v0.8.0

v0.8.0 (2020-01-04)

Diff since v0.7.4

Closed issues:

• Recommend memoization in docs for expensive functions in models when Gibbs sampling (#1024)
• Missing Pkg in dependencies (#1020)
• Numerical errors on Turing v0.7.4 (#1017)
• Problem with random switch (#1013)
• Error with Gibbs compositional sampler and an array (#1004)
• Elliptical slice sampling (#991)
• Simple syntax for querying the model and posterior sample (#989)
• Unifying assume and observe and handling missing data and user-input variable names (#972)
• Issues in Intro (#942)
• Cannot compile Turing on fresh Julia install (#936)
• Keyword arugments in @model are not treated as data (#911)
• Sampling from an InverseWishart with HMC (#883)
• Too much macro dependence? (#820)
• Log probability of an observation (#817)
• Model syntax: provide automatically all random variables as argument? (#792)
• Use ModelingToolkit for frontend or IR? (#789)
• Observe vectorisation issue. (#761)
• Assume in vectorisation of HMC bug. (#760)
• Function to add to logp within @model Turing model (#754)
• Unifying error messages. (#747)
• Option to reject samples that cause errors (#703)
• Why does @model build a declaration instead of a value? (#667)
• array comprehension for random variables (#604)
• Compiler generated aliases (#533)
• Compiler does not pass on the sampler (#532)
• @varname can be replaced with a function (#514)
• Refactoring VarName: new indexing scheme (#484)
• Change broadcasting for ~ macro (#476)
• Evaluating the posterior (#400)
• Specialised inference (#313)

Merged pull requests:

• Increment version number to 0.8.0 (#1054) (cpfiffer)
• Update index.html (#1051) (yebai)
• Make MH in Gibbs faster (#1050) (mohamed82008)
• Use div instead of round (#1049) (devmotion)
• Remove == true and == false (#1048) (devmotion)
• Comparisons with nothing (#1047) (devmotion)
• Use preferred truncated instead of Truncated (#1045) (devmotion)
• Remove static type parameters (#1044) (devmotion)
• Update index.html (#1041) (yebai)
• CompatHelper: bump compat for "MCMCChains" to "1.0" (#1040) (github-actions[bot])
• Fix docstrings and remove static type parameters (#1037) (devmotion)
• Do not allow nothing as sampler (#1036) (devmotion)
• CompatHelper: bump compat for "LogDensityProblems" to "0.10" (#1035) (github-actions[bot])
• Replace deprecated TruncatedNormal (#1033) (devmotion)
• Replace deprecated option (#1031) (devmotion)
• Remove .travis.yml site build (#1030) (cpfiffer)
• Set up Ruby before building the documentation (#1029) (devmotion)
• Update index.html (#1028) (yebai)
• CompatHelper: bump compat for "SpecialFunctions" to "0.9" (#1027) (github-actions[bot])
• Minor website changes & GitHub actions setup (#1026) (cpfiffer)
• Add memoization when Gibbs sampling to performance tips (#1025) (mohamed82008)
• Add sorted=true in Chain constructor (#1023) (cpfiffer)
• Update website (#1022) (cpfiffer)
• CompatHelper: bump compat for "Requires" to "1.0" (#1021) (github-actions[bot])
• Fix interface guide (#1018) (cpfiffer)
• Add elliptical slice sampling algorithm (#1000) (devmotion)
• prob and logprob macros for simple model queries (#997) (mohamed82008)
• Add explicit resampler with ESS threshold (#990) (devmotion)
• Compiler 3.0 (#965) (mohamed82008)

v0.7.4

v0.7.4 (2019-12-08)

Diff since v0.7.3

Closed issues:

• Release Turing (#984)
• observe and assume (#504)

Merged pull requests:

• Reduce version number (#1016) (cpfiffer)
• Increment version number (#1014) (cpfiffer)
• Update README.md (#1010) (yebai)
• Migrate to AbstractMCMC, add interface manual (#1007) (cpfiffer)
• Set seed in distribution test (#998) (devmotion)
• Add fallbacks for alg\_str and transition\_type (#995) (devmotion)
• Add space as type parameter to Gibbs sampler (#994) (devmotion)
• Implement getspace only for instances (#993) (devmotion)
• Simplify the acceptance check in MH and update the documentation (#992) (devmotion)
• Create arrays of particles instead of using push! in SMC and PG (#988) (devmotion)
• Remove obsolete ZygoteRules from dependency. (#987) (yebai)
• Simplify stratified resampling (#983) (devmotion)
• Simplify systematic resampling (#982) (devmotion)
• Bump Zygote version and drop bound on ZygoteRules (#955) (torfjelde)

v0.7.3

v0.7.3 (2019-11-21)

Diff since v0.7.2

Closed issues:

• Persistent numerical issues (#974)
• Broken tests on 32-bit version of Julia on Windows. (#923)
• Multivariate proposals for MH current not supported (#906)

Merged pull requests:

• Remove num_particles and pre-allocate children (#979) (devmotion)
• Bump FiniteDifferences version and fix AD tests (#975) (mohamed82008)
• Reduce allocations (#971) (devmotion)
• Simplify calculations of tables for DirichletProcess and PitmanYorProcess (#970) (devmotion)
• Add numerically stable Poisson logpdf (#967) (itsdfish)
• Simplify ParticleContainer (#966) (devmotion)
• Update checks for nothing (#964) (devmotion)
• Update deprecated lbeta to logbeta (#961) (itsdfish)
• Update shim to DynamicHMC 2 and LogDensityProblems 0.9. (#960) (tpapp)
• Remove redundant computations and unneeded allocations (#959) (devmotion)
• Performance tips (#958) (trappmartin)
• Export resume function (#954) (cpfiffer)
• CompatHelper: bump compat for "SpecialFunctions" to "0.8" (#952) (github-actions[bot])
• Create CompatHelper.yml (#948) (yebai)
• Add new HMC internals (#947) (sethaxen)
• Add bound on ZygoteRules because it's not done by Zygote (#946) (andreasnoack)
• Try Github actions. (#945) (yebai)
• A few updates of HMC, Gibbs, and NUTS to new API. (#941) (andreasnoack)

v0.7.2

v0.7.2 (2019-10-29)

Diff since v0.7.1

Closed issues:

• Register turing 0.7.1 (#939)

Merged pull requests:

• Upper bound versions for auto merge in General (rest) (#944) (xukai92)
• Upper bound versions for auto merge in General (#943) (xukai92)

v0.7.1

See github.com/TuringLang/Turing.jl/releases/tag/v0.7.1 for release n…

v0.7.0

v0.7.0 (2019-10-03)

Diff since v0.6.23

Closed issues:

• Doc build/configuration error (#919)
• Incompatibilty with LocationScale (#916)
• GMM example fail (#914)
• TArray and multinomial (#899)
• StickBreakingProcess logpdf is ambiguous (#893)
• /tutorials/1-gaussianmixturemodel: GC error (probable corruption) (#881)
• Passing RNG (#870)
• NaN violates Normal condition σ >= zero(σ) (#868)
• Test produces lots of errors (#867)
• Simple model fails to converge with N = 500 (#866)
• getparams indexing error (#854)
• Adding versioning support for Documentation and Tutorials. (#837)
• MvNormal AD and cov symmetry (#827)
• Simple example of ODE parameters inference (#810)
• Design/improve/unifty sample\(\) interface (#746)
• Resume interface (#566)
• Better adaptation configuration interface (#491)
• help with model (#412)

Merged pull requests:

• Increment version number to 0.7.0 (#926) (cpfiffer)
• docs update (#925) (KDr2)
• Lock "faraday" to 0.15.4 (#921) (KDr2)
• Use DistributionsAD (#917) (mohamed82008)
• Docstring updates, guide improvements. (#915) (cpfiffer)
• Fix for issue 903 (#910) (torfjelde)
• Removed include io.jl since io.jl is gone (#909) (torfjelde)
• Make tests pass on 1.2 (#908) (xukai92)
• Docs: add Twitter button on page header (#901) (KDr2)
• Fix for #893 (#898) (trappmartin)
• Update style-guide.md (#897) (torfjelde)
• added OrderedLogistic distribution (#896) (elizavetasemenova)
• README links broken again (#894) (Red-Portal)
• Include Julia 1.2 in Travis tests. (#891) (yebai)
• Set AHMC version lower bound to v0.2.3. (#890) (yebai)
• Changed gradient of LSE (#885) (trappmartin)
• Docs Versioning Support (#884) (KDr2)
• Fix Base.rand Signature (#882) (bhgomes)
• Increase default tree depth of NUTS from 5 to 10 (#879) (xukai92)
• Pass rng to all functions (#871) (xukai92)
• Fix all tests (#858) (mohamed82008)
• Add related packages. (#853) (yebai)
• Uniform interface of Benchmark (#851) (KDr2)
• Interface Changeover (#793) (cpfiffer)

v0.6.23

v0.6.23 (2019-07-31)

Diff since v0.6.22

Closed issues:

• NUTS/HMC not working on 0.6.19 (#864)

Merged pull requests:

• Updated AHMC version (#876) (trappmartin)
• The docs link is broken (#875) (Red-Portal)
• Docs improvements. (#874) (yebai)
• dispatch-based AD, updated manifest (#872) (matbesancon)

v0.6.22

v0.6.22 (2019-07-25)

Diff since v0.6.21

Merged pull requests:

• Constraint AHMC version >= 0.2.1 (#865) (xukai92)
• Added docs redesign. (#861) (yebai)

v0.6.21

v0.6.21 (2019-07-24)

Diff since v0.6.19

Merged pull requests:

• Get ready for AHMC v0.2.0 (#849) (xukai92)

v0.6.19

v0.6.19 (2019-07-23)

Diff since v0.6.18

Closed issues:

• gradient_logp is not type stable (#856)
• Tracker AD is broken for LDA (#850)
• Turing Minor Release (#839)
• Incorrect algorithm specification doesn't throw an error. (#831)
• Error with tracker based gradient for MvNormal (#829)
• Hack to get strictly typed Duals? (#818)
• Make alg.space type info of the alg (#802)
• AD error with custom distribution (#780)
• Consider a CITATION.bib file (#759)
• Completely eliminating Real from the model and pre-allocating (#665)

Merged pull requests:

• Increment version number to 0.6.19 (#862) (cpfiffer)
• add some spaces to example code and tests (#860) (srenatus)
• Fix Tracker AD for LDA (#857) (mohamed82008)
• Bring back the generated functions (#852) (mohamed82008)
• Update MAP docs (#845) (mohamed82008)
• Add citation file. (#843) (yebai)
• Benchmarks update (#841) (KDr2)
• Add examples in #829 to benchmarks. (#836) (yebai)
• Fix #665, #802 and #829 (#826) (mohamed82008)
• Variational Inference (#796) (torfjelde)