anystyle 1.1.0 → 1.2.0

data/res/finder/bf668vw2021.ttx

@@ -336,7 +336,7 @@ blank         |
               | 
               | 
 meta          |                                         xiii
-              | Chapter 1
+title         | Chapter 1
 blank         | 
 title         | Introduction
 blank         | 
@@ -646,7 +646,7 @@ text          |    While the specific geometric priors and prototypes listed abo
               | standing of the characteristic of the task at hand, the underlying assumptions and
               | approach provide a direction to allow everyday user to acquire useful 3-D information
               | in the years to come as real-time 3-D scans become available.
-meta          | Chapter 2
+title         | Chapter 2
 blank         | 
 title         | Interactive Acquisition of
               | Residential Floor Plans1
@@ -1417,7 +1417,7 @@ text          | Figure 2.11: The system, having detected the planes in the scene
               | to interact directly with the physical world. Here the user adds a window to the room
               | by dragging a cursor across the wall (left). This motion updates the internal model
               | of the world (right).
-meta          | Chapter 3
+title         | Chapter 3
 blank         | 
 title         | Acquiring 3D Indoor Environments
               | with Variability and Repetition2
@@ -2052,7 +2052,7 @@ meta          | CHAPTER 3. ENVIRONMENTS WITH VARIABILITY AND REPETITION 50
 blank         | 
               | 
               | 
-title         | Input points         Models matched            Parts assigned
+text          | Input points         Models matched            Parts assigned
 blank         | 
               | 
               | 
@@ -2536,7 +2536,7 @@ blank         |
 text          | Figure 3.14: We compared our algorithm and Koppula et al. [KAJS11] using multiple
               | frames of scans from the same viewpoint. Our recognition results are more stable
               | across different frames.
-meta          | Chapter 4
+title         | Chapter 4
 blank         | 
 title         | Guided Real-Time Scanning of
               | Indoor Objects3
@@ -3289,7 +3289,7 @@ text          | Figure 4.12: Real-time retrieval results on various datasets. Fo
               | the image of the object being scanned, the accumulated pointcloud, and the closest
               | shape retrieved model, along with the top 25 candidates that are picked from the
               | database of thousands of models using the proposed A2h descriptor.
-meta          | Chapter 5
+title         | Chapter 5
 blank         | 
 title         | Conclusions
 blank         | 
@@ -3334,7 +3334,7 @@ text          | shape of objects with the help of a large database of 3-D models
               | would also benefit from the advances made in the use of reliable depth and color
               | features in the new type of data obtained from the RGB-D sensors in addition to the
               | presented descriptor.
-meta          | Bibliography
+title         | Bibliography
 blank         | 
 ref           | [BAD10]     Soonmin Bae, Aseem Agarwala, and Fredo Durand. Computational
               |             rephotography. ACM Trans. Graph., 29(5), 2010.

data/res/finder/bg495cx0468.ttx

@@ -712,7 +712,7 @@ blank         |
               | 
               | 
 meta          |                                       xxv
-              | Chapter 1
+title         | Chapter 1
 blank         | 
 title         | Introduction
 blank         | 
@@ -875,7 +875,7 @@ text          | biophysical descriptions of the tissue behavior and nanoscale de
               | For the first time, we apply the model to study the disturbances to hydrations due
               | to the introduction of an intrastromal inlay. A summary of the results and their
               | implications is given in chapter 8, along with comments on future work.
-meta          | Chapter 2
+title         | Chapter 2
 blank         | 
 title         | An electrolyte model for the ex
               | vivo cornea
@@ -1484,9 +1484,9 @@ meta          | CHAPTER 2. AN ELECTROLYTE MODEL
 blank         | 
               | 
               | 
-text          | 2.5.2     Keratocyte and collagen electrolyte volume exclusion
+title         | 2.5.2     Keratocyte and collagen electrolyte volume exclusion
               |           effects
-              | Predicted electrostatic swelling pressure component Pel , given by equation (2.22), is
+text          | Predicted electrostatic swelling pressure component Pel , given by equation (2.22), is
               | plotted against volume dilation J in figure 2.4a for three cases: no volume exclusion,
               | only collagen volume exclusion, and collagen and keratocyte volume exclusion. The
               | volume exclusion effects arising from these two stromal components are important for
@@ -1632,7 +1632,7 @@ text          | Figure 2.8: The effect of the ϕ and ϕ̂ on the electrostatic f
               | based and Donnan-based solutions for Pel agree well over the dilation range where
               | PG-coatings are well separated. The Donnan-based solution P̂el cannot capture the
               | effect of PG-coating overlap and thus loses accuracy at low hydration.
-meta          | Chapter 3
+title         | Chapter 3
 blank         | 
 title         | Modeling the active endothelial ion
               | transport in the in vivo cornea
@@ -2050,9 +2050,9 @@ text          | Figure 3.2: The computed osmotic pressure Pos versus volume dila
               | measurements (Olsen and Sperling, 1987). The measured modulus is given by K exp =
               | 39.12J −4.48 kPa, which is computed by the power law fit function for swelling pressure
               | Psexp = 7.56t−3.48 mmHg from Olsen and Sperling (1987).
-meta          | Chapter 4
+title         | Chapter 4
 blank         | 
-text          | A structural model for the in vivo
+title         | A structural model for the in vivo
               | human cornea including
               | collagen-swelling interaction
 blank         | 
@@ -3154,7 +3154,7 @@ text          | corneal dystrophy where the GAG concentration is found to be abn
               | respiration (Klyce, 1981). Extension of the model to include these multiple species and
               | their interactions through metabolic reactions for aerobic and anaerobic respiration
               | is presented in chapter 7.
-meta          | Chapter 5
+title         | Chapter 5
 blank         | 
 title         | Mechanisms of self-organization for
               | the collagen fibril arrangement in
@@ -3164,8 +3164,8 @@ title         | 5.1        Background
 text          | The GAGs have an important but less-understood role in the maintenance of the
               | lattice-like fibril arrangement. Keratan sulfate, the predominant stromal GAG com-
               | ponent, has been shown to be involved in modulating the fibril organization by the
-meta          |                         1
-text          | knockout of Chst5           in the mouse (Hayashida et al., 2006). Scott (1992) proposed
+              |                         1
+              | knockout of Chst5           in the mouse (Hayashida et al., 2006). Scott (1992) proposed
               | that two or more GAG chains, originating at different core proteins on neighboring
               | fibrils, may form an antiparallel duplexed association which appears as a bridge-like
               | structure spanning the interfibrillar distance in electron microscopy after staining,
@@ -3694,7 +3694,7 @@ text          | current model, PG/GAGs have been assumed to be distributed unifo
               | 2010; Quantock et al., 1990) or to genetically mutated corneas (Hayashida et al.,
               | 2006), which leads to a reduction in interfibrillar distance and a more chaotic fibril
               | organization due to the lack of PG regulation.
-meta          | Chapter 6
+title         | Chapter 6
 blank         | 
 title         | Fluid pressure across active
               | biological membrane in a charged
@@ -4277,9 +4277,9 @@ meta          | CHAPTER 6. ENHANCED KEDEM-KATCHALSKY EQUATIONS
 blank         | 
               | 
               | 
-text          | 6.6        Application to the endothelial transport in the
+title         | 6.6        Application to the endothelial transport in the
               |            in vivo cornea
-              | In this section, we present an example by applying equations (7.25, 6.42) to study
+text          | In this section, we present an example by applying equations (7.25, 6.42) to study
               | the endothelial ionic transport process of the in vivo cornea. The fluid and ion
               | exchanges across the endothelium controls the level of corneal hydration, which is a
               | crucial factor for the maintenance of the transparency of the tissue. Fixed charges
@@ -4549,9 +4549,9 @@ text          | is negative. This view of a positive stromal fluid pressure is c
               | underlying metabolic reactions (Schultz, 1980). This development requires identifica-
               | tion of the molecular mechanisms, and can potentially enhance the understanding of
               | active mechanism involvement in membrane transport.
-meta          | Chapter 7
+title         | Chapter 7
 blank         | 
-text          | A chemo-electro-mechanical model
+title         | A chemo-electro-mechanical model
               | for corneal metabolism
               | and edema
 blank         | 
@@ -5415,7 +5415,7 @@ blank         |
               | 
 text          | simplification. The effect of solute diffusivity on contact-lens-induced corneal swelling
               | will be investigated in section 7.4.3.
-blank         | 
+text          | 
 title         | Initial displacement caused by the IOP
 blank         | 
 text          | Fringe plot of the initial displacement, obtained by finite element solution of equa-
@@ -5648,9 +5648,9 @@ text          | Figure 7.11: The predicted fluid pressure variation ∆p through
               | thickness at five values of lens transmissibility for (a) DB− = 4.89 × 10−6 cm2 /s,
               | DL− = 4.4 × 10−6 cm2 /s and (b) DB− = 1.5 × 10−6 cm2 /s, DL− = 4.4 × 10−6 cm2 /s.
 blank         | 
-text          | 7.4.4    Biomechanical behavior after introduction of intrastro-
+title         | 7.4.4    Biomechanical behavior after introduction of intrastro-
               |          mal inlay
-              | The use of intrastromal inlay provides an alternative treatment to improve near and
+text          | The use of intrastromal inlay provides an alternative treatment to improve near and
               | intermediate vision in presbyopes without the removal of tissue (Arlt et al., 2015;
 meta          | CHAPTER 7. A CHEMO-ELECTRO-MECHANICAL MODEL                                           142
 blank         | 
@@ -5895,7 +5895,7 @@ text          | under extreme situations (Cheng et al., 2015; Muller et al., 200
               | which renders the displacement and fluid pressure as time-independent. However, the
               | theory is readily to be extended to transient cases, which may be useful for interpret-
               | ing experimental results that are obtained in acute situations.
-meta          | Chapter 8
+title         | Chapter 8
 blank         | 
 title         | Conclusions and future directions
 blank         | 

data/res/finder/bg599vt3743.ttx

@@ -389,7 +389,7 @@ blank         |
               | 
 meta          |                                       xvii
               | xviii
-              | Chapter 1
+title         | Chapter 1
 blank         | 
 title         | Introduction
 blank         | 
@@ -1568,7 +1568,7 @@ text          | as free components. There is minimal energy transfer to higher f
               | decrease. Interactions between periodic wave trains and a ridge can lead to as much
               | as 40% of the transmitted wave energy propagating as higher harmonic waves.
 meta          | 30   CHAPTER 2. HARMONIC WAVE GENERATION
-              | Chapter 3
+title         | Chapter 3
 blank         | 
 title         | Wave breaking criteria1
 blank         | 
@@ -3099,7 +3099,7 @@ text          | wave frequency, and thus the time scale associated with the wave
               | efficiency based on the instability mechanism, further study is needed to directly
               | measure the mixing efficiency of such breaking events.
 meta          | 72   CHAPTER 3. WAVE BREAKING CRITERIA
-              | Chapter 4
+title         | Chapter 4
 blank         | 
 title         | Overall event efficiency of breaking
               | interfacial waves at a ridge1
@@ -4009,7 +4009,7 @@ text          | was investigated. Between 30% and 65% of the incident wave energ
               | ocean from breaking internal waves, it appears a simple, constant mixing efficiency
               | is not appropriate as the wave properties, stratification and topography can lead to
               | spatially varying mixing conditions.
-meta          | Chapter 5
+title         | Chapter 5
 blank         | 
 title         | Local mixing processes in breaking
               | interfacial waves1
@@ -5145,7 +5145,7 @@ text          | Smyth et al., 2001). Others have taken the opposing view that tu
               | Froude numbers would tend to converge.
 blank         | 
               | 
-title         | What determines the turbulent Froude number?
+text          | What determines the turbulent Froude number?
 blank         | 
 text          | From figure 5.10, it appears that the turbulent Froude number is O(1) within the
               | turbulent patch resulting from wave breaking. It is reasonable that an internal wave
@@ -5477,7 +5477,7 @@ text          | Rf ≈ 0 within the lower layer, the resulting overall event eff
               | The overall efficiency may increase for waves breaking at a ridge in a more continuous
               | stratification, as boundary-induced turbulent kinetic energy dissipation would lead to
               | overturning of density gradients.
-meta          | Chapter 6
+title         | Chapter 6
 blank         | 
 title         | Conclusions and Future Work
 blank         | 

data/res/finder/bg608dx2253.ttx

@@ -180,7 +180,7 @@ blank         |
               | 
               | 
 meta          | viii
-              | Dedication
+title         | Dedication
 blank         | 
 text          |                          For my Wai-Wai
 blank         | 
@@ -3689,7 +3689,7 @@ blank         |
               | 
 meta          |                                                                                   115
               | 116
-              | APPENDIX A: Supporting information for
+title         | APPENDIX A: Supporting information for
               | Chapter 2
 blank         | 
 title         | A.1 Reactive Transport Modeling using MIN3P
@@ -4002,7 +4002,7 @@ blank         |
               | 
               | 
 meta          | 124
-              | APPENDIX B: Supporting Information for
+title         | APPENDIX B: Supporting Information for
               | Chapter 3
 blank         | 
 title         | B.1 Reactive Transport Modeling using MIN3P

data/res/finder/bh410qk3771.ttx

@@ -314,7 +314,7 @@ blank         |
 meta          | 	
                                          ix	
  
 title         |                              List of Tables
 blank         | 
-title         | Introduction
+text          | Introduction
 blank         | 
 text          | Table 1                CENP-A nomenclature in different species 60
 blank         | 
@@ -338,7 +338,7 @@ blank         |
 meta          | 	
                                 x	
  
 title         |                                    List of Figures
 blank         | 
-title         | Introduction
+text          | Introduction
 blank         | 
 text          | Figure 1       Chromatin and nucleosome structure                 58
 blank         | 
@@ -384,7 +384,7 @@ blank         |
               | 
               | 
 meta          | 	
                                        xi	
  
-              | Chapter 2
+text          | Chapter 2
 blank         | 
 text          | Figure 1    Characterization of X. laevis M18BP1.                  158
 blank         | 
@@ -3150,7 +3150,7 @@ text          | (aa1-373); oligomerization (aa74-244); CENP-A nucleosome binding
 blank         | 
 text          | DNA binding (aa422-537); dimerization (aa856-944); and centromere targeting
 blank         | 
-title         | (aa426-537; aa736-758, the CENP-C motif; and aa856-944, the cupin/dimerization
+text          | (aa426-537; aa736-758, the CENP-C motif; and aa856-944, the cupin/dimerization
 blank         | 
 text          | domain) (Carroll et al., 2010; Cohen et al., 2008; Fukagawa et al., 2001a; Heeger,
 blank         | 
@@ -3180,11 +3180,11 @@ blank         |
               | 
               | 
 meta          | 	
                                   60	
  
-text          |                                     Chapter 1
+title         |                                     Chapter 1
 blank         | 
-text          |        Development of an in vitro system for centromeric chromatin assembly in
+title         |        Development of an in vitro system for centromeric chromatin assembly in
 blank         | 
-text          |                            Xenopus laevis egg extracts.**
+title         |                            Xenopus laevis egg extracts.**
 blank         | 
               | 
               | 
@@ -4474,7 +4474,7 @@ text          | A and DNA is indicated above the panels. Calcium, xHJURP or myc-
 blank         | 
 text          | addition is shown to the left of each panel. Scale bar = 10µm.
 blank         | 
-title         | C) Quantification of myc-CENP-A fluorescence intensity at centromeres for the
+text          | C) Quantification of myc-CENP-A fluorescence intensity at centromeres for the
 blank         | 
 text          | assembly reactions represented in 1B, normalized to the metaphase control sample
 blank         | 
@@ -4558,7 +4558,7 @@ text          | variant, H2A.X-F (top band, 19 kD). In egg extract, H2A.X-F is
 blank         | 
 text          | chromatin with approximately equal stoichiometry to H2A. (Shechter et al., 2009).
 blank         | 
-title         | C) Quantification of CENP-A and H2A integrated
+text          | C) Quantification of CENP-A and H2A integrated
 blank         | 
 text          | intensities under each condition, normalized to the levels in metaphase
 blank         | 
@@ -4578,7 +4578,7 @@ text          | per condition. Time is in minutes. Error bars, SEM; n=3.
 blank         | 
               | 
               | 
-title         | Figure 4. xHJURP, myc-CENP-A, and the sperm chromatin
+text          | Figure 4. xHJURP, myc-CENP-A, and the sperm chromatin
 blank         | 
 text          | template do not need to pass through mitosis for efficient myc-CENP-A
 blank         | 
@@ -4623,7 +4623,7 @@ text          | Supplemental Figure Legends.
 blank         | 
               | 
               | 
-title         | Figure S1. Characterization of xHJURP-mediated CENP-A
+text          | Figure S1. Characterization of xHJURP-mediated CENP-A
 blank         | 
 text          | assembly assay in Xenopus egg extract.
 blank         | 
@@ -4805,15 +4805,15 @@ blank         |
               | 
               | 
 meta          | 	
                                          104	
  
-              |                                    Chapter 2
+title         |                                    Chapter 2
 blank         | 
-text          |        CENP-C recruits M18BP1 to centromeres to promote CENP-A chromatin
+title         |        CENP-C recruits M18BP1 to centromeres to promote CENP-A chromatin
 blank         | 
-text          |                                     assembly.**
+title         |                                     assembly.**
 blank         | 
               | 
               | 
-ref           | **Some content from (Moree, B.*, Meyer, C.B.*, Fuller, C.J., and Straight, A.F. 2011.
+text          | **Some content from (Moree, B.*, Meyer, C.B.*, Fuller, C.J., and Straight, A.F. 2011.
               | CENP-C recruits M18BP1 to centromeres to promote CENP-A chromatin assembly. J.
               |                             Cell Biol. 194:855-871.)
 blank         | 
@@ -5071,7 +5071,7 @@ blank         |
 meta          | 	
                                       111	
  
 title         | Results
 blank         | 
-text          | Characterization of X. laevis M18BP1.
+title         | Characterization of X. laevis M18BP1.
 blank         | 
 text          |        In human somatic cells and C. elegans, new CENP-A assembly requires the
 blank         | 
@@ -6240,7 +6240,7 @@ text          | immunofluorescence as described below. For CENP-A assembly assay
 blank         | 
 text          | M18BP1-depleted extracts (Figure 3C,D), 1 µl of HJURP IVT protein was added per
 blank         | 
-title         | 20 µl assembly reaction. For CENP-A assembly assays using CENP-C-depleted
+text          | 20 µl assembly reaction. For CENP-A assembly assays using CENP-C-depleted
 blank         | 
 text          | extracts, (Figure 6A,B) HJURP RNA was used instead of HJURP IVT protein.
 blank         | 
@@ -6307,7 +6307,7 @@ text          | bound to Dynabeads protein A beads (Invitrogen). For 100 µl of
 blank         | 
 text          | xM18BP1 antibody or 0.6 µg of α-CENP-C antibody was bound to 33 µl of beads in
 blank         | 
-title         | 10mM Tris-HCl, pH 7.4, 150mM NaCl, and 0.1% Triton X-100 for 1h at 4°C. An
+text          | 10mM Tris-HCl, pH 7.4, 150mM NaCl, and 0.1% Triton X-100 for 1h at 4°C. An
 blank         | 
 text          | equivalent amount of whole rabbit IgG was used for control depletions. The beads
 blank         | 
@@ -6336,7 +6336,7 @@ text          | of exposure to a magnet, washed four times with TBSTx buffer, an
 blank         | 
 text          | protein sample buffer (200 mM Tris pH 6.8, 40 mM EDTA, 0.05% bromophenol blue,
 blank         | 
-title         | 10% SDS, 50% glycerol). For immunoprecipitations of M18BP1-FLAG isoforms
+text          | 10% SDS, 50% glycerol). For immunoprecipitations of M18BP1-FLAG isoforms
 blank         | 
 text          | (Figure 6C,D) and myc-M18BP1 isoforms (Supplemental Figure 7A), 2 µl of
 blank         | 
@@ -6369,7 +6369,7 @@ text          | CENP-C-depleted extract. For M18BP1 addback experiments, 0.5 µl
 blank         | 
 text          | M18BP1-1-FLAG and M18BP1-2-FLAG IVT proteins (Figure 2C-E), or 1 µl of
 blank         | 
-title         | M18BP1-1-FLAG or M18BP1-2-FLAG IVT protein (Supplemental Figure 3), were
+text          | M18BP1-1-FLAG or M18BP1-2-FLAG IVT protein (Supplemental Figure 3), were
 blank         | 
 text          | added per 20 µl of M18BP1-depleted extract. For CENP-A assembly assays using
 blank         | 
@@ -7580,7 +7580,7 @@ text          | of centromeric chromatin containing H3 placeholder nucleosomes (
 blank         | 
               | 
               | 
-text          | Regulating the levels of CENP-A at centromeres
+title         | Regulating the levels of CENP-A at centromeres
 blank         | 
 text          |        The post-assembly levels of CENP-A are constant through rounds of division,
 blank         | 
@@ -7711,9 +7711,9 @@ text          | HJURP and RSF.
 blank         | 
               | 
               | 
-text          | Functional interactions between centromeric chromatin and pericentric
+title         | Functional interactions between centromeric chromatin and pericentric
 blank         | 
-text          | heterochromatin
+title         | heterochromatin
 blank         | 
 text          |        An exciting and largely unexplored future area of research is the functional
 blank         | 

data/res/finder/bh989ww6442.ttx

@@ -158,9 +158,9 @@ blank         |
 meta          |                                                 vi
 title         | Contents
 blank         | 
-title         | Abstract                                                                                                  iv
+text          | Abstract                                                                                                  iv
 blank         | 
-title         | Acknowledgments                                                                                           v
+text          | Acknowledgments                                                                                           v
 blank         | 
 text          | 1 Introduction                                                                                             1
               |   1.1   Motivation    . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .    1
@@ -894,7 +894,7 @@ blank         |
               | 
               | 
 meta          |                                                xxv
-              | Chapter 1
+title         | Chapter 1
 blank         | 
 title         | Introduction
 blank         | 
@@ -1591,7 +1591,7 @@ text          | partial differential equations, their discretization, and PDE-co
               | the number of parameters and state variables are comparable. Finally, Chapter 7 offers conclusions
               | and ideas for future research and Appendix D introduces an adjoint method for optimization of
               | time-dependent PDEs, possibly with periodicity constraints, discretized with high-order methods.
-meta          | Chapter 2
+title         | Chapter 2
 blank         | 
 title         | PDE-Constrained Optimization
 blank         | 
@@ -3243,7 +3243,7 @@ text          | Once the dual variable for each functional has been computed, th
               | bound on a QoI (not amenable to elimination) and the second requires time-periodicity of the PDE
               | solution (amenable to elimination). Nonlinear elimination is applied to the periodicity constraint
               | and the adjoint equations are modified accordingly.
-meta          | Chapter 3
+title         | Chapter 3
 blank         | 
 title         | Generalized Multifidelity Trust
               | Region Method
@@ -3957,7 +3957,7 @@ blank         |
 text          |                                                  µj+1
               |                                                   k   = µjk + αpjk
 blank         | 
-title         |  5:   BFGS update: Define sjk and ykj as
+text          |  5:   BFGS update: Define sjk and ykj as
 blank         | 
 text          |                               sjk = µj+1
               |                                      k   − µjk            ykj = ∇φγk (µj+1     γ   j
@@ -4744,7 +4744,7 @@ text          |                2.0000e+00     2.0002e+00    2.0000e+00     2.000
               |                2.0000e+00     2.0000e+00    2.0000e+00     2.0000e+00     5.5167e-05      3.0124e-01   1.3148e-05      True
               |                2.0000e+00     2.0000e+00    2.0000e+00     2.0000e+00     8.5278e-05    6.9467e+00     2.6296e-05      True
 meta          |                                                                                                                                                  76
-              | Chapter 4
+title         | Chapter 4
 blank         | 
 title         | Projection-Based Model Reduction
 blank         | 
@@ -6162,8 +6162,8 @@ text          | where all terms are evaluated at the linearization point. A vari
               | terpolation requires a sufficiently large mask such that P T r(u, µ) = 0 =⇒ r(u, µ) = 0. These
               | results are stated and proved in Proposition 4.7.
 blank         | 
-meta          | Proposition 4.7. Let (Φ∂ , Θ∂ , P ) define a masked minimum-residual sensitivity reduced-order
-              | CHAPTER 4. PROJECTION-BASED MODEL REDUCTION                                                                                       102
+text          | Proposition 4.7. Let (Φ∂ , Θ∂ , P ) define a masked minimum-residual sensitivity reduced-order
+meta          | CHAPTER 4. PROJECTION-BASED MODEL REDUCTION                                                                                       102
 blank         | 
               | 
               | 
@@ -6631,8 +6631,8 @@ text          |                                         U , Σ, V = ProbSVD(X, k
               |  2: Form Y = (AAT )q AΩ
               |  3: Compute QR factorization of Y: Y = QR
               |  4: Form B = QT A
-meta          |  5: Compute SVD of B = ŨΣVT
-title         |  6: Set U = QŨ
+              |  5: Compute SVD of B = ŨΣVT
+              |  6: Set U = QŨ
 blank         | 
               | 
 text          |       This completes the discussion of the algorithms that will prove useful in defining the trial basis
@@ -6886,8 +6886,8 @@ text          | This relations also ensure (4.35) and (4.63) of Propositions 4.3
 blank         | 
 text          |                                        Φ∂ = Φ         Φλ = Ψ,                                (4.147)
 blank         | 
-meta          | the minimum-residual sensitivity and adjoint reduced-order models for the LSPG projection follow
-              | CHAPTER 4. PROJECTION-BASED MODEL REDUCTION                                                       115
+text          | the minimum-residual sensitivity and adjoint reduced-order models for the LSPG projection follow
+meta          | CHAPTER 4. PROJECTION-BASED MODEL REDUCTION                                                       115
 blank         | 
               | 
               | 
@@ -6907,7 +6907,7 @@ text          | The above relationship satisfy all conditions in Propositions 4.
               | and interpolation that only holds under stricter assumptions on solutions of the discrete PDE. In this
               | work, the mask P is constructed solely from the primal reduced-order basis Φ and problem-specific
               | information following the approach in [198].
-meta          | Chapter 5
+title         | Chapter 5
 blank         | 
 title         | Optimization via Model Reduction
               | and Residual-Based Trust Regions
@@ -8375,8 +8375,8 @@ text          | Figure 5.5: Convergence history of various optimization solvers
               | (    ), adj-etr-intpt (    ), adj-ctr-intpt (    ), adj-ctr-stcg (    ).
 blank         | 
               | 
-title         | [52, 210].
-text          |                   The increased convergence rate, in terms of major iterations (and therefore HDM evaluations),
+text          | [52, 210].
+              |                   The increased convergence rate, in terms of major iterations (and therefore HDM evaluations),
               | of Algorithms 11 and 12 comes at the price of a large number of ROM evaluations. Figure 5.7 shows
               | the cumulative number of primal ROM queries as a function of major iteration and a histogram
               | of the number of primal ROM evaluations at a given reduced basis size (ku ). The methods that
@@ -9664,7 +9664,7 @@ text          |                                       HDM-based            ROM-b
               |               µ∗ − µRAE2822
               |                                      2.28 × 10−3 %        4.17 × 10−6 %
               |                kµRAE2822 k
-meta          | Chapter 6
+title         | Chapter 6
 blank         | 
 title         | Model Reduction and Sparse Grids
               | for Efficient Stochastic
@@ -10410,8 +10410,8 @@ blank         |
               | 
               | 
 title         | 6.3       Multifidelity Trust Region Method Based on Two-Level
-text          |           Approximation
-              | This section presents the primary contribution of this chapter: the use of sparse grids and model
+              |           Approximation
+text          | This section presents the primary contribution of this chapter: the use of sparse grids and model
               | reduction in the multifidelity trust region framework of Chapter 3 to yield an efficient algorithm for
               | stochastic PDE-constrained optimization. The approximation model, mk (µ), that is central to the
               | trust region theory will be taken as the two-level approximation of risk-averse measures of quantities
@@ -11119,8 +11119,8 @@ blank         |
               | 
               | 
 title         | 6.4     Numerical Experiment: Optimal Control of the Viscous
-text          |         Burgers’ Equation with Uncertain Coefficients
-              | This section studies the performance of the proposed algorithms (Algorithms 15 and 16) on a simple
+              |         Burgers’ Equation with Uncertain Coefficients
+text          | This section studies the performance of the proposed algorithms (Algorithms 15 and 16) on a simple
               | stochastic PDE-constrained optimization problem: optimal control of the one-dimensional viscous
               | Burgers’ equation with uncertain coefficients. This is precisely the stochastic counterpart to the
               | problem in Section 5.5.2 used to study the deterministic trust region algorithm based on reduced-
@@ -11458,7 +11458,7 @@ text          |            F (µk )     mk (µk )      F (µ̂k )     mk (µ̂k
               |          5.0405e-02   5.0404e-02   5.0403e-02   5.0401e-02    8.3139e-05   9.9946e-01    1.6000e+03    1.0000e+00
               |          5.0403e-02   5.0401e-02        -            -        2.2846e-06        -             -             -
 meta          |                                                                                                                                CHAPTER 6. STOCHASTIC PDE OPTIMIZATION WITH ROMS AND SPARSE GRIDS 204
-              | Chapter 7
+title         | Chapter 7
 blank         | 
 title         | Conclusions
 blank         | 
@@ -11577,7 +11577,7 @@ text          |    • Possible improvements to the proposed methods. A number o
               |       adjoint residual). Another possible enhancement that would have a positive and widespread
               |       impact across the methods proposed in this thesis is the use of improved, faster, and possibly
               |       probabilistic, [15] error indicators. In the trust region framework, these can either be used as
-              | CHAPTER 7. CONCLUSIONS                                                                          208
+meta          | CHAPTER 7. CONCLUSIONS                                                                          208
 blank         | 
               | 
               | 
@@ -12492,8 +12492,8 @@ text          | This section proposes a two-level, nested reduction strategy for
               | which will be combined in Section C.2 to develop the nested optimization algorithm.
 blank         | 
               | 
-text          | C.1.1     Outer Layer of Reduction: Restriction of Parameter Space
-              | The PDE-constrained optimization problem that motivates this work takes the form (reduced-space
+title         | C.1.1     Outer Layer of Reduction: Restriction of Parameter Space
+text          | The PDE-constrained optimization problem that motivates this work takes the form (reduced-space
               | formulation)
               |                                    minimize F (µ) := f (u(µ), µ)                                  (C.1)
               |                                     µ∈RNµ
@@ -12639,8 +12639,8 @@ text          | Thus, the adjoint computation requires the solution of one linea
               | transpose of the Jacobian matrix, regardless of kµ .
 blank         | 
               | 
-text          | C.1.2     Inner Layer of Reduction: Projection-Based Model Reduction
-              | While the first layer of reduction reduces the number of optimization variables, the large cost as-
+title         | C.1.2     Inner Layer of Reduction: Projection-Based Model Reduction
+text          | While the first layer of reduction reduces the number of optimization variables, the large cost as-
               | sociated with solving the PDE for any µ ∈ A(µ̄, Υ) remains since the dimensionality of the state
               | space, i.e., number of equations and unknowns, is Nu  1. The second layer of reduction aims
               | to address this source computational expense through the application of projection-based model
@@ -12917,8 +12917,8 @@ text          | where Qj is a matrix whose columns consist of problem-specific v
 blank         | 
               | 
 title         | C.2.2     Inner Iteration: Multifidelity Optimization with Reduced-Order
-text          |           Models
-              | Each iteration of the affine parameter space adaptation requires the solution of the PDE-constrained
+              |           Models
+text          | Each iteration of the affine parameter space adaptation requires the solution of the PDE-constrained
               | optimization problem (C.24), which can be written as an optimization problem in few variables
               | (kµ  Nµ ). Even though the optimization problem contains few variables, it is still expensive
               | to solve since each objective evaluation requires the solution of a potentially large-scale partial
@@ -13492,8 +13492,8 @@ blank         |
 text          |               (n)           (n)           (n)                (n)            (n)
               |             Ri (u(n−1) , k1 , . . . , ki , µ) = M ki               − ∆tn r ui , µ, tn−1 + ci ∆tn = 0
 blank         | 
-meta          | for n = 1, . . . , n and i = 1, . . . , s. Differentiation of these expressions with respect to µ gives rise to
-              | APPENDIX D. UNSTEADY, PERIODIC PDE-CONSTRAINED OPTIMIZATION                                                      246
+text          | for n = 1, . . . , n and i = 1, . . . , s. Differentiation of these expressions with respect to µ gives rise to
+meta          | APPENDIX D. UNSTEADY, PERIODIC PDE-CONSTRAINED OPTIMIZATION                                                      246
 blank         | 
               | 
               | 
@@ -15499,8 +15499,8 @@ blank         |
               | 
               | 
 title         | D.4.3        Generalized Reduced-Gradient Method for PDE Optimization with
-text          |              Time-Periodicity Constraints
-              | Consider the fully discrete time-dependent PDE-constrained optimization problem
+              |              Time-Periodicity Constraints
+text          | Consider the fully discrete time-dependent PDE-constrained optimization problem
 blank         | 
 text          |                                                                                      (1)
               |                              minimize            F (u(0) , . . . , u(Nt ) , k1 , . . . , ks(Nt ) , µ)