Bump dependency versions in MODULE.bazel

Also: don't use proto rules anymore but the rules provided by the
protobuffer repo.

MODULE.bazel

@@ -2,11 +2,15 @@ module(
     name = "verible",
 )
 
-bazel_dep(name = "platforms", version = "0.0.8")
-bazel_dep(name = "bazel_skylib", version = "1.5.0")
-bazel_dep(name = "rules_license", version = "0.0.8")
-bazel_dep(name = "rules_proto", version = "6.0.0-rc2")
+bazel_dep(name = "platforms", version = "0.0.10")
+bazel_dep(name = "bazel_skylib", version = "1.7.1")
+bazel_dep(name = "rules_license", version = "1.0.0")
+
+# Last version working with bazel 6. The following
+# rules are needed for proto bazel rules as the ones in @protobuf
+# not yet available at 26.0 (and they don't work on Windows)
 bazel_dep(name = "rules_cc", version = "0.0.9")
+bazel_dep(name = "rules_proto", version = "6.0.0-rc2")
 
 # Register m4 rules and toolchain.
 bazel_dep(name = "rules_m4", version = "0.2.3")
@@ -69,6 +73,8 @@ single_version_override(
 
 bazel_dep(name = "googletest", version = "1.14.0.bcr.1", repo_name = "com_google_googletest")
 bazel_dep(name = "nlohmann_json", version = "3.11.3.bcr.1", repo_name = "jsonhpp")
+
+# Last that works with windows. Unfortunately can't used @protobuf//bazel rules
 bazel_dep(name = "protobuf", version = "26.0", repo_name = "com_google_protobuf")
-bazel_dep(name = "re2", version = "2023-09-01", repo_name = "com_googlesource_code_re2")
-bazel_dep(name = "zlib", version = "1.3.1")
+bazel_dep(name = "re2", version = "2024-07-02.bcr.1", repo_name = "com_googlesource_code_re2")
+bazel_dep(name = "zlib", version = "1.3.1.bcr.3")

third_party/proto/kythe/BUILD

@@ -1,3 +1,5 @@
+# Unfortunately, can't use @com_google_protobuf//bazel:cc_proto_library.bzl
+# here, as this does not seem to work with windows.
 load("@rules_cc//cc:defs.bzl", "cc_proto_library")
 load("@rules_proto//proto:defs.bzl", "proto_library")