gentoo-overlay/dev-perl/Bio-DB-HTS/files/2.11-build_split_htslib_opts.patch

diff --git a/Build.PL b/Build.PL
index 0d684b7..87a223b 100644
--- a/Build.PL
+++ b/Build.PL
@@ -68,7 +68,15 @@ sub find_hts {
     # If either of these are set, we expect to find the htslib files there:
     # (They're explicitly set by the user, so we shouldn't fall back to
     # finding another copy somewhere else.)
-    if (my $dir = $self->args('htslib')) {
+    my $incdir = $self->args('htslib-includedir');
+    my $libdir = $self->args('htslib-libdir');
+    if ($incdir && $libdir) {
+        return 1 if $self->find_hts_in_split_install_dirs($incdir, $libdir);
+        $self->die_hts_not_found(
+            "--htslib-includedir '$incdir' or --htslib-libdir '$libdir' command line parameters do not contain expected files\n"
+        );
+    }
+    elsif (my $dir = $self->args('htslib')) {
         return 1 if $self->find_hts_in_build_dir($dir);
         return 1 if $self->find_hts_in_install_dir($dir);
         $self->die_hts_not_found(
@@ -158,6 +166,23 @@ sub find_hts_in_install_dir {
     }
 }
 
+sub find_hts_in_split_install_dirs {
+    my ($self, $hts_include, $hts_lib) = @_;
+
+    chomp($hts_lib);
+    chomp($hts_include);
+    $hts_include =~ s{include/htslib$}{include};
+
+    if (hts_dev_files_exist($hts_lib, $hts_include)) {
+        $self->config_data('hts_lib'     => $hts_lib);
+        $self->config_data('hts_include' => $hts_include);
+        return 1;
+    }
+    else {
+        return 0;
+    }
+}
+
 sub die_hts_not_found {
     my ($self, $msg) = @_;
 
@@ -170,12 +195,13 @@ Install it if you have not done so already.
 This script will attempt to locate HTSlib by looking for htslib/hts.h
 and libhts.a / libhts.so in:
 
-  1. --htslib command line argument
-  2. HTSLIB_DIR environment variable
-  3. --prefix command line argument (which also sets installation location)
-  4. Alien::HTSlib dependency resolver
-  5. pkg-config (extra directories can be set in PKG_CONFIG_PATH environment variable)
-  6. common library locations: /usr /usr/local, /usr/share, /opt/local
+  1. --htslib-includedir and --htslib-libdir command line arguments
+  2. --htslib command line argument
+  3. HTSLIB_DIR environment variable
+  4. --prefix command line argument (which also sets installation location)
+  5. Alien::HTSlib dependency resolver
+  6. pkg-config (extra directories can be set in PKG_CONFIG_PATH environment variable)
+  7. common library locations: /usr /usr/local, /usr/share, /opt/local
 
 END