activate actions and update args

.Rbuildignore

@@ -6,6 +6,7 @@
 ^README\.md
 
 # Automated testing files.
+^\.github$
 ^\.travis\.yml$
 ^appveyor\.yml$
 ^codecov\.yml$

.github/.gitignore

@@ -0,0 +1 @@
+*.html

.github/workflows/R-CMD-check.yml

@@ -0,0 +1,66 @@
+on:
+  push:
+    branches:
+      - master
+      - devel
+  pull_request:
+    branches:
+      - master
+      - devel
+
+name: R-CMD-check
+
+jobs:
+  R-CMD-check:
+    runs-on: ${{ matrix.config.os }}
+    name: ${{ matrix.config.os }} (${{ matrix.config.r }})
+
+    strategy:
+      fail-fast: false
+      matrix:
+        config:
+          - {os: ubuntu-latest, r: 'release'}
+          - {os: macOS-latest, r: 'release'}
+          - {os: windows-latest, r: 'release'}
+
+    env:
+      R_REMOTES_NO_ERRORS_FROM_WARNINGS: true
+      GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
+
+    steps:
+      - name: Checkout repo
+        uses: actions/checkout@v4
+
+      - name: Setup R
+        uses: r-lib/actions/setup-r@v2
+        with:
+          r-version: ${{ matrix.config.r }}
+
+      - name: Install pandoc
+        uses: r-lib/actions/setup-pandoc@v2
+
+      - name: Install tinyTeX
+        uses: r-lib/actions/setup-tinytex@v2
+
+      - name: Install system dependencies
+        if: runner.os == 'Linux'
+        run: |
+          sudo apt install -y curl libcurl4-doc libcurl4-openssl-dev
+
+      - name: Install package dependencies
+        run: |
+          install.packages(c("remotes", "rcmdcheck", "covr", "sessioninfo"))
+          remotes::install_deps(dependencies = TRUE)
+        shell: Rscript {0}
+
+      - name: Check package
+        run: |
+          options(crayon.enabled = TRUE)
+          rcmdcheck::rcmdcheck(args = "--no-manual", error_on = "error")
+        shell: Rscript {0}
+
+      - name: Upload code coverage
+        if: runner.os == 'Linux'
+        run: |
+          covr::codecov()
+        shell: Rscript {0}

DESCRIPTION

@@ -1,6 +1,6 @@
 Package: tmle3
 Title: The Extensible TMLE Framework
-Version: 0.2.0
+Version: 0.2.1
 Authors@R: c(
   person("Jeremy", "Coyle", email = "[email protected]",
          role = c("aut", "cre", "cph"),
@@ -18,7 +18,7 @@ Depends:
     R (>= 3.6.0),
     graphics
 Imports:
-    sl3 (>= 1.4.2),
+    sl3 (>= 1.4.5),
     delayed,
     data.table,
     assertthat,
@@ -47,13 +47,15 @@ Suggests:
     future.apply,
     xgboost
 Remotes:
-    github::tlverse/sl3
+  github::tlverse/sl3@fix-tests
+Additional_repositories:
+  https://tlverse.r-universe.dev
 License: GPL-3
 URL: https://tlverse.org/tmle3
 BugReports: https://github.com/tlverse/tmle3/issues
 Encoding: UTF-8
 LazyData: yes
 LazyLoad: yes
 VignetteBuilder: knitr
-RoxygenNote: 7.1.1.9000
+RoxygenNote: 7.3.2
 Roxygen: list(markdown = TRUE, r6 = FALSE)

R/tmle3_Spec.R

@@ -21,7 +21,7 @@ tmle3_Spec <- R6Class(
     make_tmle_task = function(data, node_list, ...) {
       variable_types <- self$options$variable_types
 
-      tmle_task <- point_tx_task(data, node_list, variable_types)
+      tmle_task <- point_tx_task(data, node_list, variable_types, ...)
 
       return(tmle_task)
     },

R/tmle3_Task.R

@@ -64,8 +64,8 @@ tmle3_Task <- R6Class(
         if ((current_node$scale) &&
           (current_type$type == "continuous") &&
           (is.null(current_type$bounds))) {
-          min_x <- min(variable_data)
-          max_x <- max(variable_data)
+          min_x <- min(variable_data, na.rm=TRUE)
+          max_x <- max(variable_data, na.rm=TRUE)
           range <- max_x - min_x
           lower <- min_x #- 0.1 * range
           upper <- max_x #+ 0.1 * range

README.Rmd

@@ -17,9 +17,8 @@ knitr::opts_chunk$set(
 
 # R/`tmle3`
 
-[![Travis-CI Build Status](https://travis-ci.org/tlverse/tmle3.svg?branch=master)](https://travis-ci.org/tlverse/tmle3)
-[![Appveyor Build Status](https://ci.appveyor.com/api/projects/status/cxp6a15anauyadgb?svg=true)](https://ci.appveyor.com/project/tlverse/tmle3)
-[![Coverage Status](https://img.shields.io/codecov/c/github/tlverse/tmle3/master.svg)](https://codecov.io/github/tlverse/tmle3?branch=master)
+[![R-CMD-check](https://github.com/tlverse/tmle3/workflows/R-CMD-check/badge.svg)](https://github.com/tlverse/tmle3/actions)
+[![Coverage Status](https://codecov.io/gh/tlverse/tmle3/branch/master/graph/badge.svg)](https://codecov.io/gh/tlverse/tmle3)
 [![Project Status: Active – The project has reached a stable, usable state and is being actively developed.](https://www.repostatus.org/badges/latest/active.svg)](https://www.repostatus.org/#active)
 [![License: GPL v3](https://img.shields.io/badge/License-GPL%20v3-blue.svg)](http://www.gnu.org/licenses/gpl-3.0)
 [![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.4603358.svg)](https://doi.org/10.5281/zenodo.4603358)
@@ -45,15 +44,6 @@ inference, the canonical references are @vdl2011targeted and @vdl2018targeted.
 
 ## Installation
 
-<!--
-For standard use, we recommend installing the package from
-[CRAN](https://CRAN.R-project.org/package=hal9001) via
-
-```{r cran-installation, eval = FALSE}
-install.packages("hal9001")
-```
--->
-
 To contribute, install the _development version_ of `tmle3` from GitHub via
 [`remotes`](https://CRAN.R-project.org/package=remotes):