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socialmixr 0.4.0
- The speed of loading surveys has been increased.
- An error has been fixed causing NA contact matrices if any 5-year
age band in the population data was missing.
- Results of function calls accessing Zenodo repository are now cached
for speedup and to avoid multiple web requests
- A bug was fixed where ages given as ranges had been set to the
average of estimated ones
- The
limits_to_agegroups has been changed to return
bracket notated age ranges by default
socialmixr 0.3.2
An error in list_surveys() was fixed which stopped
this working.
contact_matrix() was updated to only accept
survey objects, not DOIs and matches the documentation. It
is still possible to get a contact matrix from a DOI but it is necessary
to go through the get_survey() function.
```r # No longer works! contact_matrix(“10.5281/zenodo.1095664”)
Recommended workflow
get_survey(“10.5281/zenodo.1095664”) |> contact_matrix()
The efficiency of the contact_matrix() was
improved.
socialmixr 0.3.1
- Tests were updated to prevent failures due to machine precision
issues on some platforms (#100)
socialmixr 0.3.0
Major & breaking changes
- The
cite function has been deprecated and replaced with
get_citation (#84).
- the
columns argument has been removed from
check.survey() (#81).
Internal changes
- Code quality is now ensured through continuous integration and the
lintr package (#69).
- Cyclomatic
complexity of
download_survey() has been reduced by
externalising the find_common_prefix() function and failing
early instead of relying on unnecessary if/else sequences
- More generous filename checks now pass files named
e.g. “…_participants_common…” an not only “…participant_common…”
- The package now sets a custom user agent when downloading survey
data (#82).
- A problem was fixed where attempted joins of files could lead to
blowing up memory use (#75).
- A problem was fixed where the updated Zenodo API caused downloading
to fail (#91).
- A problem was fixed where the updated Zenodo API caused listing
surveys to fail (#96).
socialmixr 0.2.0
Major & breaking changes
error argument has been removed from
check() and always return warnings. If you want to turn
these warnings into errors, please have a look at
options(warn = 2)quiet argument has been removed from
check(), cite(),
contact_matrix(), and get_survey(). If you
want to silence diagnostic messages, you should use R idiomatic
mechanisms, such as suppressMessages()- the
n and bootstrap options of
contact_matrix() have been deprecated and replaced with a
sample.participants argument; bootstrapping is now
explained in the vignette instead
- new
matrix_plot() function to plot contact matrix
- the use of weights has been improved and the corresponding section
in the vignette expanded
Minor changes
- world population data has been updated to 2017 by switching from the
wpp2015 to wpp2017 package
chkDots() is now used to ensure no argument is silently
ignored by S3 methods
Internal changes
- continuous integration is now done via GitHub Actions
- improved robustness of survey loading and cleaning
get_survey() has been split into separate functions for
downloading and processing survey data
socialmixr 0.1.8
- fixed test
- fixed order of limits in
reduce_agegroups
socialmixr 0.1.7
- fixed bug when age is given as a range, or when age.limits contains
ages not represented in the data
- limits_to_agegroups now returns an ordered list (thanks @pearsonca)
- now allows for estimated participant age (thanks @jarvisc1)
- fixed bug in calculating weights (thanks @alxsrobert)
socialmixr 0.1.6
- if access to Zenodo fails an informative error message is now
given
- tests that require access to Zenodo now fail if it cannot be
accessed
- fixed bug in interpreting return values of the Zenodo API
socialmixr 0.1.5
- removed option to call survey by number - use DOI for
reproducibility
socialmixr 0.1.4
- better work with missing and diverse data (e.g., age as
factors)
- ‘get_survey’ now works with URLs
- fixed ‘list_surveys’ to only return the latest version of each data
set
- some small fixes
socialmixr 0.1.3
- improved handling of DOIs
- fixed usage of weights
- more consistency checks and tests
- performance improvements when weighting
- ‘pop_age’ can now be called by the user
socialmixr 0.1.2
- improved downloading form Zenodo; only a single download is used
now
- improved handling of country names
- fixed bugs in the “filter” option
- POLYMOD data set updated to latest v1.1
- allow user to choose how ages are estimated from age ranges
socialmixr 0.1.1
- fix: dependency on R >= 3.4.0
- updated reference handling if a survey is not pulled from
Zenodo
- the ‘survey’ function can now be used to create a ‘survey’ object
from data frames
- a few small patches and fixes
socialmixr 0.1.0
These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.