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📊 Preventive chemotherapy for neglected tropical diseases #2588

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@spoonerf spoonerf commented May 2, 2024

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@spoonerf spoonerf changed the title 📊 Preventive chemotherapy dataset for neglected tropical diseases 📊 Preventive chemotherapy for neglected tropical diseases May 2, 2024
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Chart diff: No new or modified charts. Details
data-diff:
- Dataset garden/climate/2024-05-20/climate_change_impacts
- Dataset garden/climate/2024-05-20/ghg_concentration
- Dataset garden/climate/2024-05-20/long_run_ghg_concentration
- Dataset garden/climate/2024-05-20/ocean_heat_content
- Dataset garden/climate/2024-05-20/ocean_ph_levels
- Dataset garden/climate/2024-05-20/sea_ice_index
- Dataset garden/climate/2024-05-20/sea_surface_temperature
- Dataset garden/climate/2024-05-20/snow_cover_extent
- Dataset garden/climate/2024-05-20/surface_temperature_analysis
= Dataset garden/democracy/2024-03-07/bmr
  = Table population_regime_years
  = Table num_countries_regime_years
  = Table population_regime
  = Table num_countries_regime
  = Table bmr
= Dataset garden/democracy/2024-03-07/ert
  = Table region_aggregates
  = Table ert
- Dataset garden/democracy/2024-03-07/fh
= Dataset garden/democracy/2024-03-07/lexical_index
  = Table region_aggregates
  = Table lexical_index
= Dataset garden/emdat/2024-04-11/natural_disasters
  = Table natural_disasters_yearly_deaths
  = Table natural_disasters_decadal_deaths
  = Table natural_disasters_yearly_impact
    ~ Column n_large_events (changed data)
        ~ Changed values: 1051 / 7170 (14.66%)
                                   country  year  n_large_events -  n_large_events +
                                     Italy  2023                 1                 0
                             North America  2016                27                 7
                                      Oman  2010                 1                 0
          Saint Vincent and the Grenadines  2021                 1                 0
                                  Slovakia  2004                 1                 0
    ~ Column n_medium_events (changed data)
        ~ Changed values: 1148 / 7170 (16.01%)
                                country  year  n_medium_events -  n_medium_events +
                  High-income countries  2010                 32                 29
                            Switzerland  2007                  1                  0
                                   USSR  1989                  2                  3
          Upper-middle-income countries  1987                 32                 26
                                  World  2000                201                190
    ~ Column n_small_events (changed data)
        ~ Changed values: 1076 / 7170 (15.01%)
             country  year  n_small_events -  n_small_events +
              Europe  1972                 1                 3
               Italy  2002                 1                 3
          Martinique  1980                 0                 1
            Portugal  2004                 1                 2
               World  1964                 3                 4
    ~ Column share_large_events (changed data)
        ~ Changed values: 1051 / 7170 (14.66%)
                                   country  year  share_large_events -  share_large_events +
                                     Italy  2023             14.285714               0.00000
                             North America  2016             44.262295              11.47541
                                      Oman  2010            100.000000               0.00000
          Saint Vincent and the Grenadines  2021             50.000000               0.00000
                                  Slovakia  2004             50.000000               0.00000
    ~ Column share_medium_events (changed data)
        ~ Changed values: 1148 / 7170 (16.01%)
                                country  year  share_medium_events -  share_medium_events +
                  High-income countries  2010              32.989689              29.896908
                            Switzerland  2007              33.333332               0.000000
                                   USSR  1989              40.000000              60.000000
          Upper-middle-income countries  1987              46.376812              37.681160
                                  World  2000              49.144253              46.454769
    ~ Column share_small_events (changed data)
        ~ Changed values: 1076 / 7170 (15.01%)
             country  year  share_small_events -  share_small_events +
              Europe  1972             14.285714             42.857143
               Italy  2002             14.285714             42.857143
          Martinique  1980              0.000000            100.000000
            Portugal  2004             50.000000            100.000000
               World  1964              5.000000              6.666667
  = Table natural_disasters_yearly
    ~ Column insured_damages (changed data)
        ~ Changed values: 14 / 37481 (0.04%)
                        country  year                                        type  insured_damages -  insured_damages +
                      Australia  2001 all_disasters_excluding_extreme_temperature           10652173           10652000
                        Bahamas  2017                               all_disasters             397600             397000
                        Bahamas  2017 all_disasters_excluding_extreme_temperature             397600             397000
          High-income countries  2001                                    wildfire           10652173           10652000
                        Oceania  2001 all_disasters_excluding_extreme_temperature           10652173           10652000
    ~ Column insured_damages_per_gdp (changed data)
        ~ Changed values: 8 / 37481 (0.02%)
            country  year                                        type  insured_damages_per_gdp -  insured_damages_per_gdp +
          Australia  2001         all_disasters_excluding_earthquakes                   0.002808                   0.002808
          Australia  2001 all_disasters_excluding_extreme_temperature                   0.002808                   0.002808
          Australia  2001                                    wildfire                   0.002808                   0.002808
            Bahamas  2017 all_disasters_excluding_extreme_temperature                   0.003217                   0.003213
            Bahamas  2017                             extreme_weather                   0.003217                   0.003213
    ~ Column reconstruction_costs (changed data)
        ~ Changed values: 106 / 37481 (0.28%)
                                country  year                                type  reconstruction_costs -  reconstruction_costs +
                                   Asia  1999                          earthquake              4935228928             35000000000
                                   Asia  2022 all_disasters_excluding_earthquakes              1410065408             10000000000
                                Croatia  2020                          earthquake               860065408              9450000000
          Upper-middle-income countries  1999                       all_disasters              4935228928             35000000000
                                  World  2022                       all_disasters              1499208266             10089143000
    ~ Column reconstruction_costs_per_gdp (changed data)
        ~ Changed values: 54 / 37481 (0.14%)
                                country  year          type  reconstruction_costs_per_gdp -  reconstruction_costs_per_gdp +
                    European Union (27)  2020    earthquake                        0.005596                        0.061486
          Lower-middle-income countries  2010    earthquake                        0.055383                        0.218864
          Upper-middle-income countries  1999 all_disasters                        0.128486                        0.911202
                                  World  2010 all_disasters                        0.011373                        0.037166
                                  World  2020    earthquake                        0.001011                        0.011104
    ~ Column total_damages (changed data)
        ~ Changed values: 672 / 37481 (1.79%)
                country  year                                        type  total_damages -  total_damages +
                 Africa  1969 all_disasters_excluding_extreme_temperature        158316615        158315000
                   Asia  1971                                     drought          4000002          4002000
              Indonesia  1973 all_disasters_excluding_extreme_temperature         34952121         34953000
          South America  1997                             extreme_weather           979591           979000
               Zimbabwe  1982                                     drought           111786           111000
    ~ Column total_damages_per_gdp (changed data)
        ~ Changed values: 536 / 37481 (1.43%)
               country  year                                        type  total_damages_per_gdp -  total_damages_per_gdp +
             Guatemala  2019                               all_disasters                 0.017137                 0.017137
                 Haiti  2017                                     drought                 0.077557                 0.077563
                  Peru  1998         all_disasters_excluding_earthquakes                 0.019856                 0.019857
          South Africa  1995 all_disasters_excluding_extreme_temperature                 0.004529                 0.004528
              Zimbabwe  1995         all_disasters_excluding_earthquakes                 0.148236                 0.148272
  = Table natural_disasters_decadal_impact
    ~ Column n_large_events (changed data)
        ~ Changed values: 343 / 1612 (21.28%)
                      country  year  n_large_events -  n_large_events +
                     Anguilla  1960                 1                 0
          European Union (27)  1990                72                17
                      Hungary  1980                 1                 0
                       Taiwan  1990                 5                 2
                       Taiwan  2000                 5                 4
    ~ Column n_medium_events (changed data)
        ~ Changed values: 396 / 1612 (24.57%)
               country  year  n_medium_events -  n_medium_events +
                 Chile  1940                  1                  3
                 China  1960                  2                  1
          Saudi Arabia  1980                  0                  1
           South Korea  1990                 10                 11
           South Korea  2010                 11                 14
    ~ Column n_small_events (changed data)
        ~ Changed values: 379 / 1612 (23.51%)
                                   country  year  n_small_events -  n_small_events +
                     High-income countries  2020               134               238
                             New Caledonia  1960                 0                 1
                     Saint Kitts and Nevis  2010                 0                 1
          Saint Vincent and the Grenadines  1980                 1                 3
                                    Sweden  2010                 0                 1
    ~ Column share_large_events (changed data)
        ~ Changed values: 343 / 1612 (21.28%)
                      country  year  share_large_events -  share_large_events +
                     Anguilla  1960            100.000000              0.000000
          European Union (27)  1990             28.015564              6.614786
                      Hungary  1980             50.000000              0.000000
                       Taiwan  1990             27.777779             11.111111
                       Taiwan  2000             15.151515             12.121212
    ~ Column share_medium_events (changed data)
        ~ Changed values: 396 / 1612 (24.57%)
               country  year  share_medium_events -  share_medium_events +
                 Chile  1940              20.000000              60.000000
                 China  1960              40.000000              20.000000
          Saudi Arabia  1980               0.000000              50.000000
           South Korea  1990              45.454544              50.000000
           South Korea  2010              57.894737              73.684212
    ~ Column share_small_events (changed data)
        ~ Changed values: 379 / 1612 (23.51%)
                                   country  year  share_small_events -  share_small_events +
                     High-income countries  2020             29.257643             51.965065
                             New Caledonia  1960              0.000000             50.000000
                     Saint Kitts and Nevis  2010              0.000000            100.000000
          Saint Vincent and the Grenadines  1980             25.000000             75.000000
                                    Sweden  2010              0.000000             50.000000
  = Table natural_disasters_decadal
    ~ Column reconstruction_costs (changed data)
        ~ Changed values: 93 / 42952 (0.22%)
                        country  year                                        type  reconstruction_costs -  reconstruction_costs +
                           Asia  1990                                  earthquake             493522880.0              3500000000
                          Chile  2010                                  earthquake             224906544.0              1083900000
                          China  2000                                  earthquake             141006544.0              1000000000
          High-income countries  2010 all_disasters_excluding_extreme_temperature             453281632.0              1312275100
                       Pakistan  2020         all_disasters_excluding_earthquakes             282013088.0              2000000000
    ~ Column reconstruction_costs_per_gdp (changed data)
        ~ Changed values: 51 / 42952 (0.12%)
                                country  year                                        type  reconstruction_costs_per_gdp -  reconstruction_costs_per_gdp +
                                  Chile  2010                                  earthquake                        0.103593                        0.499251
                    European Union (27)  2020 all_disasters_excluding_extreme_temperature                        0.002798                        0.030743
                    European Union (27)  2020                                  earthquake                        0.001399                        0.015371
          Lower-middle-income countries  2000 all_disasters_excluding_extreme_temperature                        0.004081                        0.020832
                               Pakistan  2000                                  earthquake                        0.075385                        0.433134
    ~ Column total_damages (changed data)
        ~ Changed values: 45 / 42952 (0.10%)
                      country  year                                        type  total_damages -  total_damages +
                         Chad  1960                                     drought      225984.0000           225900
                        Chile  1960                                     drought     1765179.6250          1765100
                   Mauritania  1960 all_disasters_excluding_extreme_temperature      485524.1875           485500
                     Pakistan  1990                                     drought      989947.3750           989900
          Yemen Arab Republic  1960                               all_disasters      333333.3125           333300
    ~ Column total_damages_per_gdp (changed data)
        ~ Changed values: 58 / 42952 (0.14%)
             country  year                                        type  total_damages_per_gdp -  total_damages_per_gdp +
                Chad  1970 all_disasters_excluding_extreme_temperature                 1.182782                 1.182755
              Gambia  1970                                     drought                 0.026902                 0.026668
                Iraq  1970         all_disasters_excluding_earthquakes                 0.003756                 0.003758
                Iraq  1970 all_disasters_excluding_extreme_temperature                 0.003756                 0.003758
          Mauritania  1960 all_disasters_excluding_extreme_temperature                 0.164550                 0.164542
- Dataset garden/met_office_hadley_centre/2024-05-20/near_surface_temperature
+ Dataset garden/neglected_tropical_diseases/2024-05-02/lymphatic_filariasis
+ + Table lymphatic_filariasis
+   + Column current_status_of_mda
+   + Column number_of_ius_covered
+   + Column geographical_coverage__pct
+   + Column total_population_of_ius
+   + Column reported_number_of_people_treated
+   + Column programme__drug__coverage__pct
+ + Table lymphatic_filariasis_national
+   + Column national_coverage__pct
+   + Column population_requiring_pc_for_lf
+   + Column estimated_number_of_people_treated
+ Dataset garden/neglected_tropical_diseases/2024-05-02/schistosomiasis
+ + Table schistosomiasis
+   + Column population_requiring_pc_for_sch_annually
+   + Column sac_population_requiring_pc_for_sch_annually
+   + Column number_of_people_targeted
+   + Column reported_number_of_people_treated
+   + Column reported_number_of_sac_treated
+   + Column programme_coverage__pct
+   + Column national_coverage__pct
+ Dataset garden/neglected_tropical_diseases/2024-05-02/soil_transmitted_helminthiases
+ + Table soil_transmitted_helminthiases_national_pre_sac
+   + Column national_coverage__pre_sac__pct
+   + Column population_requiring_pc_for_sth__pre_sac
+   + Column estimated_number_of_pre_sac_treated
+ + Table soil_transmitted_helminthiases_national_sac
+   + Column national_coverage__sac__pct
+   + Column population_requiring_pc_for_sth__sac
+   + Column estimated_number_of_sac_treated
+ + Table soil_transmitted_helminthiases_pre_sac
+   + Column number_targeted
+   + Column reported_number_treated
+   + Column programme_coverage__pct
+ + Table soil_transmitted_helminthiases_sac
+   + Column number_targeted
+   + Column reported_number_treated
+   + Column programme_coverage__pct
- Dataset garden/neglected_tropical_diseases/2024-05-18/funding
= Dataset garden/oecd/2024-04-30/affordable_housing_database
  = Table affordable_housing_database
    ~ Column point_in_time_1 (changed metadata)
-       -   - Data for Belgium only considers Brussels.
    ~ Column point_in_time_1_2_3 (changed metadata)
-       -   - Data for Belgium only considers Brussels.
    ~ Column point_in_time_2_3 (changed metadata)
-       -   - Data for Belgium only considers Brussels.
    ~ Column share (changed metadata)
-       - description_key:
-       -   - Data for the United Kingdom only considers England.
    ~ Column type_of_strategy (changed metadata, changed data)
-       -   Defines whether the country has a Housing First strategy or housing-led strategy to adress homelessness at the national administrative level, other strategy, or no strategy at the national level at all.
        ?                                                                                                              ^^^^ ^^^^^^^                                                        ----------------------
+       +   Defines whether the country has a Housing First strategy or housing-led strategy to adress homelessness at any administrative level, other strategy, or no strategy at all.
        ?                                                                                                              ^ ^
-       -   - No national strategy
        ?       ---------
+       +   - No strategy

        ~ Changed values: 22 / 201 (10.95%)
          country  year   type_of_strategy -                 type_of_strategy +
          Austria  2023 No national strategy Housing First/housing-led strategy
           Israel  2023 No national strategy                        No strategy
            Malta  2023 No national strategy                        No strategy
           Mexico  2023 No national strategy                        No strategy
           Turkey  2023 No national strategy                        No strategy
- Dataset garden/research_development/2024-05-20/patents_wdi_unwpp
= Dataset garden/technology/2024-05-13/computer_memory_storage
  = Table computer_memory_storage
    ~ Column ddrives (changed metadata, changed data)
-       - description_short: This data is expressed in US dollars per terabyte (TB), adjusted for inflation.
-       -   - producer: U.S. Bureau of Labor Statistics
-       -     title: US consumer prices
-       -     description: |-
-       -       The Bureau of Labor Statistics reports the monthly Consumer Price Index (CPI) of individual goods and services for urban consumers at the national, city, and state levels. CPI is presented on an annual basis, which we have derived as the average of the monthly CPIs in a given year.
-       -     citation_full: U.S. Bureau of Labor Statistics
-       -     url_main: https://www.bls.gov/data/tools.htm
-       -     date_accessed: '2024-05-16'
-       -     date_published: '2024'
-       -     license:
-       -       name: Public domain
-       -       url: https://www.bls.gov/opub/copyright-information.htm
-       - unit: constant 2020 US$ per terabyte
        ?        ^^^^^  -----
+       + unit: current US$ per terabyte
        ?        ^^^^

        ~ Changed values: 53 / 59 (89.83%)
          country  year    ddrives -    ddrives +
            World  1981 5.265886e+08 1.850000e+08
            World  2002 1.750592e+03 1.216670e+03
            World  2003 1.055063e+03 7.499200e+02
            World  2008 1.201961e+02 9.999000e+01
            World  2013 4.072861e+01 3.666000e+01
    ~ Column flash (changed metadata, changed data)
-       - description_short: This data is expressed in US dollars per terabyte (TB), adjusted for inflation.
-       -   - producer: U.S. Bureau of Labor Statistics
-       -     title: US consumer prices
-       -     description: |-
-       -       The Bureau of Labor Statistics reports the monthly Consumer Price Index (CPI) of individual goods and services for urban consumers at the national, city, and state levels. CPI is presented on an annual basis, which we have derived as the average of the monthly CPIs in a given year.
-       -     citation_full: U.S. Bureau of Labor Statistics
-       -     url_main: https://www.bls.gov/data/tools.htm
-       -     date_accessed: '2024-05-16'
-       -     date_published: '2024'
-       -     license:
-       -       name: Public domain
-       -       url: https://www.bls.gov/opub/copyright-information.htm
-       - unit: constant 2020 US$ per terabyte
        ?        ^^^^^  -----
+       + unit: current US$ per terabyte
        ?        ^^^^

        ~ Changed values: 15 / 59 (25.42%)
          country  year       flash -       flash +
            World  2004 262268.125000 191406.250000
            World  2009   1950.484497   1616.819946
            World  2011   1158.372559   1006.770020
            World  2012    653.278870    579.530029
            World  2017    152.898636    144.809998
    ~ Column memory (changed metadata, changed data)
-       - description_short: This data is expressed in US dollars per terabyte (TB), adjusted for inflation.
-       -   - producer: U.S. Bureau of Labor Statistics
-       -     title: US consumer prices
-       -     description: |-
-       -       The Bureau of Labor Statistics reports the monthly Consumer Price Index (CPI) of individual goods and services for urban consumers at the national, city, and state levels. CPI is presented on an annual basis, which we have derived as the average of the monthly CPIs in a given year.
-       -     citation_full: U.S. Bureau of Labor Statistics
-       -     url_main: https://www.bls.gov/data/tools.htm
-       -     date_accessed: '2024-05-16'
-       -     date_published: '2024'
-       -     license:
-       -       name: Public domain
-       -       url: https://www.bls.gov/opub/copyright-information.htm
-       - unit: constant 2020 US$ per terabyte
        ?        ^^^^^  -----
+       + unit: current US$ per terabyte
        ?        ^^^^

        ~ Changed values: 55 / 59 (93.22%)
          country  year     memory -     memory +
            World  1979 2.390727e+10 6.704000e+09
            World  1994 4.583433e+07 2.625000e+07
            World  2001 2.157090e+05 1.475781e+05
            World  2008 1.173614e+04 9.763180e+03
            World  2013 4.067184e+03 3.660890e+03
    ~ Column ssd (changed metadata, changed data)
-       - description_short: This data is expressed in US dollars per terabyte (TB), adjusted for inflation.
-       -   - producer: U.S. Bureau of Labor Statistics
-       -     title: US consumer prices
-       -     description: |-
-       -       The Bureau of Labor Statistics reports the monthly Consumer Price Index (CPI) of individual goods and services for urban consumers at the national, city, and state levels. CPI is presented on an annual basis, which we have derived as the average of the monthly CPIs in a given year.
-       -     citation_full: U.S. Bureau of Labor Statistics
-       -     url_main: https://www.bls.gov/data/tools.htm
-       -     date_accessed: '2024-05-16'
-       -     date_published: '2024'
-       -     license:
-       -       name: Public domain
-       -       url: https://www.bls.gov/opub/copyright-information.htm
-       - unit: constant 2020 US$ per terabyte
        ?        ^^^^^  -----
+       + unit: current US$ per terabyte
        ?        ^^^^

        ~ Changed values: 10 / 59 (16.95%)
          country  year      ssd -      ssd +
            World  2014 409.945923 374.980011
            World  2015 272.944305 249.960007
            World  2017 214.455078 203.110001
            World  2022  39.796032  45.000000
            World  2023  25.906467  30.500000
2024-05-21 10:14:20 [error    ] Traceback (most recent call last):

  File "/home/owid/etl/etl/datadiff.py", line 421, in cli
    lines = future.result()

  File "/usr/lib/python3.10/concurrent/futures/_base.py", line 458, in result
    return self.__get_result()

  File "/usr/lib/python3.10/concurrent/futures/_base.py", line 403, in __get_result
    raise self._exception

  File "/usr/lib/python3.10/concurrent/futures/thread.py", line 58, in run
    result = self.fn(*self.args, **self.kwargs)

  File "/home/owid/etl/etl/datadiff.py", line 414, in func
    differ.summary()

  File "/home/owid/etl/etl/datadiff.py", line 252, in summary
    self._diff_tables(self.ds_a, self.ds_b, table_name)

  File "/home/owid/etl/etl/datadiff.py", line 121, in _diff_tables
    table_b = future_b.result()

  File "/usr/lib/python3.10/concurrent/futures/_base.py", line 451, in result
    return self.__get_result()

  File "/usr/lib/python3.10/concurrent/futures/_base.py", line 403, in __get_result
    raise self._exception

  File "/usr/lib/python3.10/concurrent/futures/thread.py", line 58, in run
    result = self.fn(*self.args, **self.kwargs)

  File "/home/owid/etl/lib/catalog/owid/catalog/datasets.py", line 153, in __getitem__
    t = tables.Table.read(path)

  File "/home/owid/etl/lib/catalog/owid/catalog/tables.py", line 171, in read
    table = cls.read_feather(path)

  File "/home/owid/etl/lib/catalog/owid/catalog/tables.py", line 354, in read_feather
    cls._add_metadata(df, path)

  File "/home/owid/etl/lib/catalog/owid/catalog/tables.py", line 327, in _add_metadata
    metadata = cls._read_metadata(path)

  File "/home/owid/etl/lib/catalog/owid/catalog/tables.py", line 390, in _read_metadata
    with open(metadata_path, "r") as istream:

FileNotFoundError: [Errno 2] No such file or directory: 'data/garden/who/2024-01-03/gho/tobacco_tax_structure__uniform_excise_tax_applied_yes__uniform__no__tiered_varying_rates.meta.json'

= Dataset garden/who/2024-02-14/gho_suicides
  = Table gho_suicides
  = Table gho_suicides_ratio
- Dataset garden/who/2024-05-20/vehicles

⚠ Found errors, create an issue please

Legend: +New  ~Modified  -Removed  =Identical  Details
Hint: Run this locally with etl diff REMOTE data/ --include yourdataset --verbose --snippet

Automatically updated datasets matching weekly_wildfires|excess_mortality|covid|fluid|flunet|country_profile are not included

Edited: 2024-05-21 10:14:21 UTC
Execution time: 100.88 seconds

@spoonerf spoonerf marked this pull request as ready for review May 14, 2024 13:43
@spoonerf spoonerf requested a review from lucasrodes May 14, 2024 15:11
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LGTM

Comment on lines 100 to 103
tb_pre_sac.metadata.short_name = "soil_transmitted_helminthiases_pre_sac"
tb_sac.metadata.short_name = "soil_transmitted_helminthiases_sac"
tb_nat_sac.metadata.short_name = "soil_transmitted_helminthiases_national_sac"
tb_nat_pre_sac.metadata.short_name = "soil_transmitted_helminthiases_national_pre_sac"
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Instead of assigning short_name directly, you can pass it as an argument of the function Table.format. E.g., for tb_sac:

tb_sac = tb_sac.format(["country", "year", "drug_combination"], short_name="soil_transmitted_helminthiases_sac")

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Thank you! I always forget this!

@spoonerf spoonerf merged commit 64ef26e into master May 21, 2024
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@spoonerf spoonerf deleted the ntds branch May 21, 2024 10:13
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3 participants