Workflow Type: Galaxy
Open
Frozen
Workflow for GTN Pangeo 101 for everyone - Introduction to Xarray
Associated Tutorial
This workflows is part of the tutorial GTN 'Pangeo 101 for everyone - Xarray', available in the GTN
Thanks to...
Tutorial Author(s): Anne Fouilloux
Workflow Author(s): Anne Fouilloux
Inputs
ID | Name | Description | Type |
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CAMS-PM2_5-20211222.netcdf | CAMS-PM2_5-20211222.netcdf | netCDF input (4 days forecast) of PM2.5 from Copernicus Atmosphere Monitoring Service https://ads.atmosphere.copernicus.eu/#!/home As an example https://doi.org/10.5281/zenodo.5805953 |
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plot first time e.g. index=0 | plot first time e.g. index=0 | Which index to plot. Default is the first one e.g. 0 |
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plot forecast time 2 days 12:00 UTC | plot forecast time 2 days 12:00 UTC | Which index to plot. Default is the first one e.g. 60 |
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time=0 | time=0 | Select time index 9 for plotting |
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time=1 | time=1 | Select time index 1 for plotting |
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time=2 | time=2 | Select time index 2 for plotting |
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time=3 | time=3 | Select time index 3 for plotting |
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time=4 | time=4 | Select time index 4 for plotting |
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time=5 | time=5 | Select time index 5 for plotting |
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time=6 | time=6 | Select time index 6 for plotting |
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time=7 | time=7 | Select time index 7 for plotting |
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Steps
ID | Name | Description |
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11 | NetCDF xarray Coordinate Info | toolshed.g2.bx.psu.edu/repos/ecology/xarray_coords_info/xarray_coords_info/0.18.2+galaxy0 |
12 | NetCDF xarray Metadata Info | toolshed.g2.bx.psu.edu/repos/ecology/xarray_metadata_info/xarray_metadata_info/0.15.1 |
13 | extract longitude | __EXTRACT_DATASET__ |
14 | extract latitude | __EXTRACT_DATASET__ |
15 | Extract time from coordinate info | This step is used to extract time from all the coordinates. __EXTRACT_DATASET__ |
16 | NetCDF xarray operations | toolshed.g2.bx.psu.edu/repos/ecology/xarray_netcdf2netcdf/xarray_netcdf2netcdf/0.18.2+galaxy0 |
17 | NetCDF xarray operations | toolshed.g2.bx.psu.edu/repos/ecology/xarray_netcdf2netcdf/xarray_netcdf2netcdf/0.18.2+galaxy0 |
18 | NetCDF xarray operations | toolshed.g2.bx.psu.edu/repos/ecology/xarray_netcdf2netcdf/xarray_netcdf2netcdf/0.18.2+galaxy0 |
19 | PM2.5 CAMS Europe 0 days 00:00 UTC (reference time) | Map of PM2.5 for the reference date and time. toolshed.g2.bx.psu.edu/repos/ecology/xarray_mapplot/xarray_mapplot/0.18.2+galaxy0 |
20 | PM2.5 CAMS forecast 2 days 12:00 UTC | one map plot for the entire region (here Europe) and for day 2 12:00 UTC. toolshed.g2.bx.psu.edu/repos/ecology/xarray_mapplot/xarray_mapplot/0.18.2+galaxy0 |
21 | NetCDF xarray Selection | toolshed.g2.bx.psu.edu/repos/ecology/xarray_select/xarray_select/0.15.1 |
22 | NetCDF xarray Coordinate Info | toolshed.g2.bx.psu.edu/repos/ecology/xarray_coords_info/xarray_coords_info/0.18.2+galaxy0 |
23 | NetCDF xarray Coordinate Info | toolshed.g2.bx.psu.edu/repos/ecology/xarray_coords_info/xarray_coords_info/0.18.2+galaxy0 |
24 | NetCDF xarray Metadata Info | toolshed.g2.bx.psu.edu/repos/ecology/xarray_metadata_info/xarray_metadata_info/0.15.1 |
25 | Column Regex Find And Replace | toolshed.g2.bx.psu.edu/repos/galaxyp/regex_find_replace/regexColumn1/1.0.1 |
26 | PM2.5 over Naples (4 days forecast) | toolshed.g2.bx.psu.edu/repos/iuc/ggplot2_point/ggplot2_point/2.2.1+galaxy2 |
27 | Extract times from coordinates | __EXTRACT_DATASET__ |
28 | Extract time | __EXTRACT_DATASET__ |
29 | stripes PM2.5 over Naples (4 days forecast) | toolshed.g2.bx.psu.edu/repos/climate/climate_stripes/climate_stripes/1.0.1 |
30 | NetCDF xarray map plotting | toolshed.g2.bx.psu.edu/repos/ecology/xarray_mapplot/xarray_mapplot/0.18.2+galaxy0 |
31 | NetCDF xarray map plotting | toolshed.g2.bx.psu.edu/repos/ecology/xarray_mapplot/xarray_mapplot/0.18.2+galaxy0 |
32 | NetCDF xarray map plotting | toolshed.g2.bx.psu.edu/repos/ecology/xarray_mapplot/xarray_mapplot/0.18.2+galaxy0 |
33 | NetCDF xarray map plotting | toolshed.g2.bx.psu.edu/repos/ecology/xarray_mapplot/xarray_mapplot/0.18.2+galaxy0 |
34 | NetCDF xarray map plotting | toolshed.g2.bx.psu.edu/repos/ecology/xarray_mapplot/xarray_mapplot/0.18.2+galaxy0 |
35 | NetCDF xarray map plotting | toolshed.g2.bx.psu.edu/repos/ecology/xarray_mapplot/xarray_mapplot/0.18.2+galaxy0 |
36 | NetCDF xarray map plotting | toolshed.g2.bx.psu.edu/repos/ecology/xarray_mapplot/xarray_mapplot/0.18.2+galaxy0 |
37 | NetCDF xarray map plotting | toolshed.g2.bx.psu.edu/repos/ecology/xarray_mapplot/xarray_mapplot/0.18.2+galaxy0 |
38 | NetCDF xarray map plotting | toolshed.g2.bx.psu.edu/repos/ecology/xarray_mapplot/xarray_mapplot/0.18.2+galaxy0 |
39 | NetCDF xarray map plotting | toolshed.g2.bx.psu.edu/repos/ecology/xarray_mapplot/xarray_mapplot/0.18.2+galaxy0 |
40 | NetCDF xarray map plotting | toolshed.g2.bx.psu.edu/repos/ecology/xarray_mapplot/xarray_mapplot/0.18.2+galaxy0 |
41 | NetCDF xarray map plotting | toolshed.g2.bx.psu.edu/repos/ecology/xarray_mapplot/xarray_mapplot/0.18.2+galaxy0 |
42 | NetCDF xarray map plotting | toolshed.g2.bx.psu.edu/repos/ecology/xarray_mapplot/xarray_mapplot/0.18.2+galaxy0 |
43 | NetCDF xarray map plotting | toolshed.g2.bx.psu.edu/repos/ecology/xarray_mapplot/xarray_mapplot/0.18.2+galaxy0 |
44 | NetCDF xarray map plotting | toolshed.g2.bx.psu.edu/repos/ecology/xarray_mapplot/xarray_mapplot/0.18.2+galaxy0 |
45 | NetCDF xarray map plotting | toolshed.g2.bx.psu.edu/repos/ecology/xarray_mapplot/xarray_mapplot/0.18.2+galaxy0 |
46 | NetCDF xarray map plotting | toolshed.g2.bx.psu.edu/repos/ecology/xarray_mapplot/xarray_mapplot/0.18.2+galaxy0 |
47 | Merge collections | __MERGE_COLLECTION__ |
48 | Merge collections | __MERGE_COLLECTION__ |
49 | PM2.5 forecast 10:00 - 17:00 UTC > 30 um/m3 | We have 8 plots, one for each forecast time for the first forecast day betwwen 100:00 and 17:00 UTC and we applied a mask e.g. only plot values great than 30 um/m3. toolshed.g2.bx.psu.edu/repos/bgruening/graphicsmagick_image_montage/graphicsmagick_image_montage/1.3.31+galaxy1 |
50 | PM2.5 forecast 10:00 - 17:00 UTC | We have 8 plots, one for each forecast time. We take the forecast on day 1 between 10:00 and 17:00 UTC toolshed.g2.bx.psu.edu/repos/bgruening/graphicsmagick_image_montage/graphicsmagick_image_montage/1.3.31+galaxy1 |
Outputs
ID | Name | Description | Type |
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_anonymous_output_1 | _anonymous_output_1 | n/a |
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_anonymous_output_2 | _anonymous_output_2 | n/a |
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_anonymous_output_3 | _anonymous_output_3 | n/a |
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input dataset(s) (extracted element) | input dataset(s) (extracted element) | n/a |
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_anonymous_output_4 | _anonymous_output_4 | n/a |
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_anonymous_output_5 | _anonymous_output_5 | n/a |
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_anonymous_output_6 | _anonymous_output_6 | n/a |
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PM2.5 reference date Europe | PM2.5 reference date Europe | n/a |
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PM2.5 fc 2 days 12:00 UTC Europe | PM2.5 fc 2 days 12:00 UTC Europe | n/a |
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1D plot PM2.5 over Naples (4 days forecast) | 1D plot PM2.5 over Naples (4 days forecast) | n/a |
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_anonymous_output_7 | _anonymous_output_7 | n/a |
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_anonymous_output_8 | _anonymous_output_8 | n/a |
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PM2.5 stripes Naples for 4 days forecast from reference date | PM2.5 stripes Naples for 4 days forecast from reference date | n/a |
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_anonymous_output_9 | _anonymous_output_9 | n/a |
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m3) fc 10:00 - 17:00 UTC over Italy | PM2.5 (values > 30 um/m3) fc 10:00 - 17:00 UTC over Italy | n/a |
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PM2.5 fc 10:00 - 17:00 UTC over Italy | PM2.5 fc 10:00 - 17:00 UTC over Italy | n/a |
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Version History
1.0 (latest) Created 16th Jul 2024 at 14:06 by Helena Rasche
Added/updated 4 files
Open
master
aaf05c1
2.0 (earliest) Created 25th Jun 2024 at 11:08 by Helena Rasche
Added/updated 4 files
Frozen
2.0
83ae28c
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Views: 184 Downloads: 79
Created: 25th Jun 2024 at 11:08
Last updated: 25th Jun 2024 at 11:08
![help](/assets/famfamfam_silk/information-8cfe563be76fb11b27c8ba778f5d40ce6800b244d6ca58ef6e9973308efbe534.png)
![help](/assets/famfamfam_silk/information-8cfe563be76fb11b27c8ba778f5d40ce6800b244d6ca58ef6e9973308efbe534.png)
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