From 16da465832281c557b4a22a06ba1f0ac9b817965 Mon Sep 17 00:00:00 2001 From: Matthieu Muffato Date: Wed, 17 Jun 2020 13:31:20 +0100 Subject: [PATCH] Added an option to expect failures when testing scripts --- modules/Bio/EnsEMBL/Hive/Utils/Test.pm | 41 +++++++++++++++++++++----- t/02.api/create_drop_database.t | 2 +- t/03.scripts/beekeeper_opts.t | 29 +++++++----------- 3 files changed, 46 insertions(+), 26 deletions(-) diff --git a/modules/Bio/EnsEMBL/Hive/Utils/Test.pm b/modules/Bio/EnsEMBL/Hive/Utils/Test.pm index fbfb772c5..8abc38020 100644 --- a/modules/Bio/EnsEMBL/Hive/Utils/Test.pm +++ b/modules/Bio/EnsEMBL/Hive/Utils/Test.pm @@ -166,6 +166,8 @@ sub standaloneJob { Arg[2] : String $url. The location of the database to be created Arg[3] : (optional) Arrayref $args. Extra parameters of the pipeline (as on the command-line) Arg[4] : (optional) Arrayref $tweaks. Tweaks to be applied to the database (as with the -tweak command-line option) + Arg[5] : (optional) Hashref $flags. Flags given to the text framework. Currently the only + key that is understood is "expect_failure" to reverse the expectation of the test. Example : init_pipeline( 'Bio::EnsEMBL::Hive::Examples::LongMult::PipeConfig::LongMultServer_conf', $server_url, @@ -183,7 +185,7 @@ sub standaloneJob { =cut sub init_pipeline { - my ($file_or_module, $url, $options, $tweaks) = @_; + my ($file_or_module, $url, $options, $tweaks, $flags) = @_; $options ||= []; @@ -203,7 +205,7 @@ sub init_pipeline { push @args, @$options; push @args, map {-tweak => $_} @$tweaks if $tweaks; - return _test_ehive_script('init_pipeline', undef, \@args); + return _test_ehive_script('init_pipeline', undef, \@args, undef, $flags); } @@ -214,6 +216,8 @@ sub init_pipeline { Arg[2] : String $url. The location of the database Arg[3] : Arrayref $args. Extra arguments given to the script Arg[4] : String $test_name (optional). The name of the test + Arg[5] : (optional) Hashref $flags. Flags given to the text framework. Currently the only + key that is understood is "expect_failure" to reverse the expectation of the test. Description : Generic method that can run any eHive script and check its return status Returntype : None Exceptions : TAP-style @@ -223,12 +227,19 @@ sub init_pipeline { =cut sub _test_ehive_script { - my ($script_name, $url, $args, $test_name) = @_; + my ($script_name, $url, $args, $test_name, $flags) = @_; $args ||= []; + $flags ||= {}; my @ext_args = ( defined($url) ? (-url => $url) : (), @$args ); - $test_name ||= 'Can run '.$script_name.(@ext_args ? ' with the following cmdline options: '.join(' ', @ext_args) : ''); - ok(!system($ENV{'EHIVE_ROOT_DIR'}.'/scripts/'.$script_name.'.pl', @ext_args), $test_name); + my $rc = system($ENV{'EHIVE_ROOT_DIR'}.'/scripts/'.$script_name.'.pl', @ext_args); + if ($flags->{expect_failure}) { + $test_name ||= $script_name.' fails'.(@ext_args ? ' with the command-line options: '.join(' ', @ext_args) : ''); + ok($rc, $test_name); + } else { + $test_name ||= 'Can run '.$script_name.(@ext_args ? ' with the command-line options: '.join(' ', @ext_args) : ''); + is($rc, 0, $test_name); + } } @@ -237,6 +248,8 @@ sub _test_ehive_script { Arg[1] : String $url. The location of the database Arg[2] : Arrayref $args. Extra arguments given to runWorker Arg[3] : String $test_name (optional). The name of the test + Arg[4] : (optional) Hashref $flags. Flags given to the text framework. Currently the only + key that is understood is "expect_failure" to reverse the expectation of the test. Example : runWorker($url, [ -can_respecialize => 1 ]); Description : Run a worker on the given pipeline in the current process. The worker options have been divided in three groups: the ones affecting its specialization, @@ -269,6 +282,8 @@ sub runWorker { Arg[1] : String $url. The location of the database Arg[2] : Arrayref $args. Extra arguments given to seed_pipeline Arg[3] : String $test_name (optional). The name of the test + Arg[4] : (optional) Hashref $flags. Flags given to the text framework. Currently the only + key that is understood is "expect_failure" to reverse the expectation of the test. Example : $seed_pipeline($url, [$arg1, $arg2], 'Run seed_pipeline with two arguments'); Description : Very generic function to run seed_pipeline on the given database with the given arguments Returntype : None @@ -289,6 +304,8 @@ sub seed_pipeline { Arg[1] : String $url. The location of the database Arg[2] : Arrayref $args. Extra arguments given to beekeeper.pl Arg[3] : String $test_name (optional). The name of the test + Arg[4] : (optional) Hashref $flags. Flags given to the text framework. Currently the only + key that is understood is "expect_failure" to reverse the expectation of the test. Example : beekeeper($url, [$arg1, $arg2], 'Run beekeeper with two arguments'); Description : Very generic function to run beekeeper on the given database with the given arguments Returntype : None @@ -326,6 +343,8 @@ sub tweak_pipeline { Arg[1] : String $url or undef. The location of the database Arg[2] : Arrayref $args. Extra arguments given to generate_graph.pl Arg[3] : String $test_name (optional). The name of the test + Arg[4] : (optional) Hashref $flags. Flags given to the text framework. Currently the only + key that is understood is "expect_failure" to reverse the expectation of the test. Example : generate_graph($url, [-output => 'lm_analyses.png'], 'Generate a PNG A-diagram'); Description : Very generic function to run generate_graph.pl on the given database with the given arguments Returntype : None @@ -345,6 +364,8 @@ sub generate_graph { Arg[1] : String $url. The location of the database Arg[2] : Arrayref $args. Extra arguments given to visualize_jobs.pl Arg[3] : String $test_name (optional). The name of the test + Arg[4] : (optional) Hashref $flags. Flags given to the text framework. Currently the only + key that is understood is "expect_failure" to reverse the expectation of the test. Example : visualize_jobs($url, [-output => 'lm_jobs.png', -accu_values], 'Generate a PNG J-diagram with accu values'); Description : Very generic function to run visualize_jobs.pl on the given database with the given arguments Returntype : None @@ -382,6 +403,8 @@ sub peekJob { Arg[1] : String $url. The location of the database Arg[2] : Arrayref $args. Extra arguments given to db_cmd.pl Arg[3] : String $test_name (optional). The name of the test + Arg[4] : (optional) Hashref $flags. Flags given to the text framework. Currently the only + key that is understood is "expect_failure" to reverse the expectation of the test. Example : db_cmd($url, [-sql => 'DROP DATABASE'], 'Drop the database'); Description : Very generic function to run db_cmd.pl on the given database with the given arguments Returntype : None @@ -401,6 +424,8 @@ sub db_cmd { Arg[1] : String $url. The location of the database Arg[2] : String $sql. The SQL to run on the database Arg[3] : String $test_name (optional). The name of the test + Arg[4] : (optional) Hashref $flags. Flags given to the text framework. Currently the only + key that is understood is "expect_failure" to reverse the expectation of the test. Example : run_sql_on_db($url, 'INSERT INTO sweets (name, quantity) VALUES (3, 'Snickers')'); Description : Execute an SQL command on the given database and test its execution. This expects the command-line client to return a non-zero code in case of a failure. @@ -412,8 +437,10 @@ sub db_cmd { =cut sub run_sql_on_db { - my ($url, $sql, $test_name) = @_; - return _test_ehive_script('db_cmd', $url, [-sql => $sql], $test_name // 'Can run '.$sql); + my ($url, $sql, $test_name, $flags) = @_; + $flags ||= {}; + $test_name //= $flags->{expect_failure} ? $sql.' fails' : 'Can run '.$sql; + return _test_ehive_script('db_cmd', $url, [-sql => $sql], $test_name, $flags); } diff --git a/t/02.api/create_drop_database.t b/t/02.api/create_drop_database.t index ed463bee9..afda1d0c9 100755 --- a/t/02.api/create_drop_database.t +++ b/t/02.api/create_drop_database.t @@ -44,7 +44,7 @@ foreach my $test_url (@$ehive_test_pipeline_urls) { if ($dbc->driver eq 'sqlite') { run_sql_on_db($test_url, 'DROP DATABASE', "'rm -f' doesn't care about missing files"); } else { - is(system(@{ $dbc->to_cmd(undef, undef, undef, 'DROP DATABASE') }), 256, "Cannot drop a database that doesn't exist"); + run_sql_on_db($test_url, 'DROP DATABASE', "Can drop a database that exists", {'expect_failure' => 1}); } run_sql_on_db($test_url, 'CREATE DATABASE', 'Can create a database'); run_sql_on_db($test_url, 'CREATE DATABASE IF NOT EXISTS', 'Further CREATE DATABASE statements are ignored') unless $dbc->driver eq 'pgsql'; diff --git a/t/03.scripts/beekeeper_opts.t b/t/03.scripts/beekeeper_opts.t index 52e647146..c4e3b47c5 100755 --- a/t/03.scripts/beekeeper_opts.t +++ b/t/03.scripts/beekeeper_opts.t @@ -62,14 +62,11 @@ my $pipeline_url = get_test_url_or_die(); is($found_beekeeper_dash_run, 1, 'A beekeeper with option -run was registered in the beekeeper table'); # Check that -run -job_id with a non-existant job id fails with TASK_FAILED - # Not using beekeeper() because we expect the command to *fail* - my @bad_job_cmd = ($ENV{'EHIVE_ROOT_DIR'}.'/scripts/beekeeper.pl', -url => $hive_dba->dbc->url, '-run', -job_id => 98765); - my $rc; - my $bk_stderr = capture_stderr { - $rc = system(@bad_job_cmd); - }; - ok($rc, 'beekeeper -run -job_id 98765 exited with a non-zero return code'); - like($bk_stderr, qr/Could not fetch Job with dbID=98765/, 'beekeeper complained that the job cannot be found'); + beekeeper($hive_dba->dbc->url, + ['-run', -job_id => 98765], + 'beekeeper complained that the job cannot be found', + {'expect_failure' => 1}, + ); $beekeeper_rows = $beekeeper_nta->fetch_all(); is(scalar(@$beekeeper_rows), 3, 'After -sync, -run, and -run -job_id, there are exactly three entries in the beekeeper table'); @@ -83,16 +80,12 @@ my $pipeline_url = get_test_url_or_die(); is($found_beekeeper_bad_job, 1, 'A beekeeper with option -job_id was registered in the beekeeper table'); # Check that -loop -analyses_pattern with a non-matching pattern fails with TASK_FAILED - # Not using beekeeper() because we expect the command to *fail* - my @bad_pattern_cmd = ($ENV{'EHIVE_ROOT_DIR'}.'/scripts/beekeeper.pl', - -url => $hive_dba->dbc->url, - -analyses_pattern => 'this_matches_no_analysis', - '-loop'); - $bk_stderr = capture_stderr { - $rc = system(@bad_pattern_cmd); - }; - ok($rc, 'beekeeper -loop -analyses_pattern this_matches_no_analysis exited with a non-zero return code'); - like($bk_stderr, qr/the -analyses_pattern 'this_matches_no_analysis' did not match any Analyses/, 'beekeeper complained that no analysis could be matched'); + beekeeper( + $hive_dba->dbc->url, + ['-loop', -analyses_pattern => 'this_matches_no_analysis'], + 'beekeeper complained that no analysis could be matched', + {'expect_failure' => 1}, + ); $beekeeper_rows = $beekeeper_nta->fetch_all(); is(scalar(@$beekeeper_rows), 4, 'After 4 beekeeper commands, there are exactly 4 entries in the beekeeper table');