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comparison macros.xml @ 0:5354615b21fc draft default tip

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"planemo upload for repository https://gitlab.com/eetun-tiimi/EODIE commit c4a5672398bc878dd2bc0bf4f3a26f59b3f6395c"
author climate
date Thu, 30 Dec 2021 15:23:24 +0000
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-1:000000000000 0:5354615b21fc
1 <macros>
2 <token name="@VERSION@">1.0.2</token>
3 <xml name="edam_ontology">
4 <edam_topics>
5 <edam_topic>topic_0610</edam_topic>
6 <edam_topic>topic_3050</edam_topic>
7 </edam_topics>
8 </xml>
9 <xml name="configfiles">
10 <configfiles>
11 <configfile name="config_tif"><![CDATA[
12 platform: tif
13
14 ##the first that is found is used
15 datepattern: '20[1-2][0-9][0-1][0-9][0-3][0-9]'
16
17 ##name to write into output statistics filename
18 name: 'testrgb'
19 ]]> </configfile>
20 <configfile name="config_s2"><![CDATA[
21 ####
22
23 ## Configuration file for the use of Sentinel-2 ##
24
25 ## Know what you do before you change anything here ##
26
27 ####
28
29 platform: 's2'
30
31 ## Mask conditions are stored as values, not as bitflags
32 bitmask: 0
33 ## Values to be to be included in cloudmask
34 ## default [9,8,3,10,0,1]
35 tobemaskedlist:
36 - 9 ## cloud high probability
37 - 8 ## cloud medium probability
38 - 3 ## cloud shadow
39 - 10 ## cirrus
40 - 0 ## no data
41 - 1 ## saturated and defective
42
43 ##pattern to find all data files
44 filepattern: 'S2[A-C]_MSIL2A_\d{8}T\d{6}_N\d{4}_R\d{3}_T\d{2}[A-Z]{3}_\d{8}T\d{6}.SAFE$'
45
46 ## Sentinel-2 bands
47 red : 'B04'
48 green: 'B03'
49 blue: 'B02'
50 nir: 'B08'
51 r_edge: 'B05'
52 swir1: 'B11'
53 swir2: 'B12'
54
55 ## some part of the products file name that identifies them as product to be used
56 productnameidentifier: 'S2*.SAFE'
57
58 ## parts to build path towards bands
59 bandlocation: ['.','*','*','IMG_DATA']
60
61 ## path building set after imgpath to get the bandfile
62 pathbuildinglist: ['R', 'pixelsize' , 'm','*', 'bandname', '_' , 'pixelsize' ,'m.jp2']
63
64 ##indicator for cloudfile
65 cloudfilename: 'SCL'
66
67 tilepattern: '(?<=T)[0-9]{2}[A-Z]{3}'
68
69 ##the first that is found is used
70 datepattern: '20[1-2][0-9][0-1][0-9][0-3][0-9]'
71
72 band_designation: 'B[0-1]?\dA?'
73
74 ## Quantification value used to multiple the reflectance to get DN
75 ## This could be read from metadata but for now at least is here
76 quantification_value: 10000
77
78 ## available resolutions per band
79 B01: [60]
80 B02: [10,20,60]
81 B03: [10,20,60]
82 B04: [10,20,60]
83 B05: [20,60]
84 B06: [20,60]
85 B07: [20,60]
86 B08: [10]
87 B8A: [20,60]
88 B09: [60]
89 B11: [20,60]
90 B12: [20,60]
91 SCL: [20,60]
92 AOT: [10,20,60]
93 TCI: [10,20,60]
94 WVP: [10,20,60]
95 ]]> </configfile>
96 <configfile name="config_ls8"><![CDATA[
97 platform: 'ls8'
98
99 ## Process only files with less than xx % cloudcover
100 maxcloudcover: 10
101
102
103 ## Mask conditions are not stored as values, but as individual 0/1 flags in bits
104 bitmask: 1
105 ## Bits to be to be included in cloudmask
106 ## https://prd-wret.s3.us-west-2.amazonaws.com/assets/palladium/production/atoms/files/LSDS-1328_Landsat8-9-OLI-TIRS-C2-L2-DFCB-v6.pdf
107 tobemaskedlist:
108 - 0 ## Fill data
109 - 1 ## Dilated cloud
110 - 2 ## Cirrus
111 - 3 ## Cloud
112 - 4 ## Cloud shadow
113 - 5 ## Snow
114 - 9 ## Cloud medium to high confidence
115 - 11 ## Cloud shadow high confidence
116 - 13 ## Snow/Ice high confidence
117 - 15 ## Cirrus high confidence
118
119
120 ##pattern to find all data files
121 filepattern: 'LC08_L\d.._\d{6}_\d{8}_\d{8}_02_[TR][12T]$'
122
123 ##all bands are located in parent directory directly
124 bandlocation: ['.']
125
126 ##indicator for cloudfile
127 cloudfilename: 'QA_PIXEL'
128
129 ## LS8 bands
130 ## https://www.usgs.gov/media/images/landsat-8-band-designations
131 red : 'B4'
132 green: 'B3'
133 blue: 'B2'
134 nir: 'B5'
135 swir1: 'B6'
136 swir2: 'B7'
137
138 tilepattern: '[0-9]{6}'
139
140 ## the first that is found is used
141 datepattern: '20[1-2][0-9][0-1][0-9][0-3][0-9]'
142
143 band_designation: 'B\d?\d'
144
145 ##???????????
146 ## Quantification value used to multiple the reflectance to get DN
147 ## This could be read from metadata but for now at least is here
148 quantification_value: 65535
149
150 ## available resolutions per band
151 B1: [30]
152 B2: [30]
153 B3: [30]
154 B4: [30]
155 B5: [30]
156 B6: [30]
157 B7: [30]
158 QA_PIXEL: [30]
159 ## to be continued
160
161 ##upsampling (converting to higher resolution/smaller cells) / downsampling (converting to lower resolution/larger cellsize)
162 ##available: ‘nearest’, ‘bilinear’, ‘cubic’, ‘cubic_spline’, ‘lanczos’, ‘average’, ‘mode’, and ‘gauss’,
163 ## from https://rasterio.readthedocs.io/en/latest/api/rasterio.enums.html#rasterio.enums.Resampling
164
165 resampling_method: 'bilinear'
166
167
168 ## path building set *after inpath* to get the bandfile
169
170 pathbuildinglist: ['*', 'bandname', '*' , '.TIF']
171 ]]> </configfile>
172 <configfile name="user_config"><![CDATA[
173 ####
174
175 ## Configuration file for adjusting the process/results and give paths ##
176
177 ####
178
179 ## Process only files with less than xx % cloudcover
180 maxcloudcover: 99
181
182 ## Extract files with xx m pixel size
183 ## options: 10,20 (for Sentinel-2)
184 ## options: 30 (for Landsat8)
185
186 #if str($input_type.platform) == 'ls8'
187 pixelsize: 30
188 #else
189 pixelsize: 10
190 #end if
191
192 ##resampling (converting to higher/lower resolution/smaller cells)
193 ##available: 'biliner','nearest','cubic','average', ...
194 ## from https://rasterio.readthedocs.io/en/latest/api/rasterio.enums.html#rasterio.enums.Resampling
195
196 resampling_method: 'bilinear'
197
198 ##location of the shapefile with tiles (Sentinel2-tiles-world in case of Sentinel-2, WRS2_descending in case of Landsat 8)
199 #if str($input_type.platform) == 's2'
200 tileshp: './sentinel2_tiles_world/sentinel2_tiles_world'
201 #elif str($input_type.platform) == 'ls8'
202 tileshp: './WRS2_descending/WRS2_descending'
203 #end if
204
205 ##name of field where tilenames are stored in shapefile ('Name' in case of sentinel2_tiles_world, 'PR' in case of WRS2_descending )
206 #if str($input_type.platform) == 'ls8'
207 fieldname: 'PR'
208 #else
209 fieldname: 'Name'
210 #end if
211
212 ## Lookup table for storing the tiles and the IDs they include for every tile processed by EODIE with --array_out
213 ## Table needed for array plotting
214 lookup: './postprocesses/lookuptable.txt'
215 ]]> </configfile>
216 </configfiles>
217 </xml>
218 <xml name="citations">
219 <citations>
220 <citation type="doi">10.5281/zenodo.4762323</citation>
221 </citations>
222 </xml>
223 </macros>