publish: Parse CSV output for all parameter values read outside read …

…parameters method (#1541) generated from commit d6fcffd
UCL · Dec 13, 2024 · 4b36693 · 4b36693
1 parent 93adfc8
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diff --git a/.buildinfo b/.buildinfo
@@ -1,4 +1,4 @@
 # Sphinx build info version 1
 # This file records the configuration used when building these files. When it is not found, a full rebuild will be done.
-config: 74d88a4f9619f12b24a2f1de81387b8a
+config: d35aa913551fa0126e3a3b07d588a651
 tags: 645f666f9bcd5a90fca523b33c5a78b7
diff --git a/.buildinfo.bak b/.buildinfo.bak
@@ -0,0 +1,4 @@
+# Sphinx build info version 1
+# This file records the configuration used when building these files. When it is not found, a full rebuild will be done.
+config: 925c8d0f21d2085a66fcc46aa1541a8e
+tags: 645f666f9bcd5a90fca523b33c5a78b7
diff --git a/_data_sources.html b/_data_sources.html
@@ -6,7 +6,7 @@
   <meta charset="utf-8" /><meta name="viewport" content="width=device-width, initial-scale=1" />
 
   <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-  <title>Core Functions &mdash; TLOmodel 0.1.dev2476+g58256ce documentation</title>
+  <title>Core Functions &mdash; TLOmodel 0.1.dev2485+gd6fcffd.d20241213 documentation</title>
       <link rel="stylesheet" type="text/css" href="_static/pygments.css?v=d10597a4" />
       <link rel="stylesheet" type="text/css" href="_static/css/theme.css?v=e59714d7" />
       <link rel="stylesheet" type="text/css" href="_static/theme_overrides.css?v=6ea10ece" />
@@ -15,7 +15,7 @@
     <link rel="shortcut icon" href="_static/favicon.png"/>
       <script src="_static/jquery.js?v=5d32c60e"></script>
       <script src="_static/_sphinx_javascript_frameworks_compat.js?v=2cd50e6c"></script>
-      <script src="_static/documentation_options.js?v=04b6525c"></script>
+      <script src="_static/documentation_options.js?v=01c4fe84"></script>
       <script src="_static/doctools.js?v=9bcbadda"></script>
       <script src="_static/sphinx_highlight.js?v=dc90522c"></script>
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diff --git a/_downloads/d259ee2478d4ac9e09a19cb71e63d1a9/hsi_events.csv b/_downloads/d259ee2478d4ac9e09a19cb71e63d1a9/hsi_events.csv
diff --git a/_hsi_events.html b/_hsi_events.html
@@ -6,7 +6,7 @@
   <meta charset="utf-8" /><meta name="viewport" content="width=device-width, initial-scale=1" />
 
   <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-  <title>Alri &mdash; TLOmodel 0.1.dev2476+g58256ce documentation</title>
+  <title>Alri &mdash; TLOmodel 0.1.dev2485+gd6fcffd.d20241213 documentation</title>
       <link rel="stylesheet" type="text/css" href="_static/pygments.css?v=d10597a4" />
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       <link rel="stylesheet" type="text/css" href="_static/theme_overrides.css?v=6ea10ece" />
@@ -15,7 +15,7 @@
     <link rel="shortcut icon" href="_static/favicon.png"/>
       <script src="_static/jquery.js?v=5d32c60e"></script>
       <script src="_static/_sphinx_javascript_frameworks_compat.js?v=2cd50e6c"></script>
-      <script src="_static/documentation_options.js?v=04b6525c"></script>
+      <script src="_static/documentation_options.js?v=01c4fe84"></script>
       <script src="_static/doctools.js?v=9bcbadda"></script>
       <script src="_static/sphinx_highlight.js?v=dc90522c"></script>
     <script src="_static/js/theme.js"></script>

diff --git a/_sources/index.rst.txt b/_sources/index.rst.txt
@@ -18,6 +18,8 @@ It is developed in a collaboration between:
 
 * `University of York <https://www.york.ac.uk/che/>`_
 
+* `East, Central and Southern Africa Health Community (ECSA-HC) <https://ecsahc.org/>`_
+
 It benefits from a close partnership between this team and the Ministry of Health, Malawi.
 
 

diff --git a/_sources/parameters.rst.txt b/_sources/parameters.rst.txt
diff --git a/_sources/reference/tlo.methods.alri.rst.txt b/_sources/reference/tlo.methods.alri.rst.txt
@@ -421,13 +421,13 @@ tlo.methods.alri module
 
      **Class attributes:**
 
-     CAUSES_OF_DEATH : {'ALRI_Enterobacteriaceae': <tlo.methods.causes.Cause object at 0x14f280110>, 'ALRI_H.influenzae_non_type_b': <tlo.methods.causes.Cause object at 0x14f280150>, 'ALRI_HMPV': <tlo.methods.causes.Cause object at 0x14f280210>, 'ALRI_Hib': <tlo.methods.causes.Cause object at 0x14f280290>, 'ALRI_Influenza': <tlo.methods.causes.Cause object at 0x14f280310>, 'ALRI_P.jirovecii': <tlo.methods.causes.Cause object at 0x14f280350>, 'ALRI_Parainfluenza': <tlo.methods.causes.Cause object at 0x14f280390>, 'ALRI_RSV': <tlo.methods.causes.Cause object at 0x14f280410>, 'ALRI_Rhinovirus': <tlo.methods.causes.Cause object at 0x14f280490>, 'ALRI_Staph_aureus': <tlo.methods.causes.Cause object at 0x14f2804d0>, 'ALRI_Strep_pneumoniae_PCV13': <tlo.methods.causes.Cause object at 0x14f280510>, 'ALRI_Strep_pneumoniae_non_PCV13': <tlo.methods.causes.Cause object at 0x14f280550>, 'ALRI_other_Strepto_Enterococci': <tlo.methods.causes.Cause object at 0x14f280590>, 'ALRI_other_bacterial_pathogens': <tlo.methods.causes.Cause object at 0x14f2805d0>, 'ALRI_other_pathogens_NoS': <tlo.methods.causes.Cause object at 0x14f280610>, 'ALRI_other_viral_pathogens': <tlo.methods.causes.Cause object at 0x14f280650>}
+     CAUSES_OF_DEATH : {'ALRI_Enterobacteriaceae': <tlo.methods.causes.Cause object at 0x15e035010>, 'ALRI_H.influenzae_non_type_b': <tlo.methods.causes.Cause object at 0x15dc3d6d0>, 'ALRI_HMPV': <tlo.methods.causes.Cause object at 0x15e0350d0>, 'ALRI_Hib': <tlo.methods.causes.Cause object at 0x15e035150>, 'ALRI_Influenza': <tlo.methods.causes.Cause object at 0x15e0351d0>, 'ALRI_P.jirovecii': <tlo.methods.causes.Cause object at 0x15e035210>, 'ALRI_Parainfluenza': <tlo.methods.causes.Cause object at 0x15e035250>, 'ALRI_RSV': <tlo.methods.causes.Cause object at 0x15e0352d0>, 'ALRI_Rhinovirus': <tlo.methods.causes.Cause object at 0x15e035350>, 'ALRI_Staph_aureus': <tlo.methods.causes.Cause object at 0x15e035390>, 'ALRI_Strep_pneumoniae_PCV13': <tlo.methods.causes.Cause object at 0x15e0353d0>, 'ALRI_Strep_pneumoniae_non_PCV13': <tlo.methods.causes.Cause object at 0x15e035410>, 'ALRI_other_Strepto_Enterococci': <tlo.methods.causes.Cause object at 0x15e035450>, 'ALRI_other_bacterial_pathogens': <tlo.methods.causes.Cause object at 0x15e035490>, 'ALRI_other_pathogens_NoS': <tlo.methods.causes.Cause object at 0x15e0354d0>, 'ALRI_other_viral_pathogens': <tlo.methods.causes.Cause object at 0x15e035510>}
 
-     CAUSES_OF_DISABILITY : {'ALRI_Enterobacteriaceae': <tlo.methods.causes.Cause object at 0x14f2806d0>, 'ALRI_H.influenzae_non_type_b': <tlo.methods.causes.Cause object at 0x14f280710>, 'ALRI_HMPV': <tlo.methods.causes.Cause object at 0x14f280790>, 'ALRI_Hib': <tlo.methods.causes.Cause object at 0x14f280810>, 'ALRI_Influenza': <tlo.methods.causes.Cause object at 0x14f280890>, 'ALRI_P.jirovecii': <tlo.methods.causes.Cause object at 0x14f2808d0>, 'ALRI_Parainfluenza': <tlo.methods.causes.Cause object at 0x14f280910>, 'ALRI_RSV': <tlo.methods.causes.Cause object at 0x14f280990>, 'ALRI_Rhinovirus': <tlo.methods.causes.Cause object at 0x14f280a50>, 'ALRI_Staph_aureus': <tlo.methods.causes.Cause object at 0x14f280a90>, 'ALRI_Strep_pneumoniae_PCV13': <tlo.methods.causes.Cause object at 0x14f280ad0>, 'ALRI_Strep_pneumoniae_non_PCV13': <tlo.methods.causes.Cause object at 0x14f280b10>, 'ALRI_other_Strepto_Enterococci': <tlo.methods.causes.Cause object at 0x14f280b50>, 'ALRI_other_bacterial_pathogens': <tlo.methods.causes.Cause object at 0x14f280b90>, 'ALRI_other_pathogens_NoS': <tlo.methods.causes.Cause object at 0x14f280bd0>, 'ALRI_other_viral_pathogens': <tlo.methods.causes.Cause object at 0x14f280c10>}
+     CAUSES_OF_DISABILITY : {'ALRI_Enterobacteriaceae': <tlo.methods.causes.Cause object at 0x15e035590>, 'ALRI_H.influenzae_non_type_b': <tlo.methods.causes.Cause object at 0x15e0355d0>, 'ALRI_HMPV': <tlo.methods.causes.Cause object at 0x15e035650>, 'ALRI_Hib': <tlo.methods.causes.Cause object at 0x15e0356d0>, 'ALRI_Influenza': <tlo.methods.causes.Cause object at 0x15e035750>, 'ALRI_P.jirovecii': <tlo.methods.causes.Cause object at 0x15e035790>, 'ALRI_Parainfluenza': <tlo.methods.causes.Cause object at 0x15e0357d0>, 'ALRI_RSV': <tlo.methods.causes.Cause object at 0x15e035850>, 'ALRI_Rhinovirus': <tlo.methods.causes.Cause object at 0x15e035910>, 'ALRI_Staph_aureus': <tlo.methods.causes.Cause object at 0x15e035950>, 'ALRI_Strep_pneumoniae_PCV13': <tlo.methods.causes.Cause object at 0x15e035990>, 'ALRI_Strep_pneumoniae_non_PCV13': <tlo.methods.causes.Cause object at 0x15e0359d0>, 'ALRI_other_Strepto_Enterococci': <tlo.methods.causes.Cause object at 0x15e035a10>, 'ALRI_other_bacterial_pathogens': <tlo.methods.causes.Cause object at 0x15e035a50>, 'ALRI_other_pathogens_NoS': <tlo.methods.causes.Cause object at 0x15e035a90>, 'ALRI_other_viral_pathogens': <tlo.methods.causes.Cause object at 0x15e035ad0>}
 
-     INIT_DEPENDENCIES : {'Demography', 'Hiv', 'SymptomManager', 'Lifestyle', 'NewbornOutcomes', 'Wasting', 'Epi'}
+     INIT_DEPENDENCIES : {'Demography', 'Lifestyle', 'Hiv', 'Epi', 'Wasting', 'SymptomManager', 'NewbornOutcomes'}
 
-     METADATA : {<Metadata.USES_HEALTHBURDEN: 4>, <Metadata.DISEASE_MODULE: 1>, <Metadata.USES_SYMPTOMMANAGER: 2>, <Metadata.USES_HEALTHSYSTEM: 3>}
+     METADATA : {<Metadata.DISEASE_MODULE: 1>, <Metadata.USES_SYMPTOMMANAGER: 2>, <Metadata.USES_HEALTHSYSTEM: 3>, <Metadata.USES_HEALTHBURDEN: 4>}
 
      OPTIONAL_INIT_DEPENDENCIES : {'HealthBurden'}
 
@@ -506,7 +506,7 @@ tlo.methods.alri module
 
      __annotations__ : {}
 
-     fraction_of_year_between_polling_event : <property object at 0x14f2847c0>
+     fraction_of_year_between_polling_event : <property object at 0x15e038900>
 
      **Functions (defined or overridden in class AlriPollingEvent):**
 
@@ -611,7 +611,7 @@ tlo.methods.alri module
 
      __annotations__ : {}
 
-     _is_as_in_patient : <property object at 0x14f284a40>
+     _is_as_in_patient : <property object at 0x15e038b80>
 
      **Functions (defined or overridden in class HSI_Alri_Treatment):**
 
@@ -792,7 +792,7 @@ tlo.methods.alri module
 
      **Class attributes:**
 
-     ALTERNATIVE_TO : {'Hiv', 'Wasting', 'Epi'}
+     ALTERNATIVE_TO : {'Wasting', 'Hiv', 'Epi'}
 
      INIT_DEPENDENCIES : {'Demography'}
 

diff --git a/_sources/reference/tlo.methods.bladder_cancer.rst.txt b/_sources/reference/tlo.methods.bladder_cancer.rst.txt
@@ -148,13 +148,13 @@ tlo.methods.bladder_cancer module
 
      **Class attributes:**
 
-     CAUSES_OF_DEATH : {'BladderCancer': <tlo.methods.causes.Cause object at 0x33f396110>}
+     CAUSES_OF_DEATH : {'BladderCancer': <tlo.methods.causes.Cause object at 0x16add18d0>}
 
-     CAUSES_OF_DISABILITY : {'BladderCancer': <tlo.methods.causes.Cause object at 0x33f3942d0>}
+     CAUSES_OF_DISABILITY : {'BladderCancer': <tlo.methods.causes.Cause object at 0x16add0890>}
 
-     INIT_DEPENDENCIES : {'Lifestyle', 'HealthSystem', 'Demography', 'SymptomManager'}
+     INIT_DEPENDENCIES : {'Demography', 'Lifestyle', 'HealthSystem', 'SymptomManager'}
 
-     METADATA : {<Metadata.USES_HEALTHBURDEN: 4>, <Metadata.DISEASE_MODULE: 1>, <Metadata.USES_SYMPTOMMANAGER: 2>, <Metadata.USES_HEALTHSYSTEM: 3>}
+     METADATA : {<Metadata.DISEASE_MODULE: 1>, <Metadata.USES_SYMPTOMMANAGER: 2>, <Metadata.USES_HEALTHSYSTEM: 3>, <Metadata.USES_HEALTHBURDEN: 4>}
 
      OPTIONAL_INIT_DEPENDENCIES : {'HealthBurden', 'Schisto'}
 

diff --git a/_sources/reference/tlo.methods.breast_cancer.rst.txt b/_sources/reference/tlo.methods.breast_cancer.rst.txt
@@ -133,13 +133,13 @@ tlo.methods.breast_cancer module
 
      **Class attributes:**
 
-     CAUSES_OF_DEATH : {'BreastCancer': <tlo.methods.causes.Cause object at 0x33f714410>}
+     CAUSES_OF_DEATH : {'BreastCancer': <tlo.methods.causes.Cause object at 0x16ad2d410>}
 
-     CAUSES_OF_DISABILITY : {'BreastCancer': <tlo.methods.causes.Cause object at 0x33f714710>}
+     CAUSES_OF_DISABILITY : {'BreastCancer': <tlo.methods.causes.Cause object at 0x16ad2c910>}
 
-     INIT_DEPENDENCIES : {'HealthSystem', 'Demography', 'SymptomManager'}
+     INIT_DEPENDENCIES : {'Demography', 'HealthSystem', 'SymptomManager'}
 
-     METADATA : {<Metadata.USES_HEALTHBURDEN: 4>, <Metadata.DISEASE_MODULE: 1>, <Metadata.USES_SYMPTOMMANAGER: 2>, <Metadata.USES_HEALTHSYSTEM: 3>}
+     METADATA : {<Metadata.DISEASE_MODULE: 1>, <Metadata.USES_SYMPTOMMANAGER: 2>, <Metadata.USES_HEALTHSYSTEM: 3>, <Metadata.USES_HEALTHBURDEN: 4>}
 
      OPTIONAL_INIT_DEPENDENCIES : {'HealthBurden'}
 

diff --git a/_sources/reference/tlo.methods.cardio_metabolic_disorders.rst.txt b/_sources/reference/tlo.methods.cardio_metabolic_disorders.rst.txt
@@ -279,13 +279,13 @@ tlo.methods.cardio_metabolic_disorders module
 
      ADDITIONAL_DEPENDENCIES : {'Depression'}
 
-     CAUSES_OF_DEATH : {'diabetes': <tlo.methods.causes.Cause object at 0x33f338190>, 'chronic_ischemic_hd': <tlo.methods.causes.Cause object at 0x33f33a650>, 'ever_heart_attack': <tlo.methods.causes.Cause object at 0x33f339410>, 'ever_stroke': <tlo.methods.causes.Cause object at 0x33f33a850>, 'chronic_kidney_disease': <tlo.methods.causes.Cause object at 0x33f33a0d0>}
+     CAUSES_OF_DEATH : {'diabetes': <tlo.methods.causes.Cause object at 0x16ad30910>, 'chronic_ischemic_hd': <tlo.methods.causes.Cause object at 0x16ad30790>, 'ever_heart_attack': <tlo.methods.causes.Cause object at 0x16ad32050>, 'ever_stroke': <tlo.methods.causes.Cause object at 0x16ad33a50>, 'chronic_kidney_disease': <tlo.methods.causes.Cause object at 0x16ad32a50>}
 
-     CAUSES_OF_DISABILITY : {'diabetes': <tlo.methods.causes.Cause object at 0x33f33bfd0>, 'chronic_ischemic_hd': <tlo.methods.causes.Cause object at 0x33f339490>, 'heart_attack': <tlo.methods.causes.Cause object at 0x33f33ab50>, 'stroke': <tlo.methods.causes.Cause object at 0x33f338250>, 'chronic_kidney_disease': <tlo.methods.causes.Cause object at 0x33f338610>, 'lower_back_pain': <tlo.methods.causes.Cause object at 0x33f338c10>}
+     CAUSES_OF_DISABILITY : {'diabetes': <tlo.methods.causes.Cause object at 0x16ab557d0>, 'chronic_ischemic_hd': <tlo.methods.causes.Cause object at 0x16ab57890>, 'heart_attack': <tlo.methods.causes.Cause object at 0x16ab56750>, 'stroke': <tlo.methods.causes.Cause object at 0x16ab55310>, 'chronic_kidney_disease': <tlo.methods.causes.Cause object at 0x16ab55790>, 'lower_back_pain': <tlo.methods.causes.Cause object at 0x16ab55b50>}
 
-     INIT_DEPENDENCIES : {'Lifestyle', 'HealthSystem', 'Demography', 'SymptomManager'}
+     INIT_DEPENDENCIES : {'Demography', 'Lifestyle', 'HealthSystem', 'SymptomManager'}
 
-     METADATA : {<Metadata.USES_HEALTHBURDEN: 4>, <Metadata.DISEASE_MODULE: 1>, <Metadata.USES_SYMPTOMMANAGER: 2>, <Metadata.USES_HEALTHSYSTEM: 3>}
+     METADATA : {<Metadata.DISEASE_MODULE: 1>, <Metadata.USES_SYMPTOMMANAGER: 2>, <Metadata.USES_HEALTHSYSTEM: 3>, <Metadata.USES_HEALTHBURDEN: 4>}
 
      OPTIONAL_INIT_DEPENDENCIES : {'HealthBurden', 'Hiv'}
 

diff --git a/_sources/reference/tlo.methods.care_of_women_during_pregnancy.rst.txt b/_sources/reference/tlo.methods.care_of_women_during_pregnancy.rst.txt
@@ -157,9 +157,9 @@ tlo.methods.care_of_women_during_pregnancy module
 
      **Class attributes:**
 
-     ADDITIONAL_DEPENDENCIES : {'Lifestyle', 'Contraception', 'Labour'}
+     ADDITIONAL_DEPENDENCIES : {'Labour', 'Contraception', 'Lifestyle'}
 
-     INIT_DEPENDENCIES : {'HealthSystem', 'Demography', 'PregnancySupervisor'}
+     INIT_DEPENDENCIES : {'Demography', 'HealthSystem', 'PregnancySupervisor'}
 
      METADATA : {<Metadata.USES_HEALTHSYSTEM: 3>}
 

diff --git a/_sources/reference/tlo.methods.chronicsyndrome.rst.txt b/_sources/reference/tlo.methods.chronicsyndrome.rst.txt
@@ -70,13 +70,13 @@ tlo.methods.chronicsyndrome module
 
      **Class attributes:**
 
-     CAUSES_OF_DEATH : {'ChronicSyndrome': <tlo.methods.causes.Cause object at 0x14f1d4b10>}
+     CAUSES_OF_DEATH : {'ChronicSyndrome': <tlo.methods.causes.Cause object at 0x15e3b7a50>}
 
-     CAUSES_OF_DISABILITY : {'ChronicSyndrome': <tlo.methods.causes.Cause object at 0x14f1d66d0>}
+     CAUSES_OF_DISABILITY : {'ChronicSyndrome': <tlo.methods.causes.Cause object at 0x15e3b6010>}
 
-     INIT_DEPENDENCIES : {'HealthSystem', 'Demography', 'SymptomManager'}
+     INIT_DEPENDENCIES : {'Demography', 'HealthSystem', 'SymptomManager'}
 
-     METADATA : {<Metadata.USES_HEALTHBURDEN: 4>, <Metadata.DISEASE_MODULE: 1>, <Metadata.USES_SYMPTOMMANAGER: 2>, <Metadata.USES_HEALTHSYSTEM: 3>}
+     METADATA : {<Metadata.DISEASE_MODULE: 1>, <Metadata.USES_SYMPTOMMANAGER: 2>, <Metadata.USES_HEALTHSYSTEM: 3>, <Metadata.USES_HEALTHBURDEN: 4>}
 
      OPTIONAL_INIT_DEPENDENCIES : {'HealthBurden'}
 

diff --git a/_sources/reference/tlo.methods.contraception.rst.txt b/_sources/reference/tlo.methods.contraception.rst.txt
@@ -112,7 +112,7 @@ tlo.methods.contraception module
 
      **Class attributes:**
 
-     ADDITIONAL_DEPENDENCIES : {'Hiv', 'Labour'}
+     ADDITIONAL_DEPENDENCIES : {'Labour', 'Hiv'}
 
      INIT_DEPENDENCIES : {'Demography'}
 
@@ -122,9 +122,9 @@ tlo.methods.contraception module
 
      __annotations__ : {}
 
-     all_contraception_states : {'IUD', 'not_using', 'other_traditional', 'other_modern', 'pill', 'injections', 'female_sterilization', 'periodic_abstinence', 'male_condom', 'withdrawal', 'implant'}
+     all_contraception_states : {'injections', 'IUD', 'withdrawal', 'pill', 'female_sterilization', 'not_using', 'periodic_abstinence', 'other_modern', 'implant', 'other_traditional', 'male_condom'}
 
-     contraceptives_initiated_with_additional_items : {'injections', 'IUD', 'female_sterilization', 'pill', 'implant'}
+     contraceptives_initiated_with_additional_items : {'injections', 'IUD', 'implant', 'pill', 'female_sterilization'}
 
      **Functions (defined or overridden in class Contraception):**
 

diff --git a/_sources/reference/tlo.methods.copd.rst.txt b/_sources/reference/tlo.methods.copd.rst.txt
@@ -105,13 +105,13 @@ tlo.methods.copd module
 
      ADDITIONAL_DEPENDENCIES : set()
 
-     CAUSES_OF_DEATH : {'COPD_cat0': <tlo.methods.causes.Cause object at 0x33f335150>, 'COPD_cat1': <tlo.methods.causes.Cause object at 0x33f337610>, 'COPD_cat2': <tlo.methods.causes.Cause object at 0x33f336310>, 'COPD_cat3': <tlo.methods.causes.Cause object at 0x33f334650>, 'COPD_cat4': <tlo.methods.causes.Cause object at 0x33f336b10>, 'COPD_cat5': <tlo.methods.causes.Cause object at 0x33f337dd0>, 'COPD_cat6': <tlo.methods.causes.Cause object at 0x33f335950>}
+     CAUSES_OF_DEATH : {'COPD_cat0': <tlo.methods.causes.Cause object at 0x16a9064d0>, 'COPD_cat1': <tlo.methods.causes.Cause object at 0x16a906ad0>, 'COPD_cat2': <tlo.methods.causes.Cause object at 0x16a907f90>, 'COPD_cat3': <tlo.methods.causes.Cause object at 0x16a906b50>, 'COPD_cat4': <tlo.methods.causes.Cause object at 0x16a907e90>, 'COPD_cat5': <tlo.methods.causes.Cause object at 0x16a905d90>, 'COPD_cat6': <tlo.methods.causes.Cause object at 0x16a907110>}
 
-     CAUSES_OF_DISABILITY : {'COPD': <tlo.methods.causes.Cause object at 0x33f335c50>}
+     CAUSES_OF_DISABILITY : {'COPD': <tlo.methods.causes.Cause object at 0x16a905bd0>}
 
-     INIT_DEPENDENCIES : {'Lifestyle', 'HealthSystem', 'SymptomManager'}
+     INIT_DEPENDENCIES : {'HealthSystem', 'Lifestyle', 'SymptomManager'}
 
-     METADATA : {<Metadata.USES_HEALTHBURDEN: 4>, <Metadata.DISEASE_MODULE: 1>, <Metadata.USES_SYMPTOMMANAGER: 2>, <Metadata.USES_HEALTHSYSTEM: 3>}
+     METADATA : {<Metadata.DISEASE_MODULE: 1>, <Metadata.USES_SYMPTOMMANAGER: 2>, <Metadata.USES_HEALTHSYSTEM: 3>, <Metadata.USES_HEALTHBURDEN: 4>}
 
      __annotations__ : {}
 

diff --git a/_sources/reference/tlo.methods.depression.rst.txt b/_sources/reference/tlo.methods.depression.rst.txt
@@ -178,13 +178,13 @@ tlo.methods.depression module
 
      **Class attributes:**
 
-     CAUSES_OF_DEATH : {'Suicide': <tlo.methods.causes.Cause object at 0x33f8e4110>}
+     CAUSES_OF_DEATH : {'Suicide': <tlo.methods.causes.Cause object at 0x16ae921d0>}
 
-     CAUSES_OF_DISABILITY : {'SevereDepression': <tlo.methods.causes.Cause object at 0x33f8e7b90>}
+     CAUSES_OF_DISABILITY : {'SevereDepression': <tlo.methods.causes.Cause object at 0x16ae90ed0>}
 
-     INIT_DEPENDENCIES : {'HealthSystem', 'Demography', 'Contraception', 'SymptomManager', 'Lifestyle'}
+     INIT_DEPENDENCIES : {'HealthSystem', 'Lifestyle', 'Demography', 'Contraception', 'SymptomManager'}
 
-     METADATA : {<Metadata.USES_HEALTHBURDEN: 4>, <Metadata.DISEASE_MODULE: 1>, <Metadata.USES_SYMPTOMMANAGER: 2>, <Metadata.USES_HEALTHSYSTEM: 3>}
+     METADATA : {<Metadata.DISEASE_MODULE: 1>, <Metadata.USES_SYMPTOMMANAGER: 2>, <Metadata.USES_HEALTHSYSTEM: 3>, <Metadata.USES_HEALTHBURDEN: 4>}
 
      OPTIONAL_INIT_DEPENDENCIES : {'HealthBurden', 'Hiv'}
Original file line number	Diff line number	Diff line change
Expand Up		@@ -18,6 +18,8 @@ It is developed in a collaboration between:

		* `University of York <https://www.york.ac.uk/che/>`_

		* `East, Central and Southern Africa Health Community (ECSA-HC) <https://ecsahc.org/>`_

		It benefits from a close partnership between this team and the Ministry of Health, Malawi.


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