status: highlight when deps have different loaded versions

CHANGELOG.md

@@ -4,6 +4,7 @@ Pkg v1.12 Release Notes
 - Pkg now has support for "workspaces" which is a way to resolve multiple project files into a single manifest.
   The functions `Pkg.status`, `Pkg.why`, `Pkg.instantiate`, `Pkg.precompile` (and their REPL variants) have been updated
   to take a `workspace` option. Read more about this feature in the manual about the TOML-files.
+- `status` now shows when different versions/sources of dependencies are loaded than that which is expected by the manifest ([#4109])
 
 Pkg v1.11 Release Notes
 =======================

src/Operations.jl

@@ -2736,6 +2736,25 @@ function print_status(env::EnvCache, old_env::Union{Nothing,EnvCache}, registrie
                 printstyled(io, pkg_str; color=Base.warn_color())
             end
         end
+        # show if loaded version and version in the manifest doesn't match
+        pkg_spec = something(pkg.new, pkg.old)
+        pkgid = Base.PkgId(pkg.uuid, pkg_spec.name)
+        m = get(Base.loaded_modules, pkgid, nothing)
+        if m isa Module && pkg_spec.version !== nothing
+            loaded_path = pathof(m)
+            env_path = Base.locate_package(pkgid) # nothing if not installed
+            if loaded_path !== nothing && env_path !== nothing &&!samefile(loaded_path, env_path)
+                loaded_version = pkgversion(m)
+                env_version = pkg_spec.version
+                if loaded_version !== env_version
+                    printstyled(io, " [loaded: v$loaded_version]"; color=:light_yellow)
+                else
+                    loaded_version_str = loaded_version === nothing ? "" : " (v$loaded_version)"
+                    env_version_str = env_version === nothing ? "" : " (v$env_version)"
+                    printstyled(io, " [loaded: `$loaded_path`$loaded_version_str expected `$env_path`$env_version_str]"; color=:light_yellow)
+                end
+            end
+        end
 
         if extensions && !diff && pkg.extinfo !== nothing
             println(io)

test/new.jl

@@ -3243,4 +3243,19 @@ end
     end
 end
 
+@testset "status showing incompatible loaded deps" begin
+    cmd = addenv(`$(Base.julia_cmd()) --color=no --startup-file=no -e "
+        using Pkg
+        Pkg.activate(temp=true)
+        Pkg.add(Pkg.PackageSpec(name=\"Example\", version=v\"0.5.4\"))
+        using Example
+        Pkg.activate(temp=true)
+        Pkg.add(Pkg.PackageSpec(name=\"Example\", version=v\"0.5.5\"))
+        "`)
+    iob = IOBuffer()
+    run(pipeline(cmd, stderr=iob, stdout=iob))
+    out = String(take!(iob))
+    @test occursin("[loaded: v0.5.4]", out)
+end
+
 end #module