Merge branch 'version/1.9' into version/2.0

* version/1.9:
  Go back to the original directory
  bugfix: chdir does not return the current path
  Added a warning about using too-recent versions of the core API

t/01.utils/redirect_stack.t

@@ -21,6 +21,7 @@ use warnings;
 
 use Test::More tests => 8;
 
+use Cwd 'getcwd';
 use Capture::Tiny ':all';
 use File::Temp qw{tempdir};
 
@@ -30,7 +31,8 @@ BEGIN {
 #########################
 
 my $dir = tempdir CLEANUP => 1;
-my $original = chdir $dir;
+my $original = getcwd;
+chdir $dir;
 
 my $rs_stdout = Bio::EnsEMBL::Hive::Utils::RedirectStack->new(\*STDOUT);
 my $stdout = capture_stdout {

t/02.api/fetch_and_count_by_multiple_columns.t

@@ -33,6 +33,7 @@ use File::Basename ();
 $ENV{'EHIVE_ROOT_DIR'} ||= File::Basename::dirname( File::Basename::dirname( File::Basename::dirname( Cwd::realpath($0) ) ) );
 
 my $dir = tempdir CLEANUP => 1;
+my $original = Cwd::getcwd;
 chdir $dir;
 
 my $pipeline_url      = 'sqlite:///ehive_test_pipeline_db';
@@ -87,3 +88,5 @@ is($ada_a->count_all(), 1, "still 1 entry in the analysis_data table");
 
 done_testing();
 
+chdir $original;
+

t/02.api/naked_table_adaptor.t

@@ -31,7 +31,8 @@ $ENV{'EHIVE_ROOT_DIR'} ||= File::Basename::dirname( File::Basename::dirname( Fil
 use Bio::EnsEMBL::Hive::DBSQL::DBAdaptor;
 
 my $dir = tempdir CLEANUP => 1;
-my $orig = chdir $dir;
+my $orig = Cwd::getcwd;
+chdir $dir;
 
 my $sqlite_url = "sqlite:///test_db";
 # -no_sql_schema_version_check is needed because the database does not have the eHive schema

t/10.pipeconfig/longmult.t

@@ -32,7 +32,8 @@ use Bio::EnsEMBL::Hive::Utils::Test qw(init_pipeline runWorker);
 $ENV{'EHIVE_ROOT_DIR'} ||= File::Basename::dirname( File::Basename::dirname( File::Basename::dirname( Cwd::realpath($0) ) ) );
 
 my $dir = tempdir CLEANUP => 1;
-my $original = chdir $dir;
+my $original = Cwd::getcwd;
+chdir $dir;
 
 my $ehive_test_pipeline_urls = $ENV{'EHIVE_TEST_PIPELINE_URLS'} || 'sqlite:///ehive_test_pipeline_db';
 # LongMultWf_conf has to be excluded because runWorker is not able to resync the pipeline in can_respecialize mode, leading to the first worker not completing the pipeline