Merge branch 'master' into hallett/wasting_module

CITATION.cff

@@ -1,36 +1,130 @@
-# This CITATION.cff file was generated with cffinit.
-# Visit https://bit.ly/cffinit to generate yours today!
-
+# Author list automatically generated from contributors.yaml by running
+#     python src/scripts/automation/update_citation.py
+# Any manual updates to author list here may be overwritten
 cff-version: 1.2.0
 title: The Thanzi La Onse Model
 version: 1.0.0
-message: >-
-  If you use this software, please cite it using the
-  metadata from this file.
+message: If you use this software, please cite it using the metadata from this file.
 type: software
 authors:
-  - name: Thanzi La Onse Model Development Team
-    address: >-
-      Imperial College London; University College London;
-      Kamuzu University of Health Sciences; University of
-      York
-    website: https://www.tlomodel.org/authors.html
-repository-code: 'https://github.com/UCL/TLOmodel'
-url: 'https://tlomodel.org'
-abstract: >-
-  Our fundamental aim is to develop the use of
-  epidemiological and economic science to effect a
-  step-change in the way that health priorities are
-  addressed through policy interventions in low-income
-  countries. We are doing this by developing a model that
-  represents explicitly the generation of health gains in a
-  population, which can be used to examine the effect of
-  resource allocation, management and clinical practice, in
-  order to contribute to informing decision-making.
+- given-names: Timothy
+  family-names: Hallett
+  orcid: https://orcid.org/0000-0002-9681-0424
+  affiliation: Imperial College London
+  website: https://www.imperial.ac.uk/people/timothy.hallett
+- given-names: Andrew
+  family-names: Phillips
+  orcid: https://orcid.org/0000-0003-2384-4807
+  affiliation: University College London
+  website: https://profiles.ucl.ac.uk/5430
+- given-names: Asif
+  family-names: Tamuri
+  orcid: https://orcid.org/0000-0001-6633-3789
+  affiliation: University College London
+  website: https://www.homepages.ucl.ac.uk/~ucbtaut/
+- given-names: Tim
+  family-names: Colbourn
+  orcid: https://orcid.org/0000-0002-6917-6552
+  affiliation: University College London
+  website: https://profiles.ucl.ac.uk/3084
+- given-names: Joseph
+  family-names: Collins
+  orcid: https://orcid.org/0000-0003-4801-7218
+  affiliation: University College London
+  website: https://profiles.ucl.ac.uk/70734
+- given-names: Iwona
+  family-names: Hawryluk
+  orcid: https://orcid.org/0000-0001-6919-4366
+  affiliation: Imperial College London
+  website: https://www.imperial.ac.uk/people/i.hawryluk19
+- given-names: Britta
+  family-names: Jewell
+  orcid: https://orcid.org/0000-0003-4275-8509
+  website: https://www.imperial.ac.uk/people/b.jewell
+- given-names: Ines
+  family-names: Li Lin
+  orcid: https://orcid.org/0000-0002-1945-3208
+  affiliation: University College London
+- given-names: Tara
+  family-names: Mangal
+  orcid: https://orcid.org/0000-0001-9222-8632
+  affiliation: Imperial College London
+  website: https://www.imperial.ac.uk/people/t.mangal
+- given-names: Robbie
+  family-names: Manning-Smith
+  orcid: https://orcid.org/0000-0002-9457-2821
+  affiliation: University College London
+- given-names: Sakshi
+  family-names: Mohan
+  orcid: https://orcid.org/0000-0002-1268-1769
+  affiliation: University of York
+  website: https://www.york.ac.uk/che/staff/research/sakshi-mohan/
+- given-names: Wingston
+  family-names: Ng'ambi
+  orcid: https://orcid.org/0000-0003-3967-905X
+  affiliation: Kamuzu University of Health Sciences
+  website: https://www.linkedin.com/in/wingston-ng-ambi-7950707b
+- given-names: Bingling
+  family-names: She
+  orcid: https://orcid.org/0000-0001-5976-8987
+  affiliation: Imperial College London
+  website: https://www.imperial.ac.uk/people/b.she
+- given-names: Matthew
+  family-names: Gillman
+- given-names: Mosè
+  family-names: Giordano
+  orcid: https://orcid.org/0000-0002-7218-2873
+  affiliation: University College London
+  website: https://giordano.github.io/
+- given-names: Matthew
+  family-names: Graham
+  orcid: https://orcid.org/0000-0001-9104-7960
+  affiliation: University College London
+  website: https://matt-graham.github.io
+- given-names: Emmanuel
+  family-names: Mnjowe
+  affiliation: Kamuzu University of Health Sciences
+  website: https://www.linkedin.com/in/emmanuel-mnjowe-067481162
+- given-names: Stefan
+  family-names: Piatek
+  orcid: https://orcid.org/0000-0002-3028-5292
+  affiliation: University College London
+  website: https://profiles.ucl.ac.uk/67238
+- given-names: Jonathan
+  family-names: Cooper
+  orcid: https://orcid.org/0000-0001-6009-3542
+  affiliation: University College London
+  website: https://profiles.ucl.ac.uk/59377
+- given-names: Dimitra
+  family-names: Salmanidou
+  orcid: https://orcid.org/0000-0002-2147-0787
+  affiliation: University College London
+  website: https://www.researchgate.net/profile/Dimitra-Salmanidou
+- given-names: William
+  family-names: Graham
+  orcid: https://orcid.org/0000-0003-0058-263X
+  affiliation: University College London
+  website: https://willgraham01.github.io/
+- given-names: Margherita
+  family-names: Molaro
+  orcid: https://orcid.org/0000-0002-1841-4274
+  affiliation: Imperial College London
+- given-names: Eva
+  family-names: Janoušková
+  orcid: https://orcid.org/0000-0002-4104-0119
+  affiliation: University College London
+repository-code: https://github.com/UCL/TLOmodel
+url: https://tlomodel.org
+abstract: Our fundamental aim is to develop the use of epidemiological and economic
+  science to effect a step-change in the way that health priorities are addressed
+  through policy interventions in low-income countries. We are doing this by developing
+  a model that represents explicitly the generation of health gains in a population,
+  which can be used to examine the effect of resource allocation, management and clinical
+  practice, in order to contribute to informing decision-making.
 keywords:
-  - Epidemiology
-  - Healthcare Systems
-  - Health-Economics
-  - Simulation Modelling
-  - Individual-based Modelling
+- Epidemiology
+- Healthcare Systems
+- Health-Economics
+- Simulation Modelling
+- Individual-based Modelling
 license: MIT

MANIFEST.in

@@ -10,6 +10,7 @@ include tox.ini
 include tlo.example.conf
 include CITATION.cff
 include LICENSE.txt
+include contributors.yaml
 
 exclude .editorconfig
 recursive-exclude .ci *
@@ -23,8 +24,9 @@ exclude docs/reference/tlo.rst
 exclude docs/reference/modules.rst
 exclude docs/_*.rst
 exclude docs/hsi_events.csv
+exclude docs/_contributors_list.html
 
 global-exclude *.py[cod] __pycache__ *.so *.dylib .ipynb_checkpoints/** *~
 
 # exclude profiling scripts from minimal build
-recursive-exclude profiling *
+recursive-exclude profiling *