search

athowes / multi-agyw

Spatio-temporal estimates of HIV risk group proportions for AGYW across 13 priority countries in sub-Saharan Africa
https://athowes.github.io/multi-agyw
MIT License
2 stars 2 forks source link

Fix UGA, TZA, LSO and KEN data creation #9

Closed athowes closed 3 years ago

athowes commented 3 years ago

UGA:

> hiv_indicators <- calc_survey_hiv_indicators(
+   survey_meta,
+   survey_regions,
+   survey_clusters,
+   survey_individuals,
+   survey_biomarker,
+   #' Including sexnonregplus causes errors
+   survey_other = list(survey_sexbehav %>% select(-sexnonregplus)),
+   st_drop_geometry(areas),
+   sex = sex,
+   age_group_include = age_group_include,
+   area_top_level = 0,
+   area_bottom_level = 0,
+   formula = ~ indicator + survey_id + area_id + res_type + sex + age_group +
+     sex12m + eversex + sexcohab + sexnonreg + sexpaid12m + sti12m
+ )
[ failed     ]  2021-08-16 10:18:13
[ elapsed    ]  Failed report in 2.121453 mins
Error: Join columns must be present in data.
x Problem with `giftsvar`.

TZA:

> survey_clusters <- assign_dhs_cluster_areas(survey_clusters, survey_region_areas)
[ failed     ]  2021-08-16 10:30:47
[ elapsed    ]  Failed report in 1.605443 mins
Error in assign_dhs_cluster_areas(survey_clusters, survey_region_areas) : 
  Survey clusters have survey_region_id not contained in survey_regions:
    survey_id survey_region_id cluster_id
1  TZA2007AIS               54          4
2  TZA2007AIS               53         11
3  TZA2007AIS               51         13
4  TZA2007AIS               51         16
5  TZA2007AIS               52         18
6  TZA2007AIS               53         26
7  TZA2007AIS               54         27
8  TZA2007AIS               54         34
9  TZA2007AIS               53         41
10 TZA2007AIS               55         42
11 TZA2007AIS               53         46
12 TZA2007AIS               55         47
13 TZA2007AIS               51         49
14 TZA2007AIS               55         51
15 TZA2007AIS               55         54
16 TZA2007AIS               53         61
17 TZA2007AIS               52         68
18 TZA2007AIS               52         78
19 TZA2007AIS               51         88
20 TZA2007AIS               52         91
21 TZA2007AIS               52

LSO:

> survey_region_boundaries <- create_survey_boundaries_dhs(surveys)
Downloading DHS region boundaries: LS2004DHS
Downloading DHS region boundaries: LS2009DHS
[ failed     ]  2021-08-16 10:35:19
[ elapsed    ]  Failed report in 4.597356 secs
Error in download.file(url, tf2, quiet = quiet_download) : 
  cannot open URL 'https://gis.dhsprogram.com/arcgis/rest/directories/arcgisjobs/tools/downloadsubnationaldata_gpserver/j5fc78fae590346ed971290f7bc81a1f0/scratch/sdr_subnational_boundaries_2021-08-16.zip'
In addition: Warning message:
In download.file(url, tf2, quiet = quiet_download) :
  cannot open URL 'https://gis.dhsprogram.com/arcgis/rest/directories/arcgisjobs/tools/downloadsubnationaldata_gpserver/j5fc78fae590346ed971290f7bc81a1f0/scratch/sdr_subnational_boundaries_2021-08-16.zip': HTTP status was '400 Bad Request'

KEN:

> survey_region_boundaries <- create_survey_boundaries_dhs(surveys)
Downloading DHS region boundaries: KE1998DHS
Downloading DHS region boundaries: KE2003DHS
Downloading DHS region boundaries: KE2008DHS
[ failed     ]  2021-08-16 10:40:16
[ elapsed    ]  Failed report in 6.720486 secs
Error in download.file(url, tf2, quiet = quiet_download) : 
  cannot open URL 'https://gis.dhsprogram.com/arcgis/rest/directories/arcgisjobs/tools/downloadsubnationaldata_gpserver/j55dfd3b075114ba3ab2f7747e955d208/scratch/sdr_subnational_boundaries_2021-08-16.zip'
In addition: Warning message:
In download.file(url, tf2, quiet = quiet_download) :
  cannot open URL 'https://gis.dhsprogram.com/arcgis/rest/directories/arcgisjobs/tools/downloadsubnationaldata_gpserver/j55dfd3b075114ba3ab2f7747e955d208/scratch/sdr_subnational_boundaries_2021-08-16.zip': HTTP status was '400 Bad Request'
athowes commented 3 years ago

TZA:

> #' Snap survey clusters to areas
> 
> survey_clusters <- assign_dhs_cluster_areas(survey_clusters, survey_region_areas)
[ failed     ]  2021-08-21 11:25:46
[ elapsed    ]  Failed report in 14.21346 secs
Error in assign_dhs_cluster_areas(survey_clusters, survey_region_areas) : 
  Survey clusters have survey_region_id not contained in survey_regions:
    survey_id survey_region_id cluster_id
1  TZA2007AIS               54          4
2  TZA2007AIS               53         11
3  TZA2007AIS               51         13
4  TZA2007AIS               51         16
5  TZA2007AIS               52         18
6  TZA2007AIS               53         26
7  TZA2007AIS               54         27
8  TZA2007AIS               54         34
9  TZA2007AIS               53         41
10 TZA2007AIS               55         42
11 TZA2007AIS               53         46
12 TZA2007AIS               55         47
13 TZA2007AIS               51         49
14 TZA2007AIS               55         51
15 TZA2007AIS               55         54
16 TZA2007AIS               53         61
17 TZA2007AIS               52         68
18 TZA2007AIS               52         78
19 TZA2007AIS               51         88
20 TZA2007AIS               52         91
21 TZA2007AIS               52        
In addition: There were 50 or more warnings (use warnings() to see the first 50)
athowes commented 3 years ago

LSO seems to work OK after refreshing rdhs cache