funding-group>
<award-group id="gs1">
<funding-source>National Natural Science Foundation of China</funding-source>
<award-id>42130404</award-id>
<award-id>91858201</award-id>
<award-id>42206012</award-id>
<award-id>42276015</award-id>
<award-id>42276022</award-id>
<award-id>42176025</award-id>
</award-group>
<award-group id="gs2">
<funding-source>China Postdoctoral Science Foundation</funding-source>
<award-id>2022M713232</award-id>
</award-group>
<award-group id="gs3">
<funding-source>Chinese Academy of Sciences</funding-source>
<award-id>2019336</award-id>
</award-group>
<award-group id="gs4">
<funding-source>South China Sea Institute of Oceanology, Chinese Academy of Sciences</funding-source>
<award-id>NHXX2019WL0201</award-id>
</award-group>
<award-group id="gs5">
<funding-source>Natural Science Foundation of Guangdong Province</funding-source>
<award-id>2020A1515010495</award-id>
<award-id>2021A1515012538</award-id>
<award-id>2021A1515011613</award-id>
</award-group>
</funding-group>
</article-meta>
  </front>
<body>
      

<sec id="Ch1.S1" sec-type="intro">
  <label>1</label><title>Introduction</title>
      <p id="d1e173">Numerical simulations, one of the most important approaches to investigate
internal solitary waves (ISWs) in the world's oceans, have been gradually
developed from two-dimensional (2D, e.g. Du et al., 2008; Buijsman et al.,
2010a) to three-dimensional (3D, e.g. Zhang et al., 2011; Alford et al.,
2015) over the past few decades. The South China Sea (SCS), the largest marginal
sea in the northwest Pacific, has been commonly known as an active region of
ISWs via massive in situ observations (cf. Ramp et al., 2004, 2019; Farmer
et al., 2009, 2011) and number of remote sensing images (cf. Liu and Hsu,
2004; Zheng et al., 2001, 2007). Although the vertical structure and
horizontal distribution on the sea surface of ISWs can be nicely illustrated
by field<?pagebreak page2852?> measurements at sparse sites and satellite images, respectively,
they are still of limited value for telling a complete story of ISWs in the
entire northern SCS (NSCS). Complementary to in situ and remote-sensing
observations, numerical models can give a comprehensive characterization in
the ISW field in the case of realistic initial and boundary conditions. Hence,
we take NSCS as an example to introduce a high-performance ISW forecasting
model and quantitatively evaluate requirements of model configurations
(i.e. resolution, tidal forcing and stratification selection) for
accurately reproducing a real ISW field.</p>
      <p id="d1e176">With the development of higher performance computing facilities, a variety
of 3D realistic numerical models with structured and unstructured grids were
established for simulating ISWs in the NSCS (see Table 1), such as MITgcm
(Vlasenko et al., 2010), SUNTANS (Zhang et al., 2011) and FVCOM (Lai et al.,
2019). Meanwhile, the model capabilities have been continuously improved
(Simmons et al., 2011). Specifically, the model resolution was effectively
enhanced from 250–1000 (<inline-formula><mml:math id="M1" display="inline"><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi>x</mml:mi></mml:mrow></mml:math></inline-formula>–<inline-formula><mml:math id="M2" display="inline"><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi>y</mml:mi></mml:mrow></mml:math></inline-formula>) m (Guo et al., 2011) in a
limited domain to 150–300 m in a large domain including the entire NSCS
(Zeng et al., 2019). From past to present, the barotropic tidal forcing
dataset TOPEX/Poseidon Solution (TPXO; Egbert and Erofeeva, 2002) and
climatological stratification dataset World Ocean Atlas (WOA; Locarnini et
al., 2019) have been updated with higher resolutions both in the horizontal and
vertical, providing more realistic and precise boundary and initial
conditions in the model configurations. Although it is commonly known that a
higher-resolution model can tell a more complete story of ISWs, the usage of
computational resources is worth considering. Thus, what resolution of
model is needed to give an accurate depiction of ISW fields and
simultaneously save the computational cost is still a question.</p>

<?xmltex \floatpos{t}?><table-wrap id="Ch1.T1" specific-use="star"><?xmltex \currentcnt{1}?><label>Table 1</label><caption><p id="d1e202">Summary of previous 3D non-hydrostatic models for internal
solitary waves in the northern South China Sea, which are discussed in the
text. Further details can be found in the references. HARs is the abbreviation for harmonics.</p></caption><oasis:table frame="topbot"><oasis:tgroup cols="5">
     <oasis:colspec colnum="1" colname="col1" align="justify" colwidth="3cm"/>
     <oasis:colspec colnum="2" colname="col2" align="left"/>
     <oasis:colspec colnum="3" colname="col3" align="justify" colwidth="5cm"/>
     <oasis:colspec colnum="4" colname="col4" align="left"/>
     <oasis:colspec colnum="5" colname="col5" align="justify" colwidth="2.5cm"/>
     <oasis:thead>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">References</oasis:entry>
         <oasis:entry colname="col2">Model</oasis:entry>
         <oasis:entry colname="col3">Resolution</oasis:entry>
         <oasis:entry colname="col4">Tidal constituents</oasis:entry>
         <oasis:entry colname="col5">Model domain</oasis:entry>
       </oasis:row>
     </oasis:thead>
     <oasis:tbody>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">Vlasenko et al. (2010) <?xmltex \hack{\hfill\break}?>Guo et al. (2011)</oasis:entry>
         <oasis:entry colname="col2">MITgcm</oasis:entry>
         <oasis:entry colname="col3"><inline-formula><mml:math id="M3" display="inline"><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi>x</mml:mi><mml:mo>=</mml:mo><mml:mn mathvariant="normal">250</mml:mn></mml:mrow></mml:math></inline-formula> m, <inline-formula><mml:math id="M4" display="inline"><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi>y</mml:mi><mml:mo>=</mml:mo><mml:mn mathvariant="normal">1000</mml:mn></mml:mrow></mml:math></inline-formula> m</oasis:entry>
         <oasis:entry colname="col4">8 HARs</oasis:entry>
         <oasis:entry colname="col5">118.0–122.5<inline-formula><mml:math id="M5" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> E <?xmltex \hack{\hfill\break}?>20.0–21.0<inline-formula><mml:math id="M6" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">Zhang et al. (2011)</oasis:entry>
         <oasis:entry colname="col2">SUNTANS</oasis:entry>
         <oasis:entry colname="col3"><inline-formula><mml:math id="M7" display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 1358 m (75–4740 m)</oasis:entry>
         <oasis:entry colname="col4">8 HARs</oasis:entry>
         <oasis:entry colname="col5">115.0–124.0<inline-formula><mml:math id="M8" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> E <?xmltex \hack{\hfill\break}?>18.0–23.0<inline-formula><mml:math id="M9" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">Alford et al. (2015)</oasis:entry>
         <oasis:entry colname="col2">MITgcm</oasis:entry>
         <oasis:entry colname="col3">250 m</oasis:entry>
         <oasis:entry colname="col4">8 HARs</oasis:entry>
         <oasis:entry colname="col5">119.6–122.3<inline-formula><mml:math id="M10" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> E <?xmltex \hack{\hfill\break}?>18.8–21.8<inline-formula><mml:math id="M11" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">Lai et al. (2019)</oasis:entry>
         <oasis:entry colname="col2">FVCOM</oasis:entry>
         <oasis:entry colname="col3"><inline-formula><mml:math id="M12" display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 200–500 m (near the shoreline) <?xmltex \hack{\hfill\break}?> <inline-formula><mml:math id="M13" display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 3 km (shelf-slope region)</oasis:entry>
         <oasis:entry colname="col4">8 HARs</oasis:entry>
         <oasis:entry colname="col5">105.0–130.0<inline-formula><mml:math id="M14" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> E <?xmltex \hack{\hfill\break}?>12.0–30.0<inline-formula><mml:math id="M15" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">Zeng et al. (2019)</oasis:entry>
         <oasis:entry colname="col2">MITgcm</oasis:entry>
         <oasis:entry colname="col3"><inline-formula><mml:math id="M16" display="inline"><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi>x</mml:mi><mml:mo>=</mml:mo><mml:mn mathvariant="normal">150</mml:mn></mml:mrow></mml:math></inline-formula> m, <inline-formula><mml:math id="M17" display="inline"><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi>y</mml:mi><mml:mo>=</mml:mo><mml:mn mathvariant="normal">300</mml:mn></mml:mrow></mml:math></inline-formula> m</oasis:entry>
         <oasis:entry colname="col4">8 HARs</oasis:entry>
         <oasis:entry colname="col5">115.5– 124.5<inline-formula><mml:math id="M18" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> E <?xmltex \hack{\hfill\break}?>17.5– 22.5<inline-formula><mml:math id="M19" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N</oasis:entry>
       </oasis:row>
     </oasis:tbody>
   </oasis:tgroup></oasis:table><?xmltex \gdef\@currentlabel{1}?></table-wrap>

      <p id="d1e513">Even though numbers of previous in situ observations have shown the four
barotropic tidal constituents (M2, K1, O1 and S2) are dominant at the Luzon
Strait (Zhao and Alford, 2006; Farmer et al., 2009), the other barotropic
tidal constituents (e.g. N2, K2, P1 and Q1) are also non-negligible
(Beardsley et al., 2004). Historically, numerical simulations with different
numbers of tidal constituents have been widely employed to investigate the
physical dynamics of ISWs in the NSCS, i.e. single K1 harmonic (Li, 2014),
four tidal harmonics (Buijsman et al., 2010b), and eight primary tidal
harmonics (Alford et al., 2015; Jin et al., 2021). Among these, eight tidal
constituents were most commonly applied in the 3D models. However, other
tidal constituents, such as M4, MS4, MN4, MM and MF, have yet to be
considered. The questions are whether a single tidal constituent can
reproduce a real ISW field, and, if not, how many tidal constituents are
required to run an accurate 3D realistic ISW model.</p>
      <p id="d1e516">Apart from resolution and tidal forcing, stratification selection is also an
important factor in improving model accuracy. A horizontally homogenous
stratification profile was normally implemented as an initial condition in a
3D realistic model (cf. Zhang et al., 2011; Lai et al., 2019). Specifically,
a domain average of the climatological dataset (WOA) is one of the most
common options (Vlasenko et al., 2010; Zeng et al., 2019), since the in situ
observational data are relatively inaccessible. Once the field data at an
isolated mooring station are available, are they a better choice than the
climatological data to be the model's initial condition? What if the mooring
is near-field (in the vicinity of the Luzon Strait, the ISW generation site)
or far-field (e.g. in the deep basin or over the continental slope and
shelf)?</p>
      <p id="d1e519">In this paper, we attempt to introduce a high-performance ISW forecasting
model and evaluate the roles of different resolutions, initial and boundary
conditions in accurately reproducing ISWs via a series of sensitivity 3D
non-hydrostatic numerical simulations. The paper is structured as follows.
In Sect. 2, configurations of the 3D forecasting model are introduced, as
well as the simultaneous remote sensing images and in situ observations. The
model calibrations are presented in Sect. 3. In Sect. 4, we
quantitatively illuminate the requirements of model resolutions, tidal
constituents and initial stratification selection for a reliable 3D ISW
forecasting model. Discussion and conclusions follow in Sect. 5.</p>
</sec>
<sec id="Ch1.S2">
  <label>2</label><title>Data and methods</title>
      <p id="d1e530">To characterize the real ISW field in the NSCS, we implement an ISW
forecasting model (ISWFM-NSCS) and compare the modelled wave properties on
the continental slope with those observed at in situ mooring station DS
(marked as a magenta star in Fig. 1a). Remote sensing images are downloaded
for the model calibration as well.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F1" specific-use="star"><?xmltex \currentcnt{1}?><?xmltex \def\figurename{Figure}?><label>Figure 1</label><caption><p id="d1e535"><bold>(a)</bold> Bathymetry map of model domain in the northern South China Sea
with a mooring station DS (marked as a magenta star) in the vicinity of
Dongsha Atoll and the transects in 2D models, among which Exp.
<italic>2D_500m_8HARs</italic> is in black dashed line, while Exps. <italic>2D_500m_8HARs_005N</italic> and <italic>2D_500m_8HARs_005S</italic> are in red dashed lines. <bold>(b)</bold>
Initial temperature and salinity profiles. <bold>(c)</bold> Density profile. <bold>(d)</bold> Buoyancy
frequency profile. Note the black and red lines in <bold>(b)</bold>–<bold>(d)</bold> represent the data
derived from the WOA18 and in situ observations, respectively.</p></caption>
        <?xmltex \igopts{width=341.433071pt}?><graphic xlink:href="https://gmd.copernicus.org/articles/16/2851/2023/gmd-16-2851-2023-f01.jpg"/>

      </fig>

<sec id="Ch1.S2.SS1">
  <label>2.1</label><title>Numerical modelling</title>
      <p id="d1e578">Although running a 2D slice model is much more economical than running a 3D
model from the perspective of computational resources, the 2D model cannot
correctly reproduce the ISW field in the real ocean (see Appendix A).
Therefore, we implement a realistic 3D non-hydrostatic primitive equation
ocean solver (MIT general circulation model, MITgcm; Marshall et al., 1997)
in the spherical coordinate to reproduce the ISW features in the NSCS. The
model domain (115.8–123.8<inline-formula><mml:math id="M20" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> E, 17.8–22.3<inline-formula><mml:math id="M21" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N; see
blue box in Fig. 1a) includes the main generation site of ISWs (i.e. Luzon
Strait) and the mooring station DS on the continental slope. Bathymetry data
are derived from the global gridded bathymetry dataset GEBCO (<uri>https://www.gebco.net/data_and_products/gridded_bathymetry_data</uri>, last access: 17 May 2023). To keep
consistency with the instrumental deploying period, we start the model
at 00:00 UTC 5 August 2014 and it lasts 15 days. Previous statistical
analyses, based on synthetic aperture radar (SAR) images in the NSCS from 1995 to 2001, also indicated
that ISW occurrence frequencies were relatively high in August (Zheng et
al., 2007).<?pagebreak page2853?> The initial model temperature and salinity profiles (see black
and blue lines in Fig. 1b) are derived from the WOA18 climatology dataset
(World Ocean Atlas 2018, <uri>https://www.ncei.noaa.gov/access/world-ocean-atlas-2018/</uri>, last access: 17 May 2023) by spatially averaging the monthly output in
August, resulting in horizontally uniform conditions. Density and buoyancy
frequency profiles are shown as black lines in Fig. 1c and d.</p>
      <p id="d1e605">To ensure ISWs can be physically derived and consider the computational
efficiency, the horizontal cell (<inline-formula><mml:math id="M22" display="inline"><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi>x</mml:mi></mml:mrow></mml:math></inline-formula>) is set as 500 m in both zonal
and meridional directions. In order to satisfy the high-mode vertical
resolution requirements, 90 vertical layers are spaced in accordance with
the hyperbolic tangent function (Stewart et al., 2017), namely ranging from
5 m near the surface to 120 m near the sea bed (in the deep water). We
impose a time step of <inline-formula><mml:math id="M23" display="inline"><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi>t</mml:mi><mml:mo>=</mml:mo><mml:mn mathvariant="normal">10</mml:mn></mml:mrow></mml:math></inline-formula> s to satisfy the
Courant–Friedrichs–Lewy (CFL) conditions in both the horizontal and vertical.
The Coriolis parameter is varying with latitudes in the entire model domain.
To determine whether the non-hydrostatic mode is necessary, we also run a
hydrostatic model (not shown). It notes that fake internal solitary-like
wave trains, also called spurious non-hydrostatic processes (Álvarez et al.,
2019), are clearly visible at first glance, suggesting that the hydrostatic mode
is inappropriate for a high-resolution model of ISWs. We therefore configure
the model in non-hydrostatic mode.</p>
      <p id="d1e632">The control run (Exp. 1, <italic>500m_8HARs</italic>) is
driven by eight main tidal constituents (M2, S2, N2, K2, K1, O1, P1 and Q1)
on the four open boundaries with values that originated from the Oregon State
University TOPEX/Poseidon Solution (TPXO8-atlas data) with <inline-formula><mml:math id="M24" display="inline"><mml:mrow><mml:mn mathvariant="normal">1</mml:mn><mml:mo>/</mml:mo><mml:mn mathvariant="normal">30</mml:mn></mml:mrow></mml:math></inline-formula><inline-formula><mml:math id="M25" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>
resolution (Egbert and Erofeeva, 2002). A 25 km wide sponge layer is imposed
on each lateral boundary to absorb internal wave energy and avoid wave
reflection back to the inner region. Quasi-steady conditions occur after 3 d (see Appendix B), so the model results are analysed over the remaining
12 d (8–20 August). The sampling rate of model outputs is at a 1 h interval
for the entire model domain in the control run
(<italic>500m_8HARs</italic>) and single-point outputs with
a higher sampling rate of 1 min at the selected station DS for recording the
local ISW properties, and thereby comparing to the in situ observations.
Constant horizontal and vertical eddy viscosity and diffusivity coefficients
are imposed as <inline-formula><mml:math id="M26" display="inline"><mml:mrow><mml:msub><mml:mi>A</mml:mi><mml:mi mathvariant="normal">h</mml:mi></mml:msub><mml:mo>=</mml:mo><mml:mn mathvariant="normal">0.5</mml:mn></mml:mrow></mml:math></inline-formula> m<inline-formula><mml:math id="M27" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msup></mml:math></inline-formula> s<inline-formula><mml:math id="M28" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>, <inline-formula><mml:math id="M29" display="inline"><mml:mrow><mml:msub><mml:mi>A</mml:mi><mml:mi mathvariant="normal">v</mml:mi></mml:msub><mml:mo>=</mml:mo><mml:mn mathvariant="normal">5</mml:mn><mml:mo>×</mml:mo><mml:msup><mml:mn mathvariant="normal">10</mml:mn><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">3</mml:mn></mml:mrow></mml:msup></mml:mrow></mml:math></inline-formula> m<inline-formula><mml:math id="M30" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msup></mml:math></inline-formula> s<inline-formula><mml:math id="M31" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>, <inline-formula><mml:math id="M32" display="inline"><mml:mrow><mml:msub><mml:mi>K</mml:mi><mml:mi mathvariant="normal">h</mml:mi></mml:msub><mml:mo>=</mml:mo><mml:mn mathvariant="normal">0.5</mml:mn></mml:mrow></mml:math></inline-formula> m<inline-formula><mml:math id="M33" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msup></mml:math></inline-formula> s<inline-formula><mml:math id="M34" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> and <inline-formula><mml:math id="M35" display="inline"><mml:mrow><mml:msub><mml:mi>K</mml:mi><mml:mi mathvariant="normal">v</mml:mi></mml:msub><mml:mo>=</mml:mo><mml:mn mathvariant="normal">5</mml:mn><mml:mo>×</mml:mo><mml:msup><mml:mn mathvariant="normal">10</mml:mn><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">3</mml:mn></mml:mrow></mml:msup></mml:mrow></mml:math></inline-formula> m<inline-formula><mml:math id="M36" display="inline"><mml:msup><mml:mi/><mml:mn mathvariant="normal">2</mml:mn></mml:msup></mml:math></inline-formula> s<inline-formula><mml:math id="M37" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> to eliminate grid-scale
instability (Legg and Huijts, 2006). The bottom stresses are parameterized
using a quadratic law with a bottom drag coefficient of <inline-formula><mml:math id="M38" display="inline"><mml:mrow><mml:msub><mml:mi>C</mml:mi><mml:mi mathvariant="normal">d</mml:mi></mml:msub><mml:mo>=</mml:mo><mml:mn mathvariant="normal">2.5</mml:mn><mml:mo>×</mml:mo><mml:msup><mml:mn mathvariant="normal">10</mml:mn><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">3</mml:mn></mml:mrow></mml:msup></mml:mrow></mml:math></inline-formula>.</p>
</sec>
<sec id="Ch1.S2.SS2">
  <label>2.2</label><title>Remote sensing images</title>
      <p id="d1e861">Remote sensing imagery contains lots of detailed information of ISW
properties, including wave crest lines and their arrival time, which was
commonly applied in the NSCS (Liu and Hsu, 2004; Zheng et al., 2007). Here we
download two MODIS true-colour pictures with a horizonal resolution of 250 m
at 05:15 UTC on 14 August and at 02:50 UTC on 15 August 2014, respectively.
In addition, we compute the horizontal gradients of sea surface height
(<inline-formula><mml:math id="M39" display="inline"><mml:mrow><mml:mfenced close="|" open="|"><mml:mrow><mml:mi mathvariant="normal">∇</mml:mi><mml:mi mathvariant="italic">η</mml:mi></mml:mrow></mml:mfenced></mml:mrow></mml:math></inline-formula>, in the unit of cm km<inline-formula><mml:math id="M40" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>), which
detects the variations in surface roughness caused by the ISW-induced
convergent and divergent currents, thereby producing analogous images to the
satellite images. Note that the model is hourly sampled, so we select the
closest snapshots of <inline-formula><mml:math id="M41" display="inline"><mml:mrow><mml:mfenced open="|" close="|"><mml:mrow><mml:mi mathvariant="normal">∇</mml:mi><mml:mi mathvariant="italic">η</mml:mi></mml:mrow></mml:mfenced></mml:mrow></mml:math></inline-formula> at 05:00 UTC on
14 August and at 03:00 UTC on 15 August 2014 to compare with MODIS images.</p>
</sec>
<sec id="Ch1.S2.SS3">
  <label>2.3</label><title>In situ measurements</title>
      <p id="d1e908">The through-water-column mooring station DS (magenta star in Fig. 1a) is
located at 117<inline-formula><mml:math id="M42" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>44.7<inline-formula><mml:math id="M43" display="inline"><mml:msup><mml:mi/><mml:mo>′</mml:mo></mml:msup></mml:math></inline-formula> E, 20<inline-formula><mml:math id="M44" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>44.2<inline-formula><mml:math id="M45" display="inline"><mml:msup><mml:mi/><mml:mo>′</mml:mo></mml:msup></mml:math></inline-formula> N in the vicinity of the Dongsha
Atoll, which was deployed at a water depth of <inline-formula><mml:math id="M46" display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 1250 m from 1 August to 28 September 2014. Three acoustic Doppler current profilers
(ADCPs) measured currents ranging from a depth of 1180 m to the sea surface
every 2 min with 16 m vertical bins in upper 900 and 8 m<?pagebreak page2854?> vertical
bins below 900 m. The mooring was configured by temperature sensors, a
conductivity–temperature–depth (CTD) sensor and conductivity–temperature
(CT) sensors at different water depths. The temperature sensors were at 10, 30, 50, 90, 130, 150, 170, 250, 350, 500, 600, 700,
800, 950, 1050 and 1220 m, respectively; the CTD sensor was at 1100 m; and the CT sensors were at 20, 40, 70, 110, 150, 200, 300,
450, 550, 650, 750, 850, 1000 and 1200 m, respectively.
Temporal sampling rates were 10 s for the temperature and CTD sensors and
15 s for the CT sensors, respectively. The instruments carried by the
moorings generally functioned well, but CT sensors stopped working after 6 September 2014 due to the lack of power. Besides, Xu et al. (2020) indicated
that an anti-cyclonic eddy dominated the region of the mooring starting in
mid-September 2014, which significantly affected the local wave properties
at the DS station. To avoid the impacts of background currents, we selected
15 ISWs during the spring tidal period from 00:00 UTC on 8 August to 00:00 UTC on 15 August as criteria to quantitatively evaluate the performance of
sensitivity numerical experiments.</p>
</sec>
</sec>
<sec id="Ch1.S3">
  <label>3</label><title>Model results and calibrations</title>
      <p id="d1e963">In this section, we validate the model accuracy from three aspects:
barotropic tidal constituents via comparison with the TPXO8-atlas dataset and
in situ observational data, spatial distributions of ISWs via comparison with
the remote-sensing images, and wave properties (i.e. amplitude, arrival<?pagebreak page2855?> time,
wave-induced velocity and propagation direction) of ISWs via comparison with
the in situ observations at mooring station DS.</p>
<sec id="Ch1.S3.SS1">
  <label>3.1</label><title>Barotropic tide calibrations</title>
      <p id="d1e973">The 3D control run only runs for 15 d, which is too short to do the
harmonic analysis. To validate the model accuracy in simulating the
barotropic currents of eight key tidal constituents, we rerun a 3D model
(Exp. 2, <italic>500m_8HARs_BT</italic>) with
the same configurations as <italic>500m_8HARs</italic>, but we
extend the duration time to 100 d and turn off the iteration of
temperature and salinity to focus on the barotropic tide regimes.</p>
      <p id="d1e982">As M2, S2, K1 and O1 barotropic tides are dominant in the NSCS (Ramp et
al., 2004; Farmer et al., 2009), here we calculate the amplitude (<inline-formula><mml:math id="M47" display="inline"><mml:mi>U</mml:mi></mml:math></inline-formula>) and
phase (<inline-formula><mml:math id="M48" display="inline"><mml:mi mathvariant="italic">ϕ</mml:mi></mml:math></inline-formula>) of the zonal velocity (<inline-formula><mml:math id="M49" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold-italic">U</mml:mi><mml:mi mathvariant="normal">bt</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>) by doing
the harmonic analysis over the last 90 d in Exp. 2
(<italic>500m_8HARs_BT</italic>) and compare
them with the TPXO8-atlas dataset. A root-mean-square error (RMSE),
referring to Cummins and Oey (1997), is computed to evaluate the model
performance in the barotropic regime, which is given by
            <disp-formula id="Ch1.E1" content-type="numbered"><label>1</label><mml:math id="M50" display="block"><mml:mrow><mml:msub><mml:mi mathvariant="normal">RMSE</mml:mi><mml:mi mathvariant="normal">h</mml:mi></mml:msub><mml:mo>=</mml:mo><mml:msqrt><mml:mrow><mml:mstyle displaystyle="true"><mml:mfrac style="display"><mml:mn mathvariant="normal">1</mml:mn><mml:mn mathvariant="normal">2</mml:mn></mml:mfrac></mml:mstyle><mml:mfenced close="]" open="["><mml:mrow><mml:mfenced close=")" open="("><mml:mrow><mml:msubsup><mml:mi>U</mml:mi><mml:mi mathvariant="normal">m</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msubsup><mml:mo>+</mml:mo><mml:msubsup><mml:mi>U</mml:mi><mml:mi mathvariant="normal">o</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msubsup></mml:mrow></mml:mfenced><mml:mo>-</mml:mo><mml:msub><mml:mi>U</mml:mi><mml:mi mathvariant="normal">m</mml:mi></mml:msub><mml:msub><mml:mi>U</mml:mi><mml:mi mathvariant="normal">o</mml:mi></mml:msub><mml:mi>cos⁡</mml:mi><mml:mo>(</mml:mo><mml:msub><mml:mi mathvariant="italic">ϕ</mml:mi><mml:mi mathvariant="normal">m</mml:mi></mml:msub><mml:mo>-</mml:mo><mml:msub><mml:mi mathvariant="italic">ϕ</mml:mi><mml:mi mathvariant="normal">o</mml:mi></mml:msub><mml:mo>)</mml:mo></mml:mrow></mml:mfenced></mml:mrow></mml:msqrt><mml:mo>,</mml:mo></mml:mrow></mml:math></disp-formula>
          in which subscript <inline-formula><mml:math id="M51" display="inline"><mml:mi>h</mml:mi></mml:math></inline-formula> represents four different harmonics; <inline-formula><mml:math id="M52" display="inline"><mml:mi>U</mml:mi></mml:math></inline-formula> and <inline-formula><mml:math id="M53" display="inline"><mml:mi mathvariant="italic">ϕ</mml:mi></mml:math></inline-formula>
are amplitude and phase of zonal barotropic currents with the subscripts <inline-formula><mml:math id="M54" display="inline"><mml:mi>m</mml:mi></mml:math></inline-formula>
for model and <inline-formula><mml:math id="M55" display="inline"><mml:mi>o</mml:mi></mml:math></inline-formula> for observation (TPXO8-atlas). We therefore obtain the
horizontal distributions of RMSE for four tidal constituents (see Fig. 2a–d). In most model domains, RMSE is less than 0.02 m s<inline-formula><mml:math id="M56" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> but
slightly more in the shallow water (e.g. Luzon Strait and the continental
shelf), which is still less than 0.2 m s<inline-formula><mml:math id="M57" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>. It may be because the
bathymetry derived from the GEBCO dataset and resolutions in our model
differ from those in the TPXO8-atlas, thereby resulting in the discrepancy.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F2" specific-use="star"><?xmltex \currentcnt{2}?><?xmltex \def\figurename{Figure}?><label>Figure 2</label><caption><p id="d1e1149">Absolute root-mean-square errors of zonal barotropic velocity
(<inline-formula><mml:math id="M58" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="bold-italic">U</mml:mi><mml:mi mathvariant="normal">bt</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>) between the model (500m_8HARs_BT) and the TPXO8-atlas dataset for M2 <bold>(a)</bold>, S2 <bold>(b)</bold>, K1
<bold>(c)</bold>, and O1 <bold>(d)</bold>. <bold>(e)</bold> Reconstructed time series of zonal barotropic velocity
at station DS (marked as magenta star in Fig. 2a) of Exp.
<italic>500m_8HARs_BT</italic> (black line) versus measured data (red line) obtained by eight key tidal
constituents.</p></caption>
          <?xmltex \igopts{width=426.791339pt}?><graphic xlink:href="https://gmd.copernicus.org/articles/16/2851/2023/gmd-16-2851-2023-f02.jpg"/>

        </fig>

      <p id="d1e1189">In addition to comparison between this model and the global tide model, we
extract the DS station outputs with a high sampling rate for comparison with
the in situ observations. To avoid the effects of massive high-frequency
motions (i.e. environmental noises) in the observational time series on the
barotropic regime, we first do the harmonic analysis for zonal barotropic
velocities from 5 August to 19 September, then extract the amplitude and
phase of eight key tidal constituents, and restructure the time series (see
red line in Fig. 2e). In terms of the model results, we obtain the time
series at station DS in the same way (see black line in Fig. 2e). It is
worth mentioning that the discrepancy between the eight-harmonic
restructured time series and the raw data in the model is small, since the
experiment is basically driven by the eight tidal constituents and does not
include any affects from the background environment. By comparing the two
time series, the model reliability is validated all through the spring and
neap tides. Overall, the model presents nice performance in the barotropic
regime.</p>
</sec>
<sec id="Ch1.S3.SS2">
  <label>3.2</label><title>Comparison with MODIS images</title>
      <p id="d1e1200">Apart from the model validation in barotropic tides, we then look over the
control run (<italic>500m_8HARs</italic>) in baroclinic
(ISWs) regime by comparing the model results with MODIS images. Figure 3a and
b both show two successive ISWs (labelled as IW1 and IW2) in the deep basin
with a distance of <inline-formula><mml:math id="M59" display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 120 km. The lengths, curvatures and
locations of IW1 and IW2 in the simulation are consistent with those in the
MODIS image. However, two other ISWs occurring over the continental slope
and shelf are captured in the numerical simulations, but they are not observed on 14 August in the MODIS–Aqua image due to cloud cover (Fig. 3b).
Conversely, the cloud disappeared on 15 August, so the MODIS–Terra sensor
gives a clear seascape painting of ISWs both in the shallow water (i.e.
IW2) and deep water (i.e. IW3 and IW4). Note that IW2 in Fig. 3b and d
is the same ISW, which propagates <inline-formula><mml:math id="M60" display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 250 km within 19 h
and 35 min. All ISWs (IW2, IW3 and IW4) in Fig. 3c and d occur at the
fairly close locations with analogous wave properties. From the perspective
of crest-line lengths, the numerical model shows good agreement with the
MODIS images, namely 131 km versus 133 km for IW2 in Fig. 3a and b, 187 km
versus 198 km for IW3, and 74 km versus 69 km for IW4 in Fig. 3c and d.
Note that the sea surface gradients (<inline-formula><mml:math id="M61" display="inline"><mml:mrow><mml:mfenced close="|" open="|"><mml:mrow><mml:mi mathvariant="normal">∇</mml:mi><mml:mi mathvariant="italic">η</mml:mi></mml:mrow></mml:mfenced></mml:mrow></mml:math></inline-formula>) larger
than 2 cm km<inline-formula><mml:math id="M62" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> along the crest lines are extracted and defined as the
crest-line lengths of ISWs. Besides, in the water depth shallower than 500 m, the modelled IW2 exhibits an ISW train with trailing waves, which is also
shown in the MODIS image. As the model neglects wind above the sea surface
and other marine dynamical processes, there are still some subtle nuances of
wave characteristics between them. Overall, this model nicely demonstrates
spatial distributions of ISWs in the NSCS, based on the comparison with
remote sensing imagery.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F3" specific-use="star"><?xmltex \currentcnt{3}?><?xmltex \def\figurename{Figure}?><label>Figure 3</label><caption><p id="d1e1246"><bold>(a)</bold> Sea surface height gradients induced by internal solitary
waves (ISWs) at 05:00 UTC on 14 August 2014 and <bold>(b)</bold> MODIS–Aqua image
obtained at 05:15 UTC on 14 August 2014. <bold>(c)</bold> Same as <bold>(a)</bold> but at 03:00 UTC on
15 August 2014. <bold>(d)</bold> Same as <bold>(b)</bold> but for MODIS–Terra at 02:50 UTC on 15 August 2014. Note that the MODIS images in <bold>(b)</bold> and <bold>(d)</bold> are freely downloaded
from the NASA Worldview application (<uri>https://worldview.earthdata.nasa.gov</uri>, last access: 17 May 2023, open source).</p></caption>
          <?xmltex \igopts{width=426.791339pt}?><graphic xlink:href="https://gmd.copernicus.org/articles/16/2851/2023/gmd-16-2851-2023-f03.jpg"/>

        </fig>

</sec>
<sec id="Ch1.S3.SS3">
  <label>3.3</label><title>Comparison with in situ observations</title>
      <p id="d1e1290">To further evaluate the model performance in reproducing ISWs, we introduce
the in situ observations. The vertical structure and timing of the wave
arrivals, after crossing the deep basin, can be seen in details using daily
plots (Fig. 4a–g) of the temperature isotherms and baroclinic
(ISW-induced) velocities from 8 to 14 August at mooring DS. For clarity,
only the results in upper 900 m are shown in Fig. 4, including the main
wave-induced temperature fluctuations. On the basis of space–time diagram of
isopycnal displacements along the main propagation paths of ISWs (not
shown), the averaged nonlinear internal wave speeds are <inline-formula><mml:math id="M63" display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 3.0 m s<inline-formula><mml:math id="M64" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> from the Luzon Strait to the deep basin, so it takes roughly 1.5 d for ISWs to propagate from the generation site to the targeted station
(DS). We move the arrival time (i.e. 00:00 UTC 8 August –00:00 UTC 14 August) of ISWs 1.5 d forward at the station DS, so the related
barotropic tides gradually increase during the spring tidal cycle at the
Luzon Strait<?pagebreak page2856?> (i.e. 12:00 UTC 6 August–12:00 UTC 12 August). It explains
why ISWs were relatively weak and linear from 8 to 10 August (Fig. 4a–c), but they became significant and nonlinear from 11 to 14 August (Fig. 4d–g). A single ISW was captured around 12:00 UTC from 11 to 14 August, which
arrived at the location at approximately the same time every day (termed as
type-A ISWs by Ramp et al., 2004). Meanwhile, a wave train, consisting of
two dominant solitons and some small trailing waves, arrived at the station
an hour later each day, showing the same wave characteristics as type-B ISWs
in Ramp et al. (2004).</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F4" specific-use="star"><?xmltex \currentcnt{4}?><?xmltex \def\figurename{Figure}?><label>Figure 4</label><caption><p id="d1e1314"><bold>(a–g)</bold> Temperature isotherms (contours) and baroclinic
velocities (shades) in the wave propagation direction from 8 to 14 August at station DS from in situ observation. <bold>(h)</bold>–<bold>(n)</bold> Same as <bold>(a)</bold>–<bold>(g)</bold> but
for the model (<italic>500m_8HARs</italic>). Red arrows
indicate ISWs that model captured, while blue arrows present the missed
ones.</p></caption>
          <?xmltex \igopts{width=398.338583pt}?><graphic xlink:href="https://gmd.copernicus.org/articles/16/2851/2023/gmd-16-2851-2023-f04.jpg"/>

        </fig>

      <p id="d1e1340">In terms of the model, we also use the daily plots (Fig. 4h–n) at
station DS with 1 min sampling rate to show its similarity to the in situ
observations. An increasing trend of wave amplitude and nonlinearity is
obvious from 8 August to 14 August in the model results, suggesting precise
depictions of barotropic tides and ISWs' characteristics. Specifically, both
type-A (single solitons) and type-B ISWs (wave trains) are displayed with
analogous arrival time, wave-induced (baroclinic) velocity (colour shades in
Fig. 4) and wave amplitude (contours in Fig. 4) compared to those in the
observations. It's worth noting that even the linear internal tides and/or
hydraulic jumps around 12:00 UTC from 8 to 10 August are reproduced.
Although the model omits some small wave signals (see blue arrows in Fig. 4e) in the observations, which might be induced by non-tidal processes such
as background currents, the model still shows a good performance in the ISW
reproduction.</p>
      <p id="d1e1344">To quantitatively identify the model accuracy, we select 15 ISWs
(marked as red arrows in the left column of Fig. 4), extract their wave
properties (i.e. arrival time, maximum wave-induced velocity, propagation
direction and maximum mode-1 wave amplitude), and compare them between in situ
observations and numerical simulations. We obtain wave propagation direction
by computing the angle of baroclinic zonal and meridional components in the
layer with maximum velocity. The maximum mode-1 wave amplitude (<inline-formula><mml:math id="M65" display="inline"><mml:mrow><mml:msub><mml:mi>A</mml:mi><mml:mn mathvariant="normal">1</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>) is
extracted<?pagebreak page2857?> from the mooring data and model outputs by least-squares fitting
density perturbation profiles <inline-formula><mml:math id="M66" display="inline"><mml:mrow><mml:msup><mml:mi mathvariant="italic">ρ</mml:mi><mml:mo>′</mml:mo></mml:msup><mml:mo>(</mml:mo><mml:mi>z</mml:mi><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula> to normalized modal structure
function <inline-formula><mml:math id="M67" display="inline"><mml:mrow><mml:msub><mml:mi>W</mml:mi><mml:mi mathvariant="normal">n</mml:mi></mml:msub><mml:mo>(</mml:mo><mml:mi>z</mml:mi><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>, following the similar procedures to those described by
Buijsman et al. (2010a) and Rayson et al. (2012). Although the mode-1 wave
amplitude can also be extracted by least squares fitting the horizontal
baroclinic velocity, Rayson et al. (2019) suggested that the method in
velocity field was fuzzy with unidirectional internal waves. The modal
structure function can be resolved by a shear-free Taylor–Goldstein equation
with the background stratification <inline-formula><mml:math id="M68" display="inline"><mml:mrow><mml:msup><mml:mi>N</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msup><mml:mo>(</mml:mo><mml:mi>z</mml:mi><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>, which is given by
            <disp-formula id="Ch1.E2" content-type="numbered"><label>2</label><mml:math id="M69" display="block"><mml:mrow><mml:mstyle displaystyle="true"><mml:mfrac style="display"><mml:mrow><mml:msup><mml:mi>d</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msup><mml:msub><mml:mi>W</mml:mi><mml:mi mathvariant="normal">n</mml:mi></mml:msub><mml:mo>(</mml:mo><mml:mi>z</mml:mi><mml:mo>)</mml:mo></mml:mrow><mml:mrow><mml:mi mathvariant="normal">d</mml:mi><mml:msup><mml:mi>z</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msup></mml:mrow></mml:mfrac></mml:mstyle><mml:mo>+</mml:mo><mml:mstyle displaystyle="true"><mml:mfrac style="display"><mml:mrow><mml:msup><mml:mi>N</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msup><mml:mfenced close=")" open="("><mml:mi>z</mml:mi></mml:mfenced></mml:mrow><mml:mrow><mml:msub><mml:mi>c</mml:mi><mml:mi>n</mml:mi></mml:msub></mml:mrow></mml:mfrac></mml:mstyle><mml:msub><mml:mi>W</mml:mi><mml:mi mathvariant="normal">n</mml:mi></mml:msub><mml:mfenced close=")" open="("><mml:mi>z</mml:mi></mml:mfenced><mml:mo>=</mml:mo><mml:mn mathvariant="normal">0</mml:mn><mml:mo>,</mml:mo></mml:mrow></mml:math></disp-formula>
          with the boundary conditions <inline-formula><mml:math id="M70" display="inline"><mml:mrow><mml:msub><mml:mi>W</mml:mi><mml:mi mathvariant="normal">n</mml:mi></mml:msub><mml:mfenced open="(" close=")"><mml:mn mathvariant="normal">0</mml:mn></mml:mfenced><mml:mo>=</mml:mo><mml:msub><mml:mi>W</mml:mi><mml:mi mathvariant="normal">n</mml:mi></mml:msub><mml:mfenced close=")" open="("><mml:mrow><mml:mo>-</mml:mo><mml:mi>H</mml:mi></mml:mrow></mml:mfenced><mml:mo>=</mml:mo><mml:mn mathvariant="normal">0</mml:mn></mml:mrow></mml:math></inline-formula>. Subscript <inline-formula><mml:math id="M71" display="inline"><mml:mi>n</mml:mi></mml:math></inline-formula> represents the mode number and <inline-formula><mml:math id="M72" display="inline"><mml:mrow><mml:msub><mml:mi>c</mml:mi><mml:mi>n</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> is the
phase speed of the linear internal waves in <inline-formula><mml:math id="M73" display="inline"><mml:mi>n</mml:mi></mml:math></inline-formula>th mode. The buoyancy
perturbation <inline-formula><mml:math id="M74" display="inline"><mml:mrow><mml:mi>b</mml:mi><mml:mo>(</mml:mo><mml:mi>z</mml:mi><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>, depending on density perturbation <inline-formula><mml:math id="M75" display="inline"><mml:mrow><mml:msup><mml:mi mathvariant="italic">ρ</mml:mi><mml:mo>′</mml:mo></mml:msup><mml:mo>(</mml:mo><mml:mi>z</mml:mi><mml:mo>)</mml:mo></mml:mrow></mml:math></inline-formula>, is
written as
            <disp-formula id="Ch1.E3" content-type="numbered"><label>3</label><mml:math id="M76" display="block"><mml:mrow><mml:mi>b</mml:mi><mml:mfenced open="(" close=")"><mml:mi>z</mml:mi></mml:mfenced><mml:mo>=</mml:mo><mml:mo>-</mml:mo><mml:mi>g</mml:mi><mml:mstyle displaystyle="true"><mml:mfrac style="display"><mml:mrow><mml:msup><mml:mi mathvariant="italic">ρ</mml:mi><mml:mo>′</mml:mo></mml:msup><mml:mfenced close=")" open="("><mml:mi>z</mml:mi></mml:mfenced></mml:mrow><mml:mrow><mml:msub><mml:mi mathvariant="italic">ρ</mml:mi><mml:mn mathvariant="normal">0</mml:mn></mml:msub></mml:mrow></mml:mfrac></mml:mstyle><mml:mo>,</mml:mo></mml:mrow></mml:math></disp-formula>
          in which <inline-formula><mml:math id="M77" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="italic">ρ</mml:mi><mml:mn mathvariant="normal">0</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula> is the reference density. Following the internal wave
polarization relationships (Gerkema and Zimmerman, 2008), we fit the wave
amplitudes (<inline-formula><mml:math id="M78" display="inline"><mml:mrow><mml:msub><mml:mi>A</mml:mi><mml:mi mathvariant="normal">n</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>) in different vertical modes to <inline-formula><mml:math id="M79" display="inline"><mml:mrow><mml:mi>b</mml:mi><mml:mfenced close=")" open="("><mml:mi>z</mml:mi></mml:mfenced></mml:mrow></mml:math></inline-formula> in
both in situ observations and numerical simulations via
            <disp-formula id="Ch1.E4" content-type="numbered"><label>4</label><mml:math id="M80" display="block"><mml:mrow><mml:mi>b</mml:mi><mml:mfenced open="(" close=")"><mml:mi>z</mml:mi></mml:mfenced><mml:mo>=</mml:mo><mml:munderover><mml:mo movablelimits="false">∑</mml:mo><mml:mrow><mml:mi>n</mml:mi><mml:mo>=</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow><mml:mn mathvariant="normal">5</mml:mn></mml:munderover><mml:msub><mml:mi>A</mml:mi><mml:mi mathvariant="normal">n</mml:mi></mml:msub><mml:msup><mml:mi>N</mml:mi><mml:mn mathvariant="normal">2</mml:mn></mml:msup><mml:mfenced close=")" open="("><mml:mi>z</mml:mi></mml:mfenced><mml:msub><mml:mi>W</mml:mi><mml:mi mathvariant="normal">n</mml:mi></mml:msub><mml:mo>(</mml:mo><mml:mi>z</mml:mi><mml:mo>)</mml:mo><mml:mo>.</mml:mo></mml:mrow></mml:math></disp-formula>
          Here, we select the first five vertical modes (<inline-formula><mml:math id="M81" display="inline"><mml:mrow><mml:mi>n</mml:mi><mml:mo>=</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:math></inline-formula>–5) to do the least-squares fitting and mainly discuss the mode-1 wave amplitude (<inline-formula><mml:math id="M82" display="inline"><mml:mrow><mml:msub><mml:mi>A</mml:mi><mml:mn mathvariant="normal">1</mml:mn></mml:msub></mml:mrow></mml:math></inline-formula>) due
to its significant dominance (Fig. 4).</p>
      <?pagebreak page2858?><p id="d1e1709">According to the above approaches, we extract the four wave properties for
15 ISWs and plot Fig. 5, in which observation and model results are
shown in red and green, respectively. First, we list the arrival time of
ISWs on the two sides of Fig. 5. The bias between observation and model is
always smaller than 1.5 h, and the root mean square deviation (RMSD) is 0.71 h, indicating accurate depiction of ISW arrival time in the control run
(<italic>500m_8HARs</italic>). Second, the maximum
baroclinic velocity (Fig. 5a) and the averaged values (0.98 and
1.18 m s<inline-formula><mml:math id="M83" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>, respectively) are shown in the solid lines. It is suggested
that the model underestimates the baroclinic velocity due to neglect of some
background non-tidal signals, thereby introducing a RMSD of 0.41 m s<inline-formula><mml:math id="M84" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>.
Third, the averaged propagation directions of ISWs are <inline-formula><mml:math id="M85" display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 285 and <inline-formula><mml:math id="M86" display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 291<inline-formula><mml:math id="M87" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>, respectively
(the angle measured anticlockwise from north) in the model results and
observational data with a RMSD of 8.35<inline-formula><mml:math id="M88" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>. It is worth mentioning that
the type-A ISWs mainly propagate westward, while the type-B ISWs propagate
north-westward in both observation and model, verifying the model's
reliability to some extent. Finally, the averaged maximum mode-1 wave
amplitude (<inline-formula><mml:math id="M89" display="inline"><mml:mo lspace="0mm">∼</mml:mo></mml:math></inline-formula> 108 m) in the model is close to that
(<inline-formula><mml:math id="M90" display="inline"><mml:mo lspace="0mm">∼</mml:mo></mml:math></inline-formula> 99 m) in the observation. Nonetheless, the RMSD of mode-1
wave amplitude is 37.27 m. Overall, the control run can basically reproduce
various wave properties of ISWs observed in the vicinity of the Dongsha
Atoll in the NSCS.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F5" specific-use="star"><?xmltex \currentcnt{5}?><?xmltex \def\figurename{Figure}?><label>Figure 5</label><caption><p id="d1e1788">Maximum wave-induced velocities <bold>(a)</bold>, propagation
directions <bold>(b)</bold> and maximum mode-1 wave amplitudes <bold>(c)</bold> of 15 ISWs at
station DS from in situ observations (red circles) and numerical models
(green triangles). Averaged values are shown by solid lines.</p></caption>
          <?xmltex \igopts{width=398.338583pt}?><graphic xlink:href="https://gmd.copernicus.org/articles/16/2851/2023/gmd-16-2851-2023-f05.png"/>

        </fig>

</sec>
</sec>
<sec id="Ch1.S4">
  <label>4</label><title>Assessment of factors affecting 3D model forecasting precision</title>
      <p id="d1e1815">In this section, based on the control run, we alter the model
configurations, such as the requirements of horizontal resolutions, numbers
of tidal constituents and initial stratification, to respectively estimate
their effects on the model forecasting precision of ISWs in the NSCS.</p>
      <p id="d1e1818">To determine the roles of model horizontal resolutions, tidal constituents
and initial stratification in reproducing ISWs in the NSCS, a set of 3D
sensitivity numerical simulations are employed with different
configurations, which are listed in Table 2. Details in configuration
changes are as follows.
<list list-type="order"><list-item>
      <p id="d1e1823">Exps. 3 and 4 (<italic>250m_8HARs</italic> and
<italic>1000m_8HARs</italic>). Compared to
<italic>500m_8HARs</italic>, the horizontal resolution
(<inline-formula><mml:math id="M91" display="inline"><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi>x</mml:mi></mml:mrow></mml:math></inline-formula>) is set as 250 and 1000 m in both zonal and meridional
directions, respectively.</p></list-item><list-item>
      <?pagebreak page2859?><p id="d1e1846">Exps. 5–7 (<italic>500m_1HAR</italic>,
<italic>500m_4HARs</italic>, and
<italic>500m_13HARs</italic>). Compared to
<italic>500m_8HARs</italic>, the sensitivity experiments are
driven by a single tidal constituent (M2), four main tidal constituents (M2,
S2, K1 and O1), and 13 tidal constituents (M2, S2, N2, K2, K1, O1,
P1, Q1, M4, MS4, MN4, MM and MF), respectively.</p></list-item><list-item>
      <p id="d1e1862">Exp. 8 (<italic>500m_Real_N2</italic>). A
real stratification profile of background temperature at the mooring station
DS is imposed as the initial condition, which is derived from the in situ
measurements. A backward-in-time low-pass filter derived from a finite
impulse response differential equation is used to compute the background
temperature (Rayson et al., 2019).<disp-formula id="Ch1.E5" content-type="numbered"><label>5</label><mml:math id="M92" display="block"><mml:mrow><mml:mstyle displaystyle="true"><mml:mfrac style="display"><mml:mrow><mml:mi mathvariant="normal">d</mml:mi><mml:mover accent="true"><mml:mi>T</mml:mi><mml:mo mathvariant="normal">‾</mml:mo></mml:mover></mml:mrow><mml:mrow><mml:mi mathvariant="normal">d</mml:mi><mml:mi>t</mml:mi></mml:mrow></mml:mfrac></mml:mstyle><mml:mo>=</mml:mo><mml:mstyle displaystyle="true"><mml:mfrac style="display"><mml:mn mathvariant="normal">1</mml:mn><mml:mrow><mml:msub><mml:mi mathvariant="italic">τ</mml:mi><mml:mi mathvariant="normal">f</mml:mi></mml:msub></mml:mrow></mml:mfrac></mml:mstyle><mml:mfenced close=")" open="("><mml:mrow><mml:mi>T</mml:mi><mml:mo>-</mml:mo><mml:mover accent="true"><mml:mi>T</mml:mi><mml:mo mathvariant="normal">‾</mml:mo></mml:mover></mml:mrow></mml:mfenced><mml:mo>,</mml:mo></mml:mrow></mml:math></disp-formula>in which <inline-formula><mml:math id="M93" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="italic">τ</mml:mi><mml:mi mathvariant="normal">f</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> is the filtering timescale, set to 35 h,
corresponding to the local Coriolis frequency. <inline-formula><mml:math id="M94" display="inline"><mml:mi>T</mml:mi></mml:math></inline-formula> and <inline-formula><mml:math id="M95" display="inline"><mml:mover accent="true"><mml:mi>T</mml:mi><mml:mo mathvariant="normal">‾</mml:mo></mml:mover></mml:math></inline-formula> are the
instantaneous and background temperature, respectively. Then, the background
temperature at each observational time step <inline-formula><mml:math id="M96" display="inline"><mml:mi>i</mml:mi></mml:math></inline-formula> is given as<disp-formula id="Ch1.E6" content-type="numbered"><label>6</label><mml:math id="M97" display="block"><mml:mrow><mml:msup><mml:mover accent="true"><mml:mi>T</mml:mi><mml:mo mathvariant="normal">‾</mml:mo></mml:mover><mml:mrow><mml:mi>i</mml:mi><mml:mo>+</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup><mml:mo>=</mml:mo><mml:msup><mml:mover accent="true"><mml:mi>T</mml:mi><mml:mo mathvariant="normal">‾</mml:mo></mml:mover><mml:mi>i</mml:mi></mml:msup><mml:mo>+</mml:mo><mml:mstyle displaystyle="true"><mml:mfrac style="display"><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi>t</mml:mi></mml:mrow><mml:mrow><mml:msub><mml:mi mathvariant="italic">τ</mml:mi><mml:mi mathvariant="normal">f</mml:mi></mml:msub></mml:mrow></mml:mfrac></mml:mstyle><mml:mo>(</mml:mo><mml:msup><mml:mi>T</mml:mi><mml:mrow><mml:mi>i</mml:mi><mml:mo>+</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup><mml:mo>-</mml:mo><mml:msup><mml:mover accent="true"><mml:mi>T</mml:mi><mml:mo mathvariant="normal">‾</mml:mo></mml:mover><mml:mi>i</mml:mi></mml:msup><mml:mo>)</mml:mo><mml:mo>,</mml:mo></mml:mrow></mml:math></disp-formula>where <inline-formula><mml:math id="M98" display="inline"><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi>t</mml:mi></mml:mrow></mml:math></inline-formula> is the sampling rate (10 s for the temperature and CTD
sensors, 15 s for the CT sensors). The background temperature profile is
ultimately obtained by low-pass filtering at each layer (see red line in
Fig. 1b).</p></list-item></list></p>

<?xmltex \floatpos{t}?><table-wrap id="Ch1.T2" specific-use="star"><?xmltex \currentcnt{2}?><label>Table 2</label><caption><p id="d1e2033">Summary of all experimental configurations.</p></caption><oasis:table frame="topbot"><oasis:tgroup cols="5">
     <oasis:colspec colnum="1" colname="col1" align="left"/>
     <oasis:colspec colnum="2" colname="col2" align="left"/>
     <oasis:colspec colnum="3" colname="col3" align="left"/>
     <oasis:colspec colnum="4" colname="col4" align="justify" colwidth="4cm"/>
     <oasis:colspec colnum="5" colname="col5" align="left"/>
     <oasis:thead>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">No.</oasis:entry>
         <oasis:entry colname="col2">Experiment name</oasis:entry>
         <oasis:entry colname="col3">Grid spacing</oasis:entry>
         <oasis:entry colname="col4">Tidal forcing</oasis:entry>
         <oasis:entry colname="col5">Stratification</oasis:entry>
       </oasis:row>
     </oasis:thead>
     <oasis:tbody>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">1</oasis:entry>
         <oasis:entry colname="col2"><italic>500m_8HARs</italic></oasis:entry>
         <oasis:entry colname="col3">500 m</oasis:entry>
         <oasis:entry colname="col4">8 HARs <?xmltex \hack{\hfill\break}?>(M2, S2, N2, K2, K1, O1, P1, Q1)</oasis:entry>
         <oasis:entry colname="col5">WOA18</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">2</oasis:entry>
         <oasis:entry colname="col2"><italic>500m_8HARs_BT</italic></oasis:entry>
         <oasis:entry colname="col3">500 m</oasis:entry>
         <oasis:entry colname="col4">8 HARs</oasis:entry>
         <oasis:entry colname="col5">–</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">3</oasis:entry>
         <oasis:entry colname="col2"><italic>250m_8HARs</italic></oasis:entry>
         <oasis:entry colname="col3">250 m</oasis:entry>
         <oasis:entry colname="col4">8 HARs</oasis:entry>
         <oasis:entry colname="col5">WOA18</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">4</oasis:entry>
         <oasis:entry colname="col2"><italic>1000m_8HARs</italic></oasis:entry>
         <oasis:entry colname="col3">1000 m</oasis:entry>
         <oasis:entry colname="col4">8 HARs</oasis:entry>
         <oasis:entry colname="col5">WOA18</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">5</oasis:entry>
         <oasis:entry colname="col2"><italic>500m_1HAR</italic></oasis:entry>
         <oasis:entry colname="col3">500 m</oasis:entry>
         <oasis:entry colname="col4">1 HAR (M2)</oasis:entry>
         <oasis:entry colname="col5">WOA18</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">6</oasis:entry>
         <oasis:entry colname="col2"><italic>500m_4HARs</italic></oasis:entry>
         <oasis:entry colname="col3">500 m</oasis:entry>
         <oasis:entry colname="col4">4 HARs <?xmltex \hack{\hfill\break}?>(M2, S2, K1, O1)</oasis:entry>
         <oasis:entry colname="col5">WOA18</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1">7</oasis:entry>
         <oasis:entry colname="col2"><italic>500m_13HARs</italic></oasis:entry>
         <oasis:entry colname="col3">500 m</oasis:entry>
         <oasis:entry colname="col4">13 HARs <?xmltex \hack{\hfill\break}?>(M2, S2, N2, K2, K1, O1, P1, Q1, M4, MS4, MN4, MM, MF)</oasis:entry>
         <oasis:entry colname="col5">WOA18</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">8</oasis:entry>
         <oasis:entry colname="col2"><italic>500m_Real_N2</italic></oasis:entry>
         <oasis:entry colname="col3">500 m</oasis:entry>
         <oasis:entry colname="col4">8 HARs</oasis:entry>
         <oasis:entry colname="col5">DS Station</oasis:entry>
       </oasis:row>
     </oasis:tbody>
   </oasis:tgroup></oasis:table><?xmltex \gdef\@currentlabel{2}?></table-wrap>

<sec id="Ch1.S4.SS1">
  <label>4.1</label><title>Requirements of resolutions</title>
      <p id="d1e2243">Various 3D models with different resolutions were implemented to simulate
ISWs in the NSCS in previous studies (e.g. Vlasenko et al., 2010; Zhang et
al., 2011; Lai et al., 2019). However, which resolution is adequate to
satisfy the ISW prediction precision and save computational resources to the
utmost in the meantime has yet to be discussed. Here, we run two sensitivity
experiments (Exps. <italic>250m_8HARs</italic> and
<italic>1000m_8HARs</italic>) with horizonal resolutions of
250 and 1000 m, to respectively compare the model performance in different
aspects with the control run (resolution of 500 m).</p>
      <p id="d1e2252">First, the spatial distributions of ISWs are exhibited via the snapshots of
sea surface height gradients (<inline-formula><mml:math id="M99" display="inline"><mml:mrow><mml:mfenced close="|" open="|"><mml:mrow><mml:mi mathvariant="normal">∇</mml:mi><mml:mi mathvariant="italic">η</mml:mi></mml:mrow></mml:mfenced></mml:mrow></mml:math></inline-formula>) at
12:00 UTC on 12 August 2014. In the control run
(<italic>500m_8HARs</italic>), three ISWs (labelled as IWB1,
IWA1, and IWB2 from west to east) with distinct crest lines successively
occur between 116 and 120<inline-formula><mml:math id="M100" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> E (see Fig. 6a), in which IWB1 and
IWB2 are internal wave packets with trailing waves (type-B wave) and IWA1 is
a single soliton<?pagebreak page2860?> (type-A wave). As IWB1 approaches the continental slope and
shelf, the leading wave front fully steepens with a narrow characteristic
half-width, suggesting its strong nonlinearity. IWB2 also shows up as a wave
packet with many secondary waves in the developing stage, although its
nonlinearity is slightly weaker than IWB1's. Conversely, the single soliton
IWA1 with relatively long crest line and broad characteristic half-width is
about to pass mooring station DS (marked as green star in Fig. 6). In
comparison, the Exps. <italic>250m_8HARs</italic> and
<italic>1000m_8HARs</italic> reproduce these three waves as
well, but with some subtle discrepancies between them. In Exp.
<italic>250m_8HARs</italic>, more details of wave properties
are clarified (Fig. 6b). Specifically, the secondary waves of IWB1 and IWB2
are more visible than those in <italic>500m_8HARs</italic>.
However, in Exp. <italic>1000m_8HARs</italic>, some fine
structures of ISWs are not well resolved. For instance, only one secondary
wave is found behind the leading wave of IWB2, and the south portion of IWA1
crest line is barely observed (Fig. 6c).</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F6" specific-use="star"><?xmltex \currentcnt{6}?><?xmltex \def\figurename{Figure}?><label>Figure 6</label><caption><p id="d1e2297">Sea surface height gradients at 12:00 UTC on 12 August 2014 in the model <bold>(a)</bold> <italic>500m_8HARs</italic>, <bold>(b)</bold>
<italic>250m_8HARs</italic>, <bold>(c)</bold>
<italic>1000m_8HARs</italic>, <bold>(d)</bold>
<italic>500m_1HAR</italic>, <bold>(e)</bold>
<italic>500m_4HARs</italic> and <bold>(f)</bold>
<italic>500m_Real_N2</italic>. Note that
the dashed line in <bold>(a)</bold> is the selected transect to present vertical structure of
ISWs. Small panels on the bottom left indicate the zonal barotropic velocity
(unit in m s<inline-formula><mml:math id="M101" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>) in the Luzon Strait with the solid lines showing the
tidal conditions at the selected time.</p></caption>
          <?xmltex \igopts{width=426.791339pt}?><graphic xlink:href="https://gmd.copernicus.org/articles/16/2851/2023/gmd-16-2851-2023-f06.jpg"/>

        </fig>

      <p id="d1e2360">Then, we select a transect along the main propagation path of ISWs (shown in
dashed line in Fig. 6a) at 12:00 UTC on 12 August 2014 to compare the
vertical structure of ISWs among three experiments (see Fig. 7). In Fig. 7,
blue (yellow) colour shades represent westward (eastward) baroclinic velocity
and contours are temperature isotherms. Linear internal waves, such as
internal wave beams near the generation site (120–121<inline-formula><mml:math id="M102" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> E), are
nicely reproduced in all numerical experiments. Nonetheless, nonlinear
internal waves present different wave characteristics in different cases. In
Exp. <italic>500m_8HARs</italic>, the single soliton IWA1
and the wave packet IWB2 with a series of trailing waves are apparent in the
slice, but IWB1 is not included (Fig. 7a). In Exp.
<italic>250m_8HARs</italic>, IWA1 and IWB2 occur at the same
location as those in <italic>Exp. 500m_8HARs</italic>. IWA1
show similar properties in two cases, but the secondary waves of IWB2 are
better described in Exp. <italic>250m_8HARs</italic>. By
comparison, IWA1 shows its weak nonlinearity with small vertical
displacement and broad characteristic half-width (i.e. horizontal distance
between the wave front and wave trough) in Exp.
<italic>1000m_8HARs</italic>. Besides, only one secondary
wave appears in the IWB2 packet in Exp. <italic>1000m_8HARs</italic>.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F7" specific-use="star"><?xmltex \currentcnt{7}?><?xmltex \def\figurename{Figure}?><label>Figure 7</label><caption><p id="d1e2393">Temperature isotherms (contours) and baroclinic
velocities (shades) along the transect (dashed line in Fig. 6a) at 12:00 UTC
on 12 August 2014 in the model <bold>(a)</bold> <italic>500m_8HARs</italic>, <bold>(b)</bold> <italic>250m_8HARs</italic>, <bold>(c)</bold>
<italic>1000m_8HARs</italic>, <bold>(d)</bold>
<italic>500m_1HAR</italic>, <bold>(e)</bold>
<italic>500m_4HARs</italic> and <bold>(f)</bold>
<italic>500m_Real_N2</italic>. Note that
waves IWA1 and IWB2 are labelled in <bold>(a)</bold> with red arrows.</p></caption>
          <?xmltex \igopts{width=426.791339pt}?><graphic xlink:href="https://gmd.copernicus.org/articles/16/2851/2023/gmd-16-2851-2023-f07.jpg"/>

        </fig>

      <p id="d1e2443">Last, a two-day time segment of observational temperature and baroclinic
velocities from 18:00 UTC on 11 August to 18:00 UTC on 13 August 2014 at the
station DS is extracted to demonstrate the sensitivity model capability of
simulating vertical structures of ISWs over the continental slope (Fig. 8).
In the control run (<italic>500m_8HARs</italic>, Fig. 8b),
two wave packets and two single solitons successively arrive at the station,
keeping the consistency with the observation, although their characteristic
half-widths are slightly broader than those in the field measurements (Fig. 8a). Meanwhile, some small fluctuations, occurring in the observations, are
not included in the control run. In Exp. <italic>250m_8HARs</italic> (Fig. 8c), the half-widths are narrower than those in the Exp.
<italic>500m_8HARs</italic>, which agree better with the
real internal wave field. Besides, more fluctuations, i.e. those small wave
signals (09:00 UTC on 12 August and 09:00 UTC on 13 August) in front of the single
solitons, are reproduced in this experiment. Conversely, in Exp.
<italic>1000m_8HARs</italic>, internal wave trains can still
be reproduced with relatively weak nonlinearity, but the single solitons are
not correct due to their tiny amplitudes and linear wave structures.</p>

      <?xmltex \floatpos{p}?><fig id="Ch1.F8" specific-use="star"><?xmltex \currentcnt{8}?><?xmltex \def\figurename{Figure}?><label>Figure 8</label><caption><p id="d1e2460">Time series of temperature isotherms (contours) and
baroclinic velocities (shades) at station DS from 18:00 UTC on 11 August to
18:00 UTC on 13 August 2014 in the observation <bold>(a)</bold> and in the model <bold>(b)</bold>
<italic>500m_8HARs</italic>, <bold>(c)</bold>
<italic>250m_8HARs</italic>, <bold>(d)</bold>
<italic>1000m_8HARs</italic>, <bold>(e)</bold> <italic>500m_1HAR</italic>, <bold>(f)</bold>
<italic>500m_4HARs</italic>, <bold>(g)</bold>
<italic>500m_13HARs</italic> and <bold>(h)</bold>
<italic>500m_Real_N2</italic>.</p></caption>
          <?xmltex \igopts{width=426.791339pt}?><graphic xlink:href="https://gmd.copernicus.org/articles/16/2851/2023/gmd-16-2851-2023-f08.jpg"/>

        </fig>

      <p id="d1e2516">To quantitatively evaluate the model performance of sensitivity experiments,
we present the bias of five wave properties of 15 ISWs (marked as red
arrows in Fig. 4) between model results and observational data in Fig. 9.
The biases of arrival time are generally smaller than 1 h (see black and
blue circles in Fig. 9a) for Exps. <italic>500m_8HARs</italic> and <italic>250m_8HARs</italic>,<?pagebreak page2861?> whose RMSDs are
0.71 and 0.67 h, respectively. In contrast, the bias for Exp.
<italic>1000m_8HARs</italic> is larger than 1 h (red circles
in Fig. 9a) and its RMSD is 0.79 h. In terms of the wave-induced velocity
(Fig. 9b), the RMSDs are 0.38, 0.41 and 0.48 m s<inline-formula><mml:math id="M103" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> in Exps.
<italic>250m_8HARs</italic>,
<italic>500m_8HARs</italic> and
<italic>1000m_8HARs</italic>, respectively. The RMSDs of
propagation directions are very close (<inline-formula><mml:math id="M104" display="inline"><mml:mo lspace="0mm">∼</mml:mo></mml:math></inline-formula> 8.5<inline-formula><mml:math id="M105" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>) in the
three experiments (see Table 3). As for the mode-1 wave amplitudes, Exps.
<italic>250m_8HARs</italic> and
<italic>500m_8HARs</italic> overestimate the wave amplitudes
in most cases (see positive biases in Fig. 9d), thereby resulting in RMSDs
of 38.12 and 37.27 m, respectively. Conversely, Exp.
<italic>1000m_8HARs</italic> would underestimate the wave
amplitudes of majority ISWs with dominant negative biases in Fig. 9d,
resulting in a RMSD of 40.28 m (Table 3). Last but not least, Exps.
<italic>500m_8HARs</italic> and
<italic>1000m_8HARs</italic> inaccurately depict
characteristic half-widths of ISWs with RMSDs of 1.07 and 2.41 km, while
Exp. <italic>250m_8HARs</italic> performs well with a RMSD
of 0.64 km (Fig. 9e). The relative difference of RMSD suggests that Exp.
<italic>250m_8HARs</italic> increases to 40 % accuracy of
predicting characteristic half-widths by comparing Exp. <italic>500m_8HARs</italic>. From the perspective of computational
resources, Exps. <italic>250m_8HARs</italic>, <italic>500m_8HARs</italic> and <italic>1000m_8HARs</italic> spend <inline-formula><mml:math id="M106" display="inline"><mml:mrow><mml:mn mathvariant="normal">20.4</mml:mn><mml:mo>×</mml:mo><mml:msup><mml:mn mathvariant="normal">10</mml:mn><mml:mn mathvariant="normal">4</mml:mn></mml:msup></mml:mrow></mml:math></inline-formula> CPU hours, <inline-formula><mml:math id="M107" display="inline"><mml:mrow><mml:mn mathvariant="normal">4.6</mml:mn><mml:mo>×</mml:mo><mml:msup><mml:mn mathvariant="normal">10</mml:mn><mml:mn mathvariant="normal">4</mml:mn></mml:msup></mml:mrow></mml:math></inline-formula> CPU hours and
<inline-formula><mml:math id="M108" display="inline"><mml:mrow><mml:mn mathvariant="normal">1.0</mml:mn><mml:mo>×</mml:mo><mml:msup><mml:mn mathvariant="normal">10</mml:mn><mml:mn mathvariant="normal">4</mml:mn></mml:msup></mml:mrow></mml:math></inline-formula> CPU hours, respectively.</p>

      <?xmltex \floatpos{p}?><fig id="Ch1.F9" specific-use="star"><?xmltex \currentcnt{9}?><?xmltex \def\figurename{Figure}?><label>Figure 9</label><caption><p id="d1e2649">Bias of arrival time <bold>(a)</bold>, maximum wave-induced velocities
<bold>(b)</bold>, propagation directions <bold>(c)</bold>, maximum mode-1 wave amplitudes <bold>(d)</bold> and
characteristic half-widths <bold>(e)</bold> for 15 ISWs at station DS. Colours
present different experiments.</p></caption>
          <?xmltex \igopts{width=369.885827pt}?><graphic xlink:href="https://gmd.copernicus.org/articles/16/2851/2023/gmd-16-2851-2023-f09.png"/>

        </fig>

<?xmltex \floatpos{t}?><table-wrap id="Ch1.T3" specific-use="star"><?xmltex \currentcnt{3}?><label>Table 3</label><caption><p id="d1e2676">Root mean square deviation (RMSD) of wave properties
between field observation and 3D sensitivity simulations at the mooring
station in the vicinity of the Dongsha Atoll.</p></caption><oasis:table frame="topbot"><?xmltex \begin{scaleboxenv}{.95}[.95]?><oasis:tgroup cols="7">
     <oasis:colspec colnum="1" colname="col1" align="left"/>
     <oasis:colspec colnum="2" colname="col2" align="left"/>
     <oasis:colspec colnum="3" colname="col3" align="right"/>
     <oasis:colspec colnum="4" colname="col4" align="right"/>
     <oasis:colspec colnum="5" colname="col5" align="right"/>
     <oasis:colspec colnum="6" colname="col6" align="right"/>
     <oasis:colspec colnum="7" colname="col7" align="right"/>
     <oasis:thead>
       <oasis:row>
         <oasis:entry colname="col1">No.</oasis:entry>
         <oasis:entry colname="col2">Experiment name</oasis:entry>
         <oasis:entry colname="col3">RMSD of</oasis:entry>
         <oasis:entry colname="col4">RMSD of wave-induced</oasis:entry>
         <oasis:entry colname="col5">RMSD of propagation</oasis:entry>
         <oasis:entry colname="col6">RMSD of mode-1</oasis:entry>
         <oasis:entry colname="col7">RMSD of characteristic</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1"/>
         <oasis:entry colname="col2"/>
         <oasis:entry colname="col3">arrival time</oasis:entry>
         <oasis:entry colname="col4">velocity</oasis:entry>
         <oasis:entry colname="col5">direction</oasis:entry>
         <oasis:entry colname="col6">wave Amplitude</oasis:entry>
         <oasis:entry colname="col7">half-width</oasis:entry>
       </oasis:row>
       <oasis:row rowsep="1">
         <oasis:entry colname="col1"/>
         <oasis:entry colname="col2"/>
         <oasis:entry colname="col3">[h]</oasis:entry>
         <oasis:entry colname="col4">[m s<inline-formula><mml:math id="M109" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>]</oasis:entry>
         <oasis:entry colname="col5">[<inline-formula><mml:math id="M110" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>]</oasis:entry>
         <oasis:entry colname="col6">[m]</oasis:entry>
         <oasis:entry colname="col7">[km]</oasis:entry>
       </oasis:row>
     </oasis:thead>
     <oasis:tbody>
       <oasis:row>
         <oasis:entry colname="col1">1</oasis:entry>
         <oasis:entry colname="col2"><italic>500m_8HARs</italic></oasis:entry>
         <oasis:entry colname="col3">0.71</oasis:entry>
         <oasis:entry colname="col4">0.41</oasis:entry>
         <oasis:entry colname="col5">8.35</oasis:entry>
         <oasis:entry colname="col6">37.27</oasis:entry>
         <oasis:entry colname="col7">1.07</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">2</oasis:entry>
         <oasis:entry colname="col2"><italic>500m_8HARs_BT</italic></oasis:entry>
         <oasis:entry colname="col3">–</oasis:entry>
         <oasis:entry colname="col4">–</oasis:entry>
         <oasis:entry colname="col5">–</oasis:entry>
         <oasis:entry colname="col6">–</oasis:entry>
         <oasis:entry colname="col7">–</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">3</oasis:entry>
         <oasis:entry colname="col2"><italic>250m_8HARs</italic></oasis:entry>
         <oasis:entry colname="col3">0.67</oasis:entry>
         <oasis:entry colname="col4">0.38</oasis:entry>
         <oasis:entry colname="col5">8.89</oasis:entry>
         <oasis:entry colname="col6">38.12</oasis:entry>
         <oasis:entry colname="col7">0.64</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">4</oasis:entry>
         <oasis:entry colname="col2"><italic>1000m_8HARs</italic></oasis:entry>
         <oasis:entry colname="col3">0.79</oasis:entry>
         <oasis:entry colname="col4">0.49</oasis:entry>
         <oasis:entry colname="col5">8.54</oasis:entry>
         <oasis:entry colname="col6">40.28</oasis:entry>
         <oasis:entry colname="col7">2.41</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">5</oasis:entry>
         <oasis:entry colname="col2"><italic>500m_1HAR</italic></oasis:entry>
         <oasis:entry colname="col3">–</oasis:entry>
         <oasis:entry colname="col4">–</oasis:entry>
         <oasis:entry colname="col5">–</oasis:entry>
         <oasis:entry colname="col6">–</oasis:entry>
         <oasis:entry colname="col7">–</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">6</oasis:entry>
         <oasis:entry colname="col2"><italic>500m_4HARs</italic></oasis:entry>
         <oasis:entry colname="col3">0.81</oasis:entry>
         <oasis:entry colname="col4">0.58</oasis:entry>
         <oasis:entry colname="col5">8.22</oasis:entry>
         <oasis:entry colname="col6">43.69</oasis:entry>
         <oasis:entry colname="col7">1.10</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">7</oasis:entry>
         <oasis:entry colname="col2"><italic>500m_13HARs</italic></oasis:entry>
         <oasis:entry colname="col3">0.71</oasis:entry>
         <oasis:entry colname="col4">0.40</oasis:entry>
         <oasis:entry colname="col5">8.23</oasis:entry>
         <oasis:entry colname="col6">37.36</oasis:entry>
         <oasis:entry colname="col7">1.01</oasis:entry>
       </oasis:row>
       <oasis:row>
         <oasis:entry colname="col1">8</oasis:entry>
         <oasis:entry colname="col2"><italic>500m_Real_N2</italic></oasis:entry>
         <oasis:entry colname="col3">0.62</oasis:entry>
         <oasis:entry colname="col4">0.34</oasis:entry>
         <oasis:entry colname="col5">14.74</oasis:entry>
         <oasis:entry colname="col6">37.88</oasis:entry>
         <oasis:entry colname="col7">0.58</oasis:entry>
       </oasis:row>
     </oasis:tbody>
   </oasis:tgroup><?xmltex \end{scaleboxenv}?></oasis:table><?xmltex \gdef\@currentlabel{3}?></table-wrap>

      <p id="d1e3006">In summary, the control run with a resolution of 500 m can basically
reproduce the principal ISW field in the NSCS, while the sensitivity model
with a higher resolution of 250 m would be a better solution to identify
wave properties, in particular of the wave nonlinearity. Nonetheless, a 250 m resolution model spends nearly a 5-fold computational resources of a 500 m resolution model in the same model domain. Besides, the model with a lower
resolution of 1000 m<?pagebreak page2862?> underestimates the nonlinearity of ISWs, thereby
resulting in an inaccurate ISW field in the NSCS.</p>
</sec>
<sec id="Ch1.S4.SS2">
  <label>4.2</label><title>Requirements of tidal constituents</title>
      <p id="d1e3017">The 3D/2D models with different numbers of barotropic tidal constituents (e.g.
single harmonic, four harmonics and eight harmonics) were commonly imposed
to investigate the generation mechanisms of ISWs in the NSCS in previous
studies (e.g. Li, 2014; Buijsman et al., 2010a; Jin et al., 2021). However,
whether a single tidal constituent can satisfy the reproduction of a real
ISW field and how many tidal constituents are required for a realistic ISW
model are still questions. Here, we run three sensitivity experiments (Exps.
<italic>500m_1HAR</italic>,
<italic>500m_4HARs</italic> and
<italic>500m_13HARs</italic>) with different numbers of
tidal harmonics to answer the questions by comparing the model performance
with the control run (<italic>500m_8HARs</italic>).</p>
      <?pagebreak page2864?><p id="d1e3032">We first discuss the model requirements of tidal constituents from the point
of view of the ISW horizontal distributions and look back to Fig. 6. Note
that time series of zonal barotropic currents at the generation site (Luzon
Strait) are presented at the bottom left for each panel, where
single, four and eight tidal constituent(s) are shown in green, magenta and blue, respectively. By
comparing Exp. <italic>500m_1HAR</italic> (Fig. 6d) and
<italic>500m_8HARs</italic> (Fig. 6a), we find that the
single M2 tidal harmonic is not adequate to reproduce ISWs in the NSCS, so
only some linear internal tides are detected on the sea surface via <inline-formula><mml:math id="M111" display="inline"><mml:mrow><mml:mfenced close="|" open="|"><mml:mrow><mml:mi mathvariant="normal">∇</mml:mi><mml:mi mathvariant="italic">η</mml:mi></mml:mrow></mml:mfenced></mml:mrow></mml:math></inline-formula>. In contrast, Exp.
<italic>500m_4HARs</italic> (Fig. 6e) nearly recreates the
analogous scenario of ISWs to Exp. <italic>500m_8HARs</italic>, where IWB1, IWA1 and IWB2 appear at the same locations.
Nonetheless, the crest-line length (<inline-formula><mml:math id="M112" display="inline"><mml:mo lspace="0mm">∼</mml:mo></mml:math></inline-formula> 134 km) of IWB2 in Exp.
<italic>500m_4HARs</italic> is slightly shorter than that
(<inline-formula><mml:math id="M113" display="inline"><mml:mo lspace="0mm">∼</mml:mo></mml:math></inline-formula> 167 km) in Exp. <italic>500m_8HARs</italic>, and the secondary waves of IWB2 are unclear in Exp.
<italic>500m_4HARs</italic> (see Fig. 6e). <inline-formula><mml:math id="M114" display="inline"><mml:mrow><mml:mfenced open="|" close="|"><mml:mrow><mml:mi mathvariant="normal">∇</mml:mi><mml:mi mathvariant="italic">η</mml:mi></mml:mrow></mml:mfenced></mml:mrow></mml:math></inline-formula> in Exp. <italic>500m_13HARs</italic> are not presented in Fig. 6, since it shows the exact same spatial
patterns of ISWs as those in Exp. <italic>500m_8HARs</italic>, suggesting the principle eight tidal constituents are fine enough
to satisfy accurate reproduction of the horizontal features of ISWs in a
realistic oceanic model.</p>
      <p id="d1e3102">We then consider the difference of ISW vertical structures in sensitivity
experiments with various tidal forcing via the selected transect and mooring
station DS. In Exp. <italic>500m_1HAR</italic>, only linear
internal waves are captured from the generation site to the slope,
suggesting that single M2 tidal constituent without amplification factors
can only contribute to internal tides and linear internal wave beams in
NSCS (see Figs. 7d and 8e). Unless the magnitudes of M2 barotropic tides are
amplified, ISWs are likely to be generated (e.g. Yuan et al., 2020). In
Exp. <italic>500m_4HARs</italic> (Figs. 7e and 8f), the
single soliton IWA1 is reproduced with a smaller amplitude and weaker
nonlinearity than that in Exp. <italic>500m_8HARs</italic>.
Besides, the secondary waves of IWB2 are barely observed in Exp.
<italic>500m_4HARs</italic>, which are much clearer in Exp.
<italic>500m_8HARs</italic> (Figs. 7a and 8a). Figure 8a and
g depict the striking similarity of wave characteristics between Exp.
<italic>500m_8HARs</italic> and Exp.
<italic>500m_13HARs</italic>.</p>
      <p id="d1e3127">Last, we quantitatively estimate the sensitivity model capability of
reproducing ISWs, by computing the biases and RMSDs of five wave properties
(see Fig. 9 and Table 3) in the cases with different tidal forcing. Since
Exp. <italic>500m_1HAR</italic> cannot predict ISWs with
significant amplitudes, we exclude it in the following analysis. In terms of
Exp. <italic>500m_13HARs</italic> with 13 tidal
constituents, the biases and RMSDs of five wave properties are very close to
those in the control run with eight harmonics (see overlapped black circles
and magenta triangles in Fig. 9 and Table 3). Conversely, Exp.
<italic>500m_4HARs</italic> shows significant difference in
the biases and RMSDs of five wave properties from the control run.
Specifically, in Fig. 9a, the RMSD of arrival time (0.81 h) is larger in
Exp. <italic>500m_4HARs</italic> than that in Exp.
<italic>500m_8HARs</italic> (0.71 h). In addition, Exp.
<italic>500m_4HARs</italic> underestimates averaged
wave-induced velocity for about 38 % and averaged mode-1 wave amplitude
for about 15 %, which result in large negative values of biases (see
magenta triangles in Fig. 9b and c), corresponding to 0.58 m s<inline-formula><mml:math id="M115" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> and
43.69 m of RMSDs, respectively. In terms of the characteristic half-widths,
Exps. <italic>500m_4HARs</italic> and
<italic>500m_13HARs</italic> with RMSDs of 1.10 and 1.01 km
show analogous performance to the control run Exp.
<italic>500m_8HARs</italic> with a RMSD of 1.07 km.</p>
      <p id="d1e3171">In summary, the model with 8 (or 13) primary tidal constituents
can accurately reproduce the real ISW field in the NSCS, while the
sensitivity model with four key harmonics (M2, S2, K1 and O1) would
underestimate the magnitudes of some secondary wave within a wave packet. In
addition, the model only driven by M2 tide can only characterize wave
properties of linear internal waves (tides) instead of ISWs.</p>
</sec>
<sec id="Ch1.S4.SS3">
  <label>4.3</label><title>Initial stratification selections</title>
      <p id="d1e3182">As ISWs generate via tide-topography interaction in the stratified water,
the stratification selection is crucial to directly affect the model
capabilities. Here, we extract the background stratification from the
in situ measurements at mooring station DS as the initial condition to run the
sensitivity experiment <italic>500m_Real_N2</italic>, and we compare the model results with the control run
(<italic>500m_8HARs</italic>) with a climatological
stratification from the WOA18 dataset.</p>
      <p id="d1e3191">In the model results, the spatial distribution of <inline-formula><mml:math id="M116" display="inline"><mml:mrow><mml:mfenced open="|" close="|"><mml:mrow><mml:mi mathvariant="normal">∇</mml:mi><mml:mi mathvariant="italic">η</mml:mi></mml:mrow></mml:mfenced></mml:mrow></mml:math></inline-formula> in Exp. <italic>500m_Real_N2</italic> shows an analogous pattern of ISWs to that in Exp.
<italic>500m_8HARs</italic>. Specifically, three ISWs (i.e.
IWB1, IWA1, and IWB2) appear at the same location in the two experiments
with similar horizontal wave characteristics (Fig. 6a and f). The visible
difference is that the crest line length of the secondary wave of IWB2 is
longer with a stronger nonlinearity in Exp.
<italic>500m_Real_N2</italic>. We then look
over the difference of ISW vertical structures between two cases from the
perspective of <inline-formula><mml:math id="M117" display="inline"><mml:mi>x</mml:mi></mml:math></inline-formula>–<inline-formula><mml:math id="M118" display="inline"><mml:mi>z</mml:mi></mml:math></inline-formula> plane along the transect (Fig. 7a and f) and time series
at station DS (Fig. 8a and h). It is clearly shown that Exp.
<italic>500m_Real_N2</italic> with the real
stratification can better characterize the nonlinearity of the single
soliton IWA1 and the secondary wave of wave train IWB2. Besides, the
comparison with field measurements reveals that Exp.
<italic>500m_Real_N2</italic> shows a better
precision (13 %) in predicting the arrival time (i.e. RMSD of 0.62 h) of
ISWs than the control run (i.e. RMSD of 0.71 h) with the climatological
stratification. However, the RMSD of the propagation direction of ISWs is
larger in the realistic-stratification case (14.74<inline-formula><mml:math id="M119" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>) than that of the
control run (8.35<inline-formula><mml:math id="M120" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>). Last, Exp. <italic>500m_Real_N2</italic> nicely describes the characteristic half-widths of
ISWs (RMSD of 0.58 km), which improves 46 % accuracy by comparing that in
Exp. <italic>500m_8HARs</italic> (RMSD of 1.07 km). To sum
up, although the model with climatological stratification works well,
applying the real background stratification as the model initial condition
would improve the model performance in predicting some wave properties,
including arrival time, wave-induced velocity, wave amplitude and
characteristic half-width.</p><?xmltex \hack{\newpage}?>
</sec>
</sec>
<?pagebreak page2865?><sec id="Ch1.S5" sec-type="conclusions">
  <label>5</label><title>Discussion and conclusions</title>
      <p id="d1e3272">Although the 3D realistic model, particularly in Exp.
<italic>250m_8HARs</italic>, has accurately reproduced the
ISW features in the NSCS to some extent, the depictions of soliton numbers
within an internal wave packet and propagation direction still have space
for improvement. That is, at least three following factors might be considered
in the future modelling.</p>
      <p id="d1e3278">The first factor that may affect the model accuracy is background
currents. Here, we download the global Hybrid Coordinate Ocean Model (HYCOM)
dataset from 2014 and calculate the background current field by averaging from
5 to 20 August, namely predicting time of the model (see Fig. 10a). In
Fig. 10a, there is a clear anticlockwise circulation/eddy pattern on the
west side of the Luzon Strait. Xie et al. (2015) suggested that wave properties
of ISWs can be significantly influenced by an isolated mesoscale eddy,
regardless of a cyclonic or anticyclonic eddy, during the propagation of
ISWs. When an ISW passes over a cyclonic eddy, as in Fig. 10a, the crest line
will be distorted, thereby modulating the oblique propagation direction of
wave to some extent (Xie et al., 2016). In addition, a series of secondary
trailing waves are able to form behind the leading wave in the
energy-focusing region. Therefore, background currents are supposed to be
considered in the future forecasting model, which shows potential
improvement in the depiction of soliton numbers within an ISW packet and
propagation direction in the NSCS.</p>

      <?xmltex \floatpos{t}?><fig id="Ch1.F10"><?xmltex \currentcnt{10}?><?xmltex \def\figurename{Figure}?><label>Figure 10</label><caption><p id="d1e3283"><bold>(a)</bold> Background currents near the sea surface (averaged
from 5 to 20 August 2014, derived from the global HYCOM dataset). <bold>(b)</bold>
Background buoyancy frequency at a water depth of 50 m. <bold>(c)</bold> Time-averaged
wind stress at 10 m above the sea surface, which is derived from NCEPv2
hourly dataset.</p></caption>
        <?xmltex \igopts{width=236.157874pt}?><graphic xlink:href="https://gmd.copernicus.org/articles/16/2851/2023/gmd-16-2851-2023-f10.png"/>

      </fig>

      <p id="d1e3301">The second factor is inhomogeneous spatial distribution of stratification.
In the current forecasting model, we apply horizontally homogeneous
temperature and salinity profiles (Fig. 1d) with the maximum buoyancy
frequency of <inline-formula><mml:math id="M121" display="inline"><mml:mo>∼</mml:mo></mml:math></inline-formula> 0.02 s<inline-formula><mml:math id="M122" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">1</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> at a water depth of 50 m.
Actually, we also implement a sensitivity experiment (Exp.
<italic>3D-TS</italic>) with weak spatially varying initial conditions
derived from the WOA18 climatology dataset. By comparing experiments
<italic>3D-TS</italic> and <italic>800m_HARs</italic>, it
is concluded that the weak spatially varying initial conditions show similar
performance in predicting the arrival time and horizontal distributions
(Fig. C1), wave amplitudes and wave-induced velocities (Fig. C2) of ISWs to
the horizontally homogeneous initial conditions. However, the model results
would be different with strong spatially varying stratification derived from
the ocean reanalysis dataset with a high resolution and sampling rate (e.g.
global HYCOM dataset). Since wave speeds of ISWs and internal tides are
closely related to vertical structure of stratification based on
eigenfunction, the inhomogeneous stratification pattern is likely to affect
ISW propagation speed and then modulate their arrival time. Most of previous
numerical studies (e.g. Zhang et al., 2011; Alford et al., 2015; Zeng et
al., 2019) rarely considered the impacts of horizontally inhomogeneous
stratification, but Lai et al. (2019) applied
spatially varying stratification in 3D models and indicated that
inhomogeneous stratification can achieve better model results to some
extent. However, only considering spatially varying temperature and salinity
profiles with large values of horizontal gradients (e.g. HYCOM dataset in
Fig. 10b) as the initial conditions might lead to spurious geostrophic
currents, thereby significantly affecting the true wave field. Hence,
spatially varying stratification is worthwhile to be considered together
with background currents in future numerical studies in the NSCS.</p>
      <p id="d1e3332">The last element is external (wind) forcing. As is well known, ISWs are a
ubiquitous phenomenon with maximum amplitudes in the ocean interior.
Nonetheless, the thermoclines usually occur in the upper layers (shallower
than 500 m) in the SCS, which can be significantly affected by extreme wind
events (i.e. tropical cyclones; Zhang, 2022). So far, wind forcing has been
rarely applied in the<?pagebreak page2866?> numerical modelling of ISWs, except by Lai et al. (2019).
As both the ISWs and tropical cyclones are active and frequent in August,
September and October in the SCS, the impacts of tropical cyclones on the
upper layers should be considered in future numerical simulations,
although tropical cyclones did not happen during our predicting period (see
Fig. 10c).</p>
      <p id="d1e3335">In summary, this study introduces a robust ISW forecasting model by
comparison with in situ observational data and remote-sensing images, and it
quantitatively evaluates the requirements of different factors, including
the horizontal resolutions, tidal constituents and initial stratification,
to accurately characterize the ISW field with applications to the NSCS.
The major findings are listed as follows.
<list list-type="order"><list-item>
      <p id="d1e3340">A model with a 500 m resolution can basically reproduce the principal ISW
field, while a model with a higher resolution of 250 m would be a better
solution to identify wave properties but spends nearly 5-fold
computational resources of a 500 m resolution case with the same model
domain.</p></list-item><list-item>
      <p id="d1e3344">At least eight primary tidal constituents should be included in the boundary
forcing.</p></list-item><list-item>
      <p id="d1e3348">Compared to climatological stratification, applying the observational
background stratification could improve the model performance in predicting
some wave properties, namely a 13 % improvement of arrival time and a 46 %
improvement of characteristic half-width.</p></list-item></list></p>
</sec>

      
      </body>
    <back><app-group>

<app id="App1.Ch1.S1">
  <?xmltex \currentcnt{A}?><label>Appendix A</label><title>Feasibility study of 2D slice model</title>
      <p id="d1e3362">Differing from the 3D models, 2D slice models are fairly economical from the
perspective of computational resources. In the past few decades, 2D slice
models with idealized topography (double ridges) were commonly conducted to
investigate ISW dynamics in the NSCS, in particular for the generation
mechanisms and the affecting factors of ISWs (i.e. Cai et al., 2002; Shaw
et al., 2009; Li, 2014). Here, we attempt to test the 2D model performance
along different transects and clarify whether a 2D slice model can be a
substitute for a 3D model in the aspect of reproducing a real ISW field in
the NSCS.</p>
      <p id="d1e3365">Three parallel transects with a distance of 0.05<inline-formula><mml:math id="M123" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> are selected along
the main propagation direction of ISWs (see dashed lines in Fig. 1a), which
are labelled <italic>2D_500m_8HARs</italic>, <italic>2D_500m_8HARs_005N</italic> and <italic>2D_500m_8HARs_005S</italic>. <inline-formula><mml:math id="M124" display="inline"><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi>x</mml:mi></mml:mrow></mml:math></inline-formula> and <inline-formula><mml:math id="M125" display="inline"><mml:mrow><mml:mi mathvariant="normal">Δ</mml:mi><mml:mi>t</mml:mi></mml:mrow></mml:math></inline-formula>
are still set as 500 m and 10 s, respectively. Initial conditions and
dissipation coefficients are set the same as those in the 3D control run
(<italic>500m_8HARs</italic>). The 2D slice models are also
driven by the barotropic tides of eight tidal constituents at both the west
boundary (115.8<inline-formula><mml:math id="M126" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> E, 21.1<inline-formula><mml:math id="M127" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N <inline-formula><mml:math id="M128" display="inline"><mml:mrow><mml:mo>±</mml:mo><mml:mn mathvariant="normal">0.05</mml:mn></mml:mrow></mml:math></inline-formula><inline-formula><mml:math id="M129" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>) and east boundary
(123.8<inline-formula><mml:math id="M130" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> E, 19.5<inline-formula><mml:math id="M131" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> N <inline-formula><mml:math id="M132" display="inline"><mml:mrow><mml:mo>±</mml:mo><mml:mn mathvariant="normal">0.05</mml:mn></mml:mrow></mml:math></inline-formula><inline-formula><mml:math id="M133" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>). As the transects are not
strictly zonal (angle <inline-formula><mml:math id="M134" display="inline"><mml:mrow><mml:mi mathvariant="italic">θ</mml:mi><mml:mo>=</mml:mo><mml:mn mathvariant="normal">11.2</mml:mn></mml:mrow></mml:math></inline-formula><inline-formula><mml:math id="M135" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula>; see Fig. 1a), it is
necessary to extract the amplitude (<inline-formula><mml:math id="M136" display="inline"><mml:mrow><mml:msup><mml:mi>U</mml:mi><mml:mo>′</mml:mo></mml:msup></mml:mrow></mml:math></inline-formula>) and phase (<inline-formula><mml:math id="M137" display="inline"><mml:mrow><mml:msup><mml:mi mathvariant="italic">ϕ</mml:mi><mml:mo>′</mml:mo></mml:msup></mml:mrow></mml:math></inline-formula>) for each
harmonic (<inline-formula><mml:math id="M138" display="inline"><mml:mi mathvariant="italic">ω</mml:mi></mml:math></inline-formula>) in the transect direction from the TPXO8-atlas dataset
(i.e. <inline-formula><mml:math id="M139" display="inline"><mml:mi>U</mml:mi></mml:math></inline-formula>, <inline-formula><mml:math id="M140" display="inline"><mml:mi>V</mml:mi></mml:math></inline-formula>, <inline-formula><mml:math id="M141" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="italic">ϕ</mml:mi><mml:mi>U</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> and <inline-formula><mml:math id="M142" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="italic">ϕ</mml:mi><mml:mi>V</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>), given by

              <disp-formula specific-use="gather" content-type="numbered"><mml:math id="M143" display="block"><mml:mtable displaystyle="true"><mml:mlabeledtr id="App1.Ch1.S1.E7"><mml:mtd><mml:mtext>A1</mml:mtext></mml:mtd><mml:mtd><mml:mrow><mml:mstyle class="stylechange" displaystyle="true"/><mml:msup><mml:mi>U</mml:mi><mml:mo>′</mml:mo></mml:msup><mml:mo>=</mml:mo><mml:msqrt><mml:mstyle scriptlevel="+1"><mml:mtable class="substack"><mml:mtr><mml:mtd><?xmltex \hack{\textstyle}?><mml:msup><mml:mfenced close=")" open="("><mml:mrow><mml:mi>U</mml:mi><mml:mo>⋅</mml:mo><mml:mi>cos⁡</mml:mi><mml:msub><mml:mi mathvariant="italic">ϕ</mml:mi><mml:mi>U</mml:mi></mml:msub><mml:mi>cos⁡</mml:mi><mml:mi mathvariant="italic">θ</mml:mi><mml:mo>-</mml:mo><mml:mi>V</mml:mi><mml:mo>⋅</mml:mo><mml:mi>cos⁡</mml:mi><mml:msub><mml:mi mathvariant="italic">ϕ</mml:mi><mml:mi>V</mml:mi></mml:msub><mml:mi>sin⁡</mml:mi><mml:mi mathvariant="italic">θ</mml:mi></mml:mrow></mml:mfenced><mml:mn mathvariant="normal">2</mml:mn></mml:msup></mml:mtd></mml:mtr><mml:mtr><mml:mtd><?xmltex \hack{\textstyle}?><mml:mo>+</mml:mo><mml:msup><mml:mfenced close=")" open="("><mml:mrow><mml:mi>U</mml:mi><mml:mo>⋅</mml:mo><mml:mi>sin⁡</mml:mi><mml:msub><mml:mi mathvariant="italic">ϕ</mml:mi><mml:mi>U</mml:mi></mml:msub><mml:mi>cos⁡</mml:mi><mml:mi mathvariant="italic">θ</mml:mi><mml:mo>-</mml:mo><mml:mi>V</mml:mi><mml:mo>⋅</mml:mo><mml:mi>sin⁡</mml:mi><mml:msub><mml:mi mathvariant="italic">ϕ</mml:mi><mml:mi>V</mml:mi></mml:msub><mml:mi>sin⁡</mml:mi><mml:mi mathvariant="italic">θ</mml:mi></mml:mrow></mml:mfenced><mml:mn mathvariant="normal">2</mml:mn></mml:msup></mml:mtd></mml:mtr></mml:mtable></mml:mstyle></mml:msqrt><mml:mo>,</mml:mo></mml:mrow></mml:mtd></mml:mlabeledtr><mml:mlabeledtr id="App1.Ch1.S1.E8"><mml:mtd><mml:mtext>A2</mml:mtext></mml:mtd><mml:mtd><mml:mrow><mml:mstyle class="stylechange" displaystyle="true"/><mml:msup><mml:mi mathvariant="italic">ϕ</mml:mi><mml:mo>′</mml:mo></mml:msup><mml:mo>=</mml:mo><mml:mi>arctan⁡</mml:mi><mml:mfenced open="(" close=")"><mml:mstyle displaystyle="true"><mml:mfrac style="display"><mml:mrow><mml:mi>U</mml:mi><mml:mo>⋅</mml:mo><mml:mi>sin⁡</mml:mi><mml:msub><mml:mi mathvariant="italic">ϕ</mml:mi><mml:mi>U</mml:mi></mml:msub><mml:mi>cos⁡</mml:mi><mml:mi mathvariant="italic">θ</mml:mi><mml:mo>-</mml:mo><mml:mi>V</mml:mi><mml:mo>⋅</mml:mo><mml:mi>sin⁡</mml:mi><mml:msub><mml:mi mathvariant="italic">ϕ</mml:mi><mml:mi>V</mml:mi></mml:msub><mml:mi>sin⁡</mml:mi><mml:mi mathvariant="italic">θ</mml:mi></mml:mrow><mml:mrow><mml:mi>U</mml:mi><mml:mo>⋅</mml:mo><mml:mi>cos⁡</mml:mi><mml:msub><mml:mi mathvariant="italic">ϕ</mml:mi><mml:mi>U</mml:mi></mml:msub><mml:mi>cos⁡</mml:mi><mml:mi mathvariant="italic">θ</mml:mi><mml:mo>-</mml:mo><mml:mi>V</mml:mi><mml:mo>⋅</mml:mo><mml:mi>cos⁡</mml:mi><mml:msub><mml:mi mathvariant="italic">ϕ</mml:mi><mml:mi>V</mml:mi></mml:msub><mml:mi>sin⁡</mml:mi><mml:mi mathvariant="italic">θ</mml:mi></mml:mrow></mml:mfrac></mml:mstyle></mml:mfenced><mml:mo>.</mml:mo></mml:mrow></mml:mtd></mml:mlabeledtr></mml:mtable></mml:math></disp-formula>

          Here, we apply the standard 2D experiment along the selected transect (see
the black dashed line in Fig. 1a) and label it
<italic>2D_500m_8HARs</italic>. The model is
driven by eight principle tidal constituents on the both lateral boundaries,
which are extracted from the TPXO8 dataset (following Eqs. A1 and A2). Note
that initial conditions and other model configurations in Exp.
<italic>2D_500m_8HARs</italic> are the same
as those in the 3D control run (<italic>500m_8HARs</italic>). In addition, we run two sensitivity experiments (Exps.
<italic>2D_500m_8HARs_005N</italic> and <italic>2D_500m_8HARs_005S</italic>) along the two parallel transects (see red
dashed lines in Fig. 1b).</p>
      <p id="d1e3783">In the 2D standard case (<italic>2D_500m_8HARs</italic>), ISWs subsequently generate in the double
ridge, then propagate westward, and eventually arrive at the station in the
form of wave trains (Fig. A1b). The wave amplitudes are greater than those
in the 3D control run (Fig. A1a). At the station outputs (Fig. A1f), we find
that Exp. <italic>2D_500m_8HARs</italic> can
only reproduce ISW packets, but it cannot discriminate type-A and type-B ISWs.
Although the occurrence frequency of ISWs is also twice per day in Exp.
<italic>2D_500m_8HARs</italic>, the arrival
time of those ISW packets is not consistent with that in Exp.
<italic>500m_8HARs</italic> (Fig. A1e) and in the field
measurements (Fig. 8a). In Exp. <italic>2D_500m_8HARs_005N</italic>, ISWs are rarely found along
the transect (Fig. A1c), likely due to the relatively gentle topography and
small tidal forcing at the lateral boundaries. At the station outputs (Fig. A1g), only small temperature fluctuations are captured. Conversely, Exp.
<italic>2D_500m_8HARs_005S</italic> shows analogous wave fields to Exp. <italic>2D_500m_8HARs</italic> (Fig. A1d). Specifically, ISW packets with a
half-day cycle are dominant, but their arrival times are postponed for about
2 h (Fig. A1h).</p>
      <p id="d1e3808">To sum up, 2D slice models along different transects (even 0.05<inline-formula><mml:math id="M144" display="inline"><mml:msup><mml:mi/><mml:mo>∘</mml:mo></mml:msup></mml:math></inline-formula> apart)
present totally different ISW characteristics, which are inconsistent with
the 3D model results and in situ measurements. Therefore, the 3D model is the
best and sole option to correctly reproduce the ISW field in the real ocean,
while the 2D model is more suitable for the mechanism investigations.</p><?xmltex \hack{\clearpage}?><?xmltex \floatpos{h!}?><fig id="App1.Ch1.S1.F11"><?xmltex \currentcnt{A1}?><?xmltex \def\figurename{Figure}?><label>Figure A1</label><caption><p id="d1e3823">Temperature isotherms (contours) and baroclinic
velocities (shades) along the transect at 12:00 UTC on 12 August 2014 in the
3D model <bold>(a)</bold> <italic>500m_8HARs</italic>, in the 2D model
<bold>(b)</bold> <italic>2D_500m_8HARs</italic>, <bold>(c)</bold>
<italic>2D_500m_8HARs_005N</italic> and <bold>(d)</bold> <italic>2D_500m_8HARs_005S</italic>. <bold>(e–h)</bold> Corresponding time series at the
stations, which are marked as red arrows in <bold>(a–d)</bold>.</p></caption>
        <?xmltex \hack{\hsize\textwidth}?>
        <?xmltex \igopts{width=426.791339pt}?><graphic xlink:href="https://gmd.copernicus.org/articles/16/2851/2023/gmd-16-2851-2023-f11.jpg"/>

      </fig>

</app>

<?pagebreak page2867?><app id="App1.Ch1.S2">
  <?xmltex \currentcnt{B}?><label>Appendix B</label><title>Quasi-steady state of the model</title>
      <p id="d1e3873">Due to the limitation of the computational resources, we admit that the
model-integrated time (3 d) might be relatively short for the model
spin-up. When we calculate the averaged baroclinic kinetic energy
(<inline-formula><mml:math id="M145" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="normal">KE</mml:mi><mml:mi mathvariant="normal">bc</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>) in the inner model domain (Fig. B1), it is found that the
depth-integrated <inline-formula><mml:math id="M146" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="normal">KE</mml:mi><mml:mi mathvariant="normal">bc</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula> keeps increasing in the first 7 d (see red
line in Fig. B1a), which is related to the flooding barotropic tides (see
Fig. B1b). Actually, <inline-formula><mml:math id="M147" display="inline"><mml:mrow><mml:msubsup><mml:mo>∫</mml:mo><mml:mrow><mml:mo>-</mml:mo><mml:mi>H</mml:mi></mml:mrow><mml:mn mathvariant="normal">0</mml:mn></mml:msubsup><mml:msub><mml:mi mathvariant="normal">KE</mml:mi><mml:mi mathvariant="normal">bc</mml:mi></mml:msub><mml:mi mathvariant="normal">d</mml:mi><mml:mi>z</mml:mi></mml:mrow></mml:math></inline-formula> reaches 10 kJ m<inline-formula><mml:math id="M148" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula> on
the 3rd model day, whose magnitude is equivalent to that during the
neap tides (i.e. 12th to 15th model day). It demonstrates that
the 3D model reaches a quasi-steady state after 3 d. Moreover, the
comparison between the model results and field observations at the mooring
station DS verifies the model accuracy from 8 August (the third model
day) as well. Therefore, first 3 d is considered as the spin-up time in
this work.</p><?xmltex \hack{\newpage}?><?xmltex \hack{\vspace*{12cm}}?><?xmltex \floatpos{h!}?><fig id="App1.Ch1.S2.F12"><?xmltex \currentcnt{B1}?><?xmltex \def\figurename{Figure}?><label>Figure B1</label><caption><p id="d1e3938"><bold>(a)</bold> Domain-averaged baroclinic kinetic energy
(<inline-formula><mml:math id="M149" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="normal">KE</mml:mi><mml:mi mathvariant="normal">bc</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>, in units of J m<inline-formula><mml:math id="M150" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">3</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>) in the inner model domain. Note that
the red solid line is domain-averaged, depth-integrated <inline-formula><mml:math id="M151" display="inline"><mml:mrow><mml:msub><mml:mi mathvariant="normal">KE</mml:mi><mml:mi mathvariant="normal">bc</mml:mi></mml:msub></mml:mrow></mml:math></inline-formula>
(<inline-formula><mml:math id="M152" display="inline"><mml:mrow><mml:msubsup><mml:mo>∫</mml:mo><mml:mrow><mml:mo>-</mml:mo><mml:mi>H</mml:mi></mml:mrow><mml:mn mathvariant="normal">0</mml:mn></mml:msubsup><mml:msub><mml:mi mathvariant="normal">KE</mml:mi><mml:mi mathvariant="normal">bc</mml:mi></mml:msub><mml:mi mathvariant="normal">d</mml:mi><mml:mi>z</mml:mi></mml:mrow></mml:math></inline-formula>, in units of kJ m<inline-formula><mml:math id="M153" display="inline"><mml:msup><mml:mi/><mml:mrow><mml:mo>-</mml:mo><mml:mn mathvariant="normal">2</mml:mn></mml:mrow></mml:msup></mml:math></inline-formula>). <bold>(b)</bold> Time series of
barotropic velocity in the Luzon Strait.</p></caption>
        <?xmltex \igopts{width=236.157874pt}?><graphic xlink:href="https://gmd.copernicus.org/articles/16/2851/2023/gmd-16-2851-2023-f12.png"/>

      </fig>

<?xmltex \hack{\clearpage}?>
</app>

<?pagebreak page2868?><app id="App1.Ch1.S3">
  <?xmltex \currentcnt{C}?><label>Appendix C</label><?xmltex \opttitle{Figures of experiments \textit{3D-TS} and \textit{500m\_ 8HARs}}?><title>Figures of experiments <italic>3D-TS</italic> and <italic>500m_8HARs</italic></title>

      <?xmltex \floatpos{h!}?><fig id="App1.Ch1.S3.F13"><?xmltex \currentcnt{C1}?><?xmltex \def\figurename{Figure}?><label>Figure C1</label><caption><p id="d1e4042"><bold>(a–c)</bold> Snapshots of sea surface gradients (<inline-formula><mml:math id="M154" display="inline"><mml:mrow><mml:mfenced close="|" open="|"><mml:mrow><mml:mi mathvariant="normal">∇</mml:mi><mml:mi mathvariant="italic">η</mml:mi></mml:mrow></mml:mfenced></mml:mrow></mml:math></inline-formula>) at 12:00 UTC on 11, 12 and 13 August in the
standard experiment (Exp. <italic>500m_8HARs</italic>),
respectively. <bold>(d)</bold>–<bold>(f)</bold> Same as <bold>(a)</bold>–<bold>(c)</bold> but in the sensitivity experiment with
horizontally inhomogeneous temperature and salinity (Exp.
<italic>3D-TS</italic>).</p></caption>
        <?xmltex \hack{\hsize\textwidth}?>
        <?xmltex \igopts{width=426.791339pt}?><graphic xlink:href="https://gmd.copernicus.org/articles/16/2851/2023/gmd-16-2851-2023-f13.jpg"/>

      </fig>

<?xmltex \hack{\clearpage}?><?xmltex \floatpos{h!}?><fig id="App1.Ch1.S3.F14"><?xmltex \currentcnt{C2}?><?xmltex \def\figurename{Figure}?><label>Figure C2</label><caption><p id="d1e4089"><bold>(a)</bold>–<bold>(c)</bold> Temperature isotherms (contours) and baroclinic
velocities (shades) along the transect (dashed line in Fig. C1a) at 12:00 UTC on 11, 12 and 13 August in the standard experiment (Exp.
<italic>500m_8HARs</italic>), respectively. <bold>(d)</bold>–<bold>(f)</bold> Same as
<bold>(a)</bold>–<bold>(c)</bold> but in the sensitivity experiment with horizontally inhomogeneous
temperature and salinity (Exp. <italic>3D-TS</italic>).</p></caption>
        <?xmltex \hack{\hsize\textwidth}?>
        <?xmltex \igopts{width=426.791339pt}?><graphic xlink:href="https://gmd.copernicus.org/articles/16/2851/2023/gmd-16-2851-2023-f14.jpg"/>

      </fig>

</app>
  </app-group><notes notes-type="codedataavailability"><title>Code and data availability</title>

      <p id="d1e4128">The MODIS remote-sensing images are derived from the NASA Worldview
application (NASA Worldview: <uri>https://worldview.earthdata.nasa.gov</uri>, last access: 17 May 2023, Plato et al., 2019). The input
files (including initial and boundary conditions) and relevant output data
files of the 3D realistic Massachusetts Institute of Technology general
circulation model in the northern South China Sea are available at a free
open-access data repository via <ext-link xlink:href="https://doi.org/10.5281/zenodo.6792999" ext-link-type="DOI">10.5281/zenodo.6792999</ext-link> (Gong, 2022).</p>
  </notes><notes notes-type="authorcontribution"><title>Author contributions</title>

      <p id="d1e4140">YG wrote the paper with the help of all the co-authors. XC, JXu, JXie, ZC, YH
and SC provided constructive feedback on the manuscript. JXu gave help and
advice on observational data processing and numerical simulations.</p>
  </notes><notes notes-type="competinginterests"><title>Competing interests</title>

      <p id="d1e4146">The contact author has declared that none of the authors has any competing interests.</p>
  </notes><notes notes-type="disclaimer"><title>Disclaimer</title>

      <p id="d1e4152">Publisher’s note: Copernicus Publications remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.</p>
  </notes><?xmltex \hack{\vspace*{12.5cm}}?><ack><title>Acknowledgements</title><p id="d1e4159">We thank the High-Performance Computing Division and HPC managers Wei Zhou and Dandan Sui at the South China Sea Institute of Oceanology for the provision of computing resources. Also, we thank all data providers for their invaluable input, without which we would not be able to develop the ISWFM-NSCS model. Finally, we would like to thank the two reviewers for their careful reviews and concrete suggestions to improve the paper.</p></ack><notes notes-type="financialsupport"><title>Financial support</title>

      <p id="d1e4164">This work was jointly supported by the National Natural Science Foundation of China (NSFC) under contract nos. 42130404, 91858201, 42206012, 42276015, 42276022, and 42176025; the China Postdoctoral Science Foundation (grant no. 2022M713232); Youth science and technology innovation
talent of Guangdong TeZhi plan (grant no. 2019TQ05H519); Rising Star Foundation of South China Sea Institute of Oceanology (grant no. NHXX2019WL0201); Natural Science Foundation of Guangdong Province (grant nos. 2020A1515010495, 2021A1515012538, and 2021A1515011613); the Youth Innovation Promotion Association from CAS (grant no. 2019336); the State Key Laboratory of Tropical Oceanography Independent Research Program under contract no. LTOZZ2205.</p>
  </notes><notes notes-type="reviewstatement"><title>Review statement</title>

      <?pagebreak page2870?><p id="d1e4170">This paper was edited by Heather Hyewon Kim and reviewed by one anonymous referee.</p>
  </notes><ref-list>
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