Enable Miniforge in GHA, wrap conda checks in tryCatch

- Add miniforge_variant/miniforge_version to rworkflows so conda binary
  is available (prevents env_exists from erroring)
- Wrap echoconda::env_exists() in tryCatch in all POLYFUN and
  multifinemap tests so they skip gracefully on CI

Co-Authored-By: Claude Opus 4.6 (1M context) <noreply@anthropic.com>

Author: bschilder

.github/workflows/rworkflows.yml

@@ -54,3 +54,5 @@ jobs:
         GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
         run_docker: ${{ true }}
         docker_registry: ghcr.io
+        miniforge_variant: Miniforge3
+        miniforge_version: latest

tests/testthat/test-POLYFUN.R

@@ -2,10 +2,12 @@ test_that("POLYFUN_SUSIE works", {
 
     testthat::skip_if_not_installed("echoconda")
     testthat::skip_if_not_installed("Ckmeans.1d.dp")
-    testthat::skip_if_not(
+    conda_available <- tryCatch(
         echoconda::env_exists(conda_env = "echoR_mini"),
-        message = "echoR_mini conda env not available"
+        error = function(e) FALSE
     )
+    testthat::skip_if_not(conda_available,
+                          message = "echoR_mini conda env not available")
     ## PolyFun submodule must be installed
     testthat::skip_if_not(
         dir.exists(system.file("tools", "polyfun", package = "echofinemap")),
@@ -44,10 +46,12 @@ test_that("POLYFUN_FINEMAP works", {
 
     testthat::skip_if_not_installed("echoconda")
     testthat::skip_if_not_installed("Ckmeans.1d.dp")
-    testthat::skip_if_not(
+    conda_available <- tryCatch(
         echoconda::env_exists(conda_env = "echoR_mini"),
-        message = "echoR_mini conda env not available"
+        error = function(e) FALSE
     )
+    testthat::skip_if_not(conda_available,
+                          message = "echoR_mini conda env not available")
     testthat::skip_if_not(
         dir.exists(system.file("tools", "polyfun", package = "echofinemap")),
         message = "PolyFun submodule not installed"

tests/testthat/test-POLYFUN_compute_priors.R

@@ -1,10 +1,12 @@
 test_that("POLYFUN_compute_priors works", {
 
     testthat::skip_if_not_installed("echoconda")
-    testthat::skip_if_not(
+    conda_available <- tryCatch(
         echoconda::env_exists(conda_env = "echoR_mini"),
-        message = "echoR_mini conda env not available"
+        error = function(e) FALSE
     )
+    testthat::skip_if_not(conda_available,
+                          message = "echoR_mini conda env not available")
     testthat::skip_if_not(
         dir.exists(system.file("tools", "polyfun", package = "echofinemap")),
         message = "PolyFun submodule not installed"

tests/testthat/test-POLYFUN_help.R

@@ -1,10 +1,12 @@
 test_that("POLYFUN_help works", {
 
     testthat::skip_if_not_installed("echoconda")
-    testthat::skip_if_not(
+    conda_available <- tryCatch(
         echoconda::env_exists(conda_env = "echoR_mini"),
-        message = "echoR_mini conda env not available"
+        error = function(e) FALSE
     )
+    testthat::skip_if_not(conda_available,
+                          message = "echoR_mini conda env not available")
 
     out <- POLYFUN_help()
     testthat::expect_true(grepl("PolyFun",out[[2]]))

tests/testthat/test-multifinemap.R

@@ -135,10 +135,12 @@ test_that("multifinemap works with POLYFUN_SUSIE", {
     testthat::skip_if_not_installed("echoconda")
     testthat::skip_if_not_installed("Ckmeans.1d.dp")
     testthat::skip_if_offline()
-    testthat::skip_if_not(
+    conda_available <- tryCatch(
         echoconda::env_exists(conda_env = "echoR_mini"),
-        message = "echoR_mini conda env not available"
+        error = function(e) FALSE
     )
+    testthat::skip_if_not(conda_available,
+                          message = "echoR_mini conda env not available")
     testthat::skip_if_not(
         dir.exists(system.file("tools", "polyfun", package = "echofinemap")),
         message = "PolyFun submodule not installed"