Fix precompiling when there's no manifest (#59212)

(cherry picked from commit e4a3a2a)

Author: IanButterworth

base/loading.jl

@@ -2626,7 +2626,7 @@ function __require_prelocked(pkg::PkgId, env)
                 parallel_precompile_attempted = true
                 unlock(require_lock)
                 try
-                    Precompilation.precompilepkgs([pkg.name]; _from_loading=true, ignore_loaded=false)
+                    Precompilation.precompilepkgs([pkg]; _from_loading=true, ignore_loaded=false)
                 finally
                     lock(require_lock)
                 end

base/precompilation.jl

@@ -41,7 +41,7 @@ function ExplicitEnv(::Nothing, envpath::String="")
 end
 function ExplicitEnv(envpath::String)
     # Handle missing project file by creating an empty environment
-    if !isfile(envpath)
+    if !isfile(envpath) || project_file_manifest_path(envpath) === nothing
         envpath = abspath(envpath)
         return ExplicitEnv(nothing, envpath)
     end
@@ -471,7 +471,7 @@ function collect_all_deps(direct_deps, dep, alldeps=Set{Base.PkgId}())
 end
 
 
-function precompilepkgs(pkgs::Vector{String}=String[];
+function precompilepkgs(pkgs::Union{Vector{String}, Vector{PkgId}}=String[];
                         internal_call::Bool=false,
                         strict::Bool = false,
                         warn_loaded::Bool = true,
@@ -490,7 +490,7 @@ function precompilepkgs(pkgs::Vector{String}=String[];
                    IOContext{IO}(io), fancyprint, manifest, ignore_loaded)
 end
 
-function _precompilepkgs(pkgs::Vector{String},
+function _precompilepkgs(pkgs::Union{Vector{String}, Vector{PkgId}},
                          internal_call::Bool,
                          strict::Bool,
                          warn_loaded::Bool,
@@ -502,6 +502,23 @@ function _precompilepkgs(pkgs::Vector{String},
                          manifest::Bool,
                          ignore_loaded::Bool)
     requested_pkgs = copy(pkgs) # for understanding user intent
+    pkg_names = pkgs isa Vector{String} ? copy(pkgs) : String[pkg.name for pkg in pkgs]
+    if pkgs isa Vector{PkgId}
+        requested_pkgids = copy(pkgs)
+    else
+        requested_pkgids = PkgId[]
+        for name in pkgs
+            pkgid = Base.identify_package(name)
+            if pkgid === nothing
+                if _from_loading
+                    return # leave it up to loading to handle this
+                else
+                    throw(PkgPrecompileError("Unknown package: $name"))
+                end
+            end
+            push!(requested_pkgids, pkgid)
+        end
+    end
 
     time_start = time_ns()
 
@@ -655,8 +672,7 @@ function _precompilepkgs(pkgs::Vector{String},
         # if called from loading precompilation it may be a package from another environment stack
         # where we don't have access to the dep graph, so just add as a single package and do serial
         # precompilation of its deps within the job.
-        for pkg in requested_pkgs # In case loading asks for multiple packages
-            pkgid = Base.identify_package(pkg)
+        for pkgid in requested_pkgids # In case loading asks for multiple packages
             pkgid === nothing && continue
             if !haskey(direct_deps, pkgid)
                 @debug "precompile: package `$(pkgid)` is outside of the environment, so adding as single package serial job"
@@ -704,6 +720,7 @@ function _precompilepkgs(pkgs::Vector{String},
     circular_deps = Base.PkgId[]
     for pkg in keys(direct_deps)
         @assert isempty(stack)
+        pkg in serial_deps && continue # skip serial deps as we don't have their dependency graph
         if scan_pkg!(stack, could_be_cycle, cycles, pkg, direct_deps)
             push!(circular_deps, pkg)
             for pkg_config in keys(was_processed)
@@ -717,18 +734,31 @@ function _precompilepkgs(pkgs::Vector{String},
     end
     @debug "precompile: circular dep check done"
 
+    # If you have a workspace and want to precompile all projects in it, look through all packages in the manifest
+    # instead of collecting from a project i.e. not filter out packages that are in the current project.
+    # i.e. Pkg sets manifest to true for workspace precompile requests
+    # TODO: rename `manifest`?
     if !manifest
-        if isempty(pkgs)
-            pkgs = [pkg.name for pkg in project_deps]
+        if isempty(pkg_names)
+            pkg_names = [pkg.name for pkg in project_deps]
         end
         keep = Set{Base.PkgId}()
         for dep in direct_deps
             dep_pkgid = first(dep)
-            if dep_pkgid.name in pkgs
+            if dep_pkgid.name in pkg_names
                 push!(keep, dep_pkgid)
                 collect_all_deps(direct_deps, dep_pkgid, keep)
             end
         end
+        # Also keep packages that were explicitly requested as PkgIds (for extensions)
+        if pkgs isa Vector{PkgId}
+            for requested_pkgid in requested_pkgids
+                if haskey(direct_deps, requested_pkgid)
+                    push!(keep, requested_pkgid)
+                    collect_all_deps(direct_deps, requested_pkgid, keep)
+                end
+            end
+        end
         for ext in keys(ext_to_parent)
             if issubset(collect_all_deps(direct_deps, ext), keep) # if all extension deps are kept
                 push!(keep, ext)
@@ -936,7 +966,8 @@ function _precompilepkgs(pkgs::Vector{String},
     for (pkg, deps) in direct_deps
         cachepaths = get!(() -> Base.find_all_in_cache_path(pkg), cachepath_cache, pkg)
         sourcepath = Base.locate_package(pkg)
-        single_requested_pkg = length(requested_pkgs) == 1 && only(requested_pkgs) == pkg.name
+        single_requested_pkg = length(requested_pkgs) == 1 &&
+            (pkg in requested_pkgids || pkg.name in pkg_names)
         for config in configs
             pkg_config = (pkg, config)
             if sourcepath === nothing
@@ -1063,7 +1094,7 @@ function _precompilepkgs(pkgs::Vector{String},
         str = sprint(context=io) do iostr
             if !quick_exit
                 if fancyprint # replace the progress bar
-                    what = isempty(requested_pkgs) ? "packages finished." : "$(join(requested_pkgs, ", ", " and ")) finished."
+                    what = isempty(requested_pkgids) ? "packages finished." : "$(join((p.name for p in requested_pkgids), ", ", " and ")) finished."
                     printpkgstyle(iostr, :Precompiling, what)
                 end
                 plural = length(configs) > 1 ? "dependency configurations" : ndeps == 1 ? "dependency" : "dependencies"

test/precompile.jl

@@ -2492,6 +2492,46 @@ precompile_test_harness("Package top-level load itself") do load_path
     end
 end
 
+precompile_test_harness("Package precompilation works without manifest") do load_path
+    pkg_dir = joinpath(load_path, "TestPkgNoManifest")
+    mkpath(pkg_dir)
+
+    # Create Project.toml with stdlib dependencies
+    write(joinpath(pkg_dir, "Project.toml"), """
+        name = "TestPkgNoManifest"
+        uuid = "f47a8e44-5f82-4c5c-9076-4b4e8b7e8e8e"
+        version = "0.1.0"
+
+        [deps]
+        Test = "8dfed614-e22c-5e08-85e1-65c5234f0b40"
+        Random = "9a3f8284-a2c9-5f02-9a11-845980a1fd5c"
+        """)
+
+    # Create src directory and main module file
+    src_dir = joinpath(pkg_dir, "src")
+    mkpath(src_dir)
+    write(joinpath(src_dir, "TestPkgNoManifest.jl"), """
+        module TestPkgNoManifest
+        end
+        """)
+
+    old_active_project = Base.active_project()
+    try
+        # Activate the new package environment
+        Base.set_active_project(joinpath(pkg_dir, "Project.toml"))
+
+        # Ensure there's no manifest file (this is the key to the test)
+        manifest_path = joinpath(pkg_dir, "Manifest.toml")
+        isfile(manifest_path) && rm(manifest_path)
+
+        # This should work without errors - precompiling a package with no manifest
+        @eval using TestPkgNoManifest
+    finally
+        # Restore original load path and active project
+        Base.set_active_project(old_active_project)
+    end
+end
+
 # Verify that inference / caching was not performed for any macros in the sysimage
 let m = only(methods(Base.var"@big_str"))
     @test m.specializations === Core.svec() || !isdefined(m.specializations, :cache)