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CHANGELOG.md

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Change Log

All notable changes to this project will be documented in this file. This change log follows the conventions of keepachangelog.com.

unreleased

  • use devcontainer setup following template

[1.0.0]

  • require-r creates namespace as r.namespace, also namespace as an alias
  • dependencies update, TMD 7.029
  • SVG plots are annotated with kind/html
  • documentation migrated to Clay (partially)

[1.0.0-BETA22 - 2023-11-26]

  • dependencies update, TMD 7.021

[1.0.0-BETA21 - 2022-12-28]

  • dependencies update
  • plotting to svg tries to load svglite by default and use it (#86, #69), there is an option to switch between both implementations (default and svglite)
  • defr implemented

[1.0.0-BETA20 - 2022-08-13]

[1.0.0-BETA19 - 2020-04-05]

  • depdendency updates (clojure: "1.10.2", tech.ml.dataset: "5.15")

[1.0.0-BETA18 - 2020-02-19]

  • updating the tech.ml.dataset dependency to version "5.00-beta-28" (minor adaptation was required)

[1.0.0-BETA17 - 2020-01-27]

  • updating the tech.ml.dataset dependency to version "5.00-beta-27"

[1.0.0-BETA16]

  • updated the tech.ml.dataset version (latest 5.0 beta)
  • removed the Specter dependency
  • removed Renjin -- it will be supported in a separate library -- discussion here
  • ADDED vrksasna draft for session management
  • a very minor extension of clojisr internals to support that
  • removed GCReference (and tech.resource dependency) - replaced by proxy object.
  • added clojure.async latest dependency

[1.0.0-BETA15] - 2020-07-12

  • [hot fix] datasets are not transfered as data.frame due to implementation of map interfaces in t.m.ds 3.01

[1.0.0-BETA14] - 2020-07-11

  • clojisr.v1.rserve and clojisr.v1.renjin namespaces are deprecated now
  • setting default session type moved to clojisr.v1.r/set-default-session-type! function
  • refactoring of RServe process spawn and connection to mitigate (#62)
  • abandoned sessions/R processes cleaning fixes
  • tech.ml/dataset bumped to 3.01 version

[1.0.0-BETA13] - 2020-07-09

  • regresion with quote (#61), changed to use :!wrap hint
  • datetime conversion to string fixes
  • tech.ml.dataset bumped to 2.15 version
  • (experimental) turned off pomegranate dynamic dep loading for renjin

[1.0.0-BETA12] - 2020-07-08

Note: quote function doesn't work properly

  • refactored data and dataset transition between clojure and R backend as described here (#14)
  • tech.ml.dataset bumped to 2.13 version
  • removed java->naive-clj and added java->native-clj
  • require-r is moved to clojisr.v1.r (direct call to clojisr.v1.require/require-r is possible but deprecated)
  • reflection warnings mitigation
  • integer transition (#73)
  • ##Inf/##-Inf transition (#72)
  • wrapping into () and {} (#61)
  • unary operator wraps next form into parentheses (#59)
  • missing path is created when plotting (#56)
  • operators wrapped into % (like %chin%) are treated as binary operators (#55)

[1.0.0-BETA11] - 2020-05-20

  • updates in exception handling
  • updated tech.datatype, tech.ml.dataset dependency versions with some small code adaptation (#64)
  • notespace is no longer a dependency
  • rsymbol introduced
  • moved to lein-tools-deps and all deps are defined in deps.edn now

[1.0.0-BETA10] - 2020-03-29

  • new forms added: if, do, for and while
  • more binary operators: %%, %/%, ** and %in%
  • sequences beginning with command as backticked string are now callable (eg. '("^" 2 4))
  • vector starting with :!code is callable
  • JVM shutdown hook is registered to clean all R processes which are run when closing java process bra, brabra, bra<-, brabra<- can accept nil as empty-symbol now.
  • data function introduced (to load data from package)
  • removed empty-symbol (use nil in brackets) and na (use just 'NA)
  • picking a random free port as the default Rserve port
  • updating notespace dep version
  • updating tech.ml.dataset dep version

[1.0.0-BETA9] - 2020-03-21

  • changed logging to clojure/tools.logging
  • major breaking change: a new set of code-generation rules

[1.0.0-BETA8] - 2020-02-24

  • bugfix for plotting (to draw a chart print should be called instead of plot)
  • tech.ml libraries bumped
  • deps updated
  • bugfix: recognizing S4 functions ("standardGeneric")
  • bugfix: handling session-args carefully on r->clj data conversion
  • Clojure working directory is now set on R side
  • print-loop bound to session (#42)
  • RConnection locking revisited (#40)
  • GC rewritten (#25)
  • More careful session management (all atoms are now defonce, closed? depends on processes state)
  • fixed rmarkdown bug (wrong usage of gc)

[1.0.0-BETA7] - 2020-02-16

  • require-r:
    • :arglists tag added for required R functions
    • warning when package is not found
  • bugfix for problems when dynamically loading renjin jar:
    • using pomegranate directly, rather than alembic (to suppoert Java newer than Java 8)
    • handling classloaders carefully
  • a new API for data visualization, with more rendering options

[1.0.0-BETA6] - 2020-02-08

  • bugfix of a problem with using Alembic (making sure https is used)
  • change in the setup API of backends: requiring the main namesapce of a backend (renjin/rserve) sets default session-type, if no other default has been set yet;

[1.0.0-BETA5] - 2020-02-07

  • require-r can :refer :all now
  • REXPList, REXPNull are supported in data conversion
  • changed the API for setting up and switching backends ("session-types")
  • also fixed #27 by loading the renjin Jar on-the-fly with the proper repository into

[1.0.0-BETA4] - 2020-02-05

The main changes on the user side are the fact that R functions are Clojure functions, and the initial suppoort for a Renjin backend. Details below:

  • performance improvement: using an R environment rather than an R list for session memory
  • some refactoring to allow other kinds of R backends, in particular exending the Session protocol to take care of details such as printing and package in spection
  • more careful id management of sessions
  • checking the object class on creation of R objects
  • being careful when printing objects of lost sessions
  • R objects now extend the IFn inerface, so that R functions are Clojure functions
  • bugfix in regreshing objects across sessions
  • simplified the implementation of require-r -- functions can now be handled as regular objects
  • handling of strange symbols/keywords: refactored a bit, added some filtering
  • initial support of a Renjin (pure-JVM R) backend
  • handling failures in require-r
  • changes in logging

[1.0.0-BETA3] - 2020-01-28

  • handling unhandled cases in java->naive-clj conversion
  • loading data, not only functions, at require-r
  • require-r optimization: all underlying robjects are created once, then bound to namespaces
  • more careful handling of data conversion of list names: names with reader special characters are not converted to keywords

[1.0.0-BETA2] - 2020-01-21

  • added '$ as binary operator
  • performance bugfix: using native double array and type hint when conferting integer R vectors with missing values to clj
  • recognizing reticulate python functions as functions
  • bugfix in overriding default session args

[1.0.0-BETA1] - 2020-01-07

Initial v1 version.

Main developments since earlier versions:

  • code generation
  • changes in error handling, printing, etc.
  • requiring of R packages inspired by the python interop story (though less sophisticated)
  • function call syntax a bit different (no detailed function signatures yet)
  • documentation and tests using notespace

[0.0.1-SNAPSHOT] - Sep. 2019 - Dec. 2019

Initial draft version