Mercurial > gemma
annotate pkg/imports/sr.go @ 1193:58acc343b1b6
Implemented the db stuff of the review process. Needs testing.
author | Sascha L. Teichmann <sascha.teichmann@intevation.de> |
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date | Fri, 16 Nov 2018 18:35:09 +0100 |
parents | 064d44ccc6f2 |
children | bc4b642c8d04 |
rev | line source |
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1017
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1 // This is Free Software under GNU Affero General Public License v >= 3.0 |
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2 // without warranty, see README.md and license for details. |
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3 // |
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4 // SPDX-License-Identifier: AGPL-3.0-or-later |
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5 // License-Filename: LICENSES/AGPL-3.0.txt |
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6 // |
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7 // Copyright (C) 2018 by via donau |
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8 // – Österreichische Wasserstraßen-Gesellschaft mbH |
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9 // Software engineering by Intevation GmbH |
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10 // |
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11 // Author(s): |
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12 // * Sascha L. Teichmann <sascha.teichmann@intevation.de> |
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13 |
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14 package imports |
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15 |
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16 import ( |
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17 "archive/zip" |
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18 "bufio" |
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19 "context" |
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20 "crypto/sha1" |
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21 "database/sql" |
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22 "encoding/hex" |
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23 "encoding/json" |
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24 "errors" |
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25 "fmt" |
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26 "io" |
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27 "math" |
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28 "os" |
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29 "path" |
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30 "path/filepath" |
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31 "strconv" |
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32 "strings" |
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33 "time" |
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34 |
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35 shp "github.com/jonas-p/go-shp" |
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36 |
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37 "gemma.intevation.de/gemma/pkg/octree" |
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38 ) |
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39 |
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40 type SoundingResult string |
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41 |
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42 const SoundingResultDateFormat = "2006-01-02" |
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43 |
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44 type ( |
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45 SoundingResultDate struct{ time.Time } |
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46 |
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47 SoundingResultMeta struct { |
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48 Date SoundingResultDate `json:"date"` |
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49 Bottleneck string `json:"bottleneck"` |
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50 EPSG uint `json:"epsg"` |
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51 DepthReference string `json:"depth-reference"` |
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52 } |
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53 ) |
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54 |
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55 const wgs84 = 4326 |
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56 |
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57 const ( |
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58 contourStepWidth = 0.1 |
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59 contourTolerance = 0.1 |
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60 ) |
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61 |
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62 const SRJobKind JobKind = "sr" |
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63 |
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64 type srJobCreator struct{} |
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65 |
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66 func init() { |
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67 RegisterJobCreator(SRJobKind, srJobCreator{}) |
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68 } |
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69 |
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70 func (srJobCreator) Create(_ JobKind, data string) (Job, error) { |
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71 return SoundingResult(data), nil |
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72 } |
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73 |
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74 func (srJobCreator) Depends() []string { |
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75 return []string{ |
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76 "waterway.sounding_results", |
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77 "waterway.sounding_results_contour_lines", |
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78 "waterway.bottlenecks", |
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79 } |
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80 } |
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81 |
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82 func (srJobCreator) StageDone( |
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83 tx *sql.Tx, |
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84 ctx context.Context, |
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85 id int64, |
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86 ) error { |
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87 _, err := tx.ExecContext(ctx, srStageDoneSQL, id) |
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88 return err |
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89 } |
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90 |
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91 const ( |
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92 srStageDoneSQL = ` |
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93 UPDATE waterway.sounding_results SET staging_done = true |
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94 WHERE id = $1` |
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95 |
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96 checkDepthReferenceSQL = ` |
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97 SELECT true FROM depth_references WHERE depth_reference = $1` |
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98 |
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99 checkBottleneckSQL = ` |
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100 SELECT true FROM waterway.bottlenecks WHERE objnam = $1` |
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101 |
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102 insertPointsSQL = ` |
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103 INSERT INTO waterway.sounding_results ( |
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104 bottleneck_id, |
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105 date_info, |
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106 depth_reference, |
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107 point_cloud, |
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108 area |
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109 ) VALUES ( |
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110 (SELECT bottleneck_id from waterway.bottlenecks where objnam = $1), |
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111 $2::date, |
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112 $3, |
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113 ST_Transform(ST_GeomFromWKB($4, $6::integer), 4326)::geography, |
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Fixed small glitches in sounding result importer.
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114 (SELECT CASE WHEN $5::bytea IS NULL THEN |
961
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115 ST_Transform( |
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116 ST_ConcaveHull( |
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117 ST_Force2D(ST_GeomFromWKB($4, $6::integer)), 0.7), 4326)::geography |
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118 ELSE |
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119 ST_Transform(ST_GeomFromWKB($5, $6::integer), 4326)::geography |
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120 END) |
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121 ) |
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122 RETURNING |
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123 id, |
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124 CASE WHEN ST_Y(ST_Centroid(point_cloud::geometry)) > 0 THEN |
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125 32600 |
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126 ELSE |
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127 32700 |
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128 END + floor((ST_X(ST_Centroid(point_cloud::geometry))+180)/6)::int + 1` |
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129 |
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130 insertOctreeSQL = ` |
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131 UPDATE waterway.sounding_results SET |
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132 octree_checksum = $2, octree_index = $3 |
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133 WHERE id = $1` |
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134 |
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135 insertContourSQL = ` |
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136 INSERT INTO waterway.sounding_results_contour_lines ( |
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137 sounding_result_id, |
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138 height, |
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|
139 lines |
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|
140 ) |
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|
141 SELECT |
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142 $1, |
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143 $2, |
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|
144 ST_Transform( |
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|
145 ST_Multi( |
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|
146 ST_CollectionExtract( |
1137
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|
147 ST_SimplifyPreserveTopology( |
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148 ST_GeomFromWKB($4, $3::integer), |
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149 $5 |
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|
150 ), |
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|
151 2 |
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|
152 ) |
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|
153 ), |
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|
154 4326 |
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|
155 ) |
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|
156 FROM waterway.sounding_results sr |
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157 WHERE id = $1 |
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|
158 ` |
961
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|
159 ) |
959
6ab012d0f0c2
Started with writing an importer job for sounding results.
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160 |
1168
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|
161 func (sr SoundingResult) Do( |
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162 importID int64, |
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163 ctx context.Context, |
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164 conn *sql.Conn, |
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165 feedback Feedback, |
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|
166 ) error { |
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|
167 |
991
a301d240905f
Decoupled import job creation and job execution with a factory function.
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diff
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|
168 z, err := zip.OpenReader(filepath.Join(string(sr), "sr.zip")) |
988
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In preparation of persisting import jobs logging is done through an interface.
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169 if err != nil { |
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|
170 return err |
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|
171 } |
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|
172 defer z.Close() |
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|
173 |
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443fc80a315f
Don't issue new lines at end of log messages when importing.
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|
174 feedback.Info("Looking for 'meta.json'") |
988
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|
175 mf := find("meta.json", z.File) |
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In preparation of persisting import jobs logging is done through an interface.
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|
176 if mf == nil { |
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In preparation of persisting import jobs logging is done through an interface.
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|
177 return errors.New("Cannot find 'meta.json'") |
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178 } |
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179 |
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180 m, err := loadMeta(mf) |
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|
181 if err != nil { |
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|
182 return err |
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183 } |
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184 |
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|
185 if err := m.validate(conn); err != nil { |
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|
186 return err |
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187 } |
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|
188 |
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189 feedback.Info("Looking for '*.xyz'") |
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|
190 xyzf := find(".xyz", z.File) |
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191 if xyzf == nil { |
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192 return errors.New("Cannot find any *.xyz file") |
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193 } |
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194 |
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195 xyz, err := loadXYZ(xyzf, feedback) |
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196 if err != nil { |
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197 return err |
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198 } |
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199 |
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200 if len(xyz) == 0 { |
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201 return errors.New("XYZ does not contain any vertices.") |
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202 } |
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203 |
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204 // Is there a boundary shapefile in the ZIP archive? |
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In preparation of persisting import jobs logging is done through an interface.
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|
205 polygon, err := loadBoundary(z) |
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|
206 if err != nil { |
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207 return err |
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208 } |
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209 |
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In preparation of persisting import jobs logging is done through an interface.
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|
210 tx, err := conn.BeginTx(ctx, nil) |
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In preparation of persisting import jobs logging is done through an interface.
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211 if err != nil { |
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In preparation of persisting import jobs logging is done through an interface.
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212 return err |
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213 } |
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In preparation of persisting import jobs logging is done through an interface.
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|
214 defer tx.Rollback() |
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215 |
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216 var id int64 |
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217 var epsg uint32 |
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218 start := time.Now() |
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219 |
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220 err = tx.QueryRow(insertPointsSQL, |
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221 m.Bottleneck, |
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222 m.Date.Time, |
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223 m.DepthReference, |
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224 xyz.AsWKB(), |
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225 polygon.AsWBK(), |
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226 m.EPSG, |
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227 ).Scan(&id, &epsg) |
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228 xyz, polygon = nil, nil // not need from now on. |
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229 feedback.Info("storing points took %s", time.Since(start)) |
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230 if err != nil { |
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231 return err |
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232 } |
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233 |
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234 feedback.Info("Best suited UTM EPSG: %d", epsg) |
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235 |
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236 feedback.Info("Triangulate...") |
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237 start = time.Now() |
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238 tin, err := octree.GenerateTinByID(conn, ctx, id, epsg) |
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239 feedback.Info("triangulation took %s", time.Since(start)) |
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240 if err != nil { |
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241 return err |
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242 } |
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243 |
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244 if tin == nil { |
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245 return errors.New("cannot load TIN from database") |
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246 } |
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247 |
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248 feedback.Info("Building octree...") |
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249 builder := octree.NewBuilder(tin) |
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250 start = time.Now() |
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251 builder.Build() |
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252 octreeIndex, err := builder.Bytes() |
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253 tin = nil // not needed from now on |
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254 feedback.Info("building octree took %s", time.Since(start)) |
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255 if err != nil { |
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256 return err |
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257 } |
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258 |
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259 feedback.Info("Store octree...") |
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260 start = time.Now() |
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261 h := sha1.New() |
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262 h.Write(octreeIndex) |
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263 checksum := hex.EncodeToString(h.Sum(nil)) |
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264 _, err = tx.Exec(insertOctreeSQL, id, checksum, octreeIndex) |
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265 feedback.Info("storing octree index took %s", time.Since(start)) |
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266 if err != nil { |
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267 return err |
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268 } |
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269 |
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270 tree := builder.Tree() |
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271 builder = nil // not needed from now on |
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272 |
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273 feedback.Info("Generate contour lines...") |
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274 start = time.Now() |
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275 err = generateContours(tree, tx, id) |
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276 feedback.Info("generating and storing contour lines took %s", time.Since(start)) |
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277 if err != nil { |
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278 return err |
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279 } |
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280 |
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281 // Store for potential later removal. |
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282 if err = track(tx, ctx, importID, "waterway.sounding_results", id); err != nil { |
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283 return err |
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284 } |
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285 |
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286 if err = tx.Commit(); err == nil { |
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287 feedback.Info("Storing sounding result was successful.") |
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288 } |
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289 return err |
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290 } |
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291 |
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292 func (srd *SoundingResultDate) UnmarshalJSON(data []byte) error { |
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293 var s string |
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294 if err := json.Unmarshal(data, &s); err != nil { |
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295 return err |
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296 } |
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297 d, err := time.Parse(SoundingResultDateFormat, s) |
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298 if err == nil { |
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299 *srd = SoundingResultDate{d} |
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300 } |
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301 return err |
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302 } |
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303 |
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304 func (sr SoundingResult) CleanUp() error { |
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305 return os.RemoveAll(string(sr)) |
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306 } |
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307 |
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308 func find(needle string, haystack []*zip.File) *zip.File { |
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309 needle = strings.ToLower(needle) |
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310 for _, straw := range haystack { |
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311 if strings.HasSuffix(strings.ToLower(straw.Name), needle) { |
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312 return straw |
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313 } |
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314 } |
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315 return nil |
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316 } |
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317 |
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318 func loadMeta(f *zip.File) (*SoundingResultMeta, error) { |
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319 r, err := f.Open() |
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320 if err != nil { |
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321 return nil, err |
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322 } |
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323 defer r.Close() |
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324 var m SoundingResultMeta |
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325 err = json.NewDecoder(r).Decode(&m) |
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326 if err == nil { |
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327 if m.EPSG == 0 { |
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328 m.EPSG = wgs84 |
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329 } |
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330 } |
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331 return &m, err |
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332 } |
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333 |
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334 func (m *SoundingResultMeta) validate(conn *sql.Conn) error { |
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335 |
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336 var b bool |
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337 err := conn.QueryRowContext(context.Background(), |
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338 checkDepthReferenceSQL, |
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339 m.DepthReference).Scan(&b) |
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340 switch { |
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341 case err == sql.ErrNoRows: |
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342 return fmt.Errorf("Unknown depth reference '%s'\n", m.DepthReference) |
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343 case err != nil: |
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344 return err |
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345 case !b: |
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346 return errors.New("Unexpected depth reference") |
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347 } |
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348 |
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349 err = conn.QueryRowContext(context.Background(), |
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350 checkBottleneckSQL, |
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351 m.Bottleneck).Scan(&b) |
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352 switch { |
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353 case err == sql.ErrNoRows: |
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354 return fmt.Errorf("Unknown bottleneck '%s'\n", m.Bottleneck) |
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355 case err != nil: |
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356 return err |
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357 case !b: |
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358 return errors.New("Unexpected bottleneck") |
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359 } |
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360 |
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361 return nil |
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362 } |
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363 |
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364 func loadXYZReader(r io.Reader, feedback Feedback) (octree.MultiPointZ, error) { |
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365 mpz := make(octree.MultiPointZ, 0, 250000) |
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366 s := bufio.NewScanner(r) |
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367 |
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368 for line := 1; s.Scan(); line++ { |
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369 text := s.Text() |
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370 var p octree.Vertex |
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371 // fmt.Sscanf(text, "%f,%f,%f") is 4 times slower. |
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372 idx := strings.IndexByte(text, ',') |
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373 if idx == -1 { |
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374 feedback.Warn("format error in line %d", line) |
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375 continue |
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376 } |
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377 var err error |
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378 if p.X, err = strconv.ParseFloat(text[:idx], 64); err != nil { |
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379 feedback.Warn("format error in line %d: %v", line, err) |
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380 continue |
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381 } |
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382 text = text[idx+1:] |
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383 if idx = strings.IndexByte(text, ','); idx == -1 { |
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384 feedback.Warn("format error in line %d", line) |
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385 continue |
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386 } |
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387 if p.Y, err = strconv.ParseFloat(text[:idx], 64); err != nil { |
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388 feedback.Warn("format error in line %d: %v", line, err) |
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389 continue |
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390 } |
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391 text = text[idx+1:] |
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392 if p.Z, err = strconv.ParseFloat(text, 64); err != nil { |
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393 feedback.Warn("format error in line %d: %v", line, err) |
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394 continue |
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395 } |
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396 mpz = append(mpz, p) |
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397 } |
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398 |
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399 if err := s.Err(); err != nil { |
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400 return nil, err |
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401 } |
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402 |
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403 return mpz, nil |
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404 } |
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405 |
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406 func loadXYZ(f *zip.File, feedback Feedback) (octree.MultiPointZ, error) { |
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407 r, err := f.Open() |
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408 if err != nil { |
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409 return nil, err |
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410 } |
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411 defer r.Close() |
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412 return loadXYZReader(r, feedback) |
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413 } |
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414 |
960
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415 func loadBoundary(z *zip.ReadCloser) (Polygon, error) { |
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416 shpF := find(".shp", z.File) |
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417 if shpF == nil { |
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418 return nil, nil |
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419 } |
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420 prefix := strings.TrimSuffix(shpF.Name, path.Ext(shpF.Name)) |
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421 dbfF := find(prefix+".dbf", z.File) |
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422 if dbfF == nil { |
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423 return nil, fmt.Errorf("No DBF file found for %s", shpF.Name) |
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424 } |
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425 |
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426 shpR, err := shpF.Open() |
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427 if err != nil { |
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428 return nil, err |
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429 } |
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430 |
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Load boundary polygon of sounding result from ZIP file.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
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diff
changeset
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431 dbfR, err := dbfF.Open() |
e23ae2c83427
Load boundary polygon of sounding result from ZIP file.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
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diff
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432 if err != nil { |
e23ae2c83427
Load boundary polygon of sounding result from ZIP file.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
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diff
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|
433 shpR.Close() |
e23ae2c83427
Load boundary polygon of sounding result from ZIP file.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
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434 return nil, err |
e23ae2c83427
Load boundary polygon of sounding result from ZIP file.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
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diff
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|
435 } |
e23ae2c83427
Load boundary polygon of sounding result from ZIP file.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
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diff
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|
436 sr := shp.SequentialReaderFromExt(shpR, dbfR) |
e23ae2c83427
Load boundary polygon of sounding result from ZIP file.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
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diff
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437 defer sr.Close() |
e23ae2c83427
Load boundary polygon of sounding result from ZIP file.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
959
diff
changeset
|
438 |
e23ae2c83427
Load boundary polygon of sounding result from ZIP file.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
959
diff
changeset
|
439 if !sr.Next() { |
e23ae2c83427
Load boundary polygon of sounding result from ZIP file.
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parents:
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diff
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|
440 return nil, sr.Err() |
e23ae2c83427
Load boundary polygon of sounding result from ZIP file.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
959
diff
changeset
|
441 } |
e23ae2c83427
Load boundary polygon of sounding result from ZIP file.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
959
diff
changeset
|
442 |
e23ae2c83427
Load boundary polygon of sounding result from ZIP file.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
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diff
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|
443 _, s := sr.Shape() |
e23ae2c83427
Load boundary polygon of sounding result from ZIP file.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
959
diff
changeset
|
444 if s == nil { |
e23ae2c83427
Load boundary polygon of sounding result from ZIP file.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
959
diff
changeset
|
445 return nil, sr.Err() |
e23ae2c83427
Load boundary polygon of sounding result from ZIP file.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
959
diff
changeset
|
446 } |
e23ae2c83427
Load boundary polygon of sounding result from ZIP file.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
959
diff
changeset
|
447 |
972
17a03a84b0e8
Split out polygon code out of sounding result importer source file.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
971
diff
changeset
|
448 return shapeToPolygon(s) |
960
e23ae2c83427
Load boundary polygon of sounding result from ZIP file.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
959
diff
changeset
|
449 } |
e23ae2c83427
Load boundary polygon of sounding result from ZIP file.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
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diff
changeset
|
450 |
977
4a2ca0e20006
Fixed build error.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
976
diff
changeset
|
451 func generateContours(tree *octree.Tree, tx *sql.Tx, id int64) error { |
4a2ca0e20006
Fixed build error.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
976
diff
changeset
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452 stmt, err := tx.Prepare(insertContourSQL) |
4a2ca0e20006
Fixed build error.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
976
diff
changeset
|
453 if err != nil { |
4a2ca0e20006
Fixed build error.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
976
diff
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|
454 return err |
4a2ca0e20006
Fixed build error.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
976
diff
changeset
|
455 } |
4a2ca0e20006
Fixed build error.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
976
diff
changeset
|
456 defer stmt.Close() |
4a2ca0e20006
Fixed build error.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
976
diff
changeset
|
457 |
1184
064d44ccc6f2
Adjust contour lines heights to multiples of step width
Tom Gottfried <tom@intevation.de>
parents:
1168
diff
changeset
|
458 // Adjust contour lines heights to multiples of contourStepWidth |
064d44ccc6f2
Adjust contour lines heights to multiples of step width
Tom Gottfried <tom@intevation.de>
parents:
1168
diff
changeset
|
459 heights := make([]float64, 0) |
064d44ccc6f2
Adjust contour lines heights to multiples of step width
Tom Gottfried <tom@intevation.de>
parents:
1168
diff
changeset
|
460 h := contourStepWidth * math.Ceil(tree.Min.Z/contourStepWidth) |
064d44ccc6f2
Adjust contour lines heights to multiples of step width
Tom Gottfried <tom@intevation.de>
parents:
1168
diff
changeset
|
461 for ; h <= tree.Max.Z; h += contourStepWidth { |
064d44ccc6f2
Adjust contour lines heights to multiples of step width
Tom Gottfried <tom@intevation.de>
parents:
1168
diff
changeset
|
462 heights = append(heights, h) |
064d44ccc6f2
Adjust contour lines heights to multiples of step width
Tom Gottfried <tom@intevation.de>
parents:
1168
diff
changeset
|
463 } |
064d44ccc6f2
Adjust contour lines heights to multiples of step width
Tom Gottfried <tom@intevation.de>
parents:
1168
diff
changeset
|
464 |
064d44ccc6f2
Adjust contour lines heights to multiples of step width
Tom Gottfried <tom@intevation.de>
parents:
1168
diff
changeset
|
465 octree.DoContours(tree, heights, func(res *octree.ContourResult) { |
977
4a2ca0e20006
Fixed build error.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
976
diff
changeset
|
466 if err == nil { |
4a2ca0e20006
Fixed build error.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
976
diff
changeset
|
467 _, err = stmt.Exec( |
4a2ca0e20006
Fixed build error.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
976
diff
changeset
|
468 id, res.Height, tree.EPSG, |
4a2ca0e20006
Fixed build error.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
976
diff
changeset
|
469 res.Lines.AsWKB2D(), |
4a2ca0e20006
Fixed build error.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
976
diff
changeset
|
470 contourTolerance) |
4a2ca0e20006
Fixed build error.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
976
diff
changeset
|
471 } |
4a2ca0e20006
Fixed build error.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
976
diff
changeset
|
472 }) |
4a2ca0e20006
Fixed build error.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
976
diff
changeset
|
473 |
4a2ca0e20006
Fixed build error.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
976
diff
changeset
|
474 return err |
4a2ca0e20006
Fixed build error.
Sascha L. Teichmann <sascha.teichmann@intevation.de>
parents:
976
diff
changeset
|
475 } |