Merge pull request #2348 from solgenomics/topic/solgwas_speedup
[sgn.git] / t / test_fixture.pl
blob2f994e09b03c4646abba1531b0e7e5780f702082
1 #!/usr/bin/env perl
3 use strict;
4 use warnings;
6 use DateTime;
7 use LWP::Simple;
8 use App::Prove;
9 use Data::Dumper;
11 use Pod::Usage;
12 use Getopt::Long;
13 use File::Slurp;
14 use Config::Any;
16 use File::Basename qw(dirname);
17 use Cwd qw(abs_path);
19 use Catalyst::ScriptRunner;
21 use lib 'lib';
22 use SGN::Devel::MyDevLibs;
24 my $verbose = 0;
25 my $nocleanup;
26 my $noserver;
27 my $dumpupdatedfixture;
28 my $noparallel = 0;
29 # relative to `sgn/ (or parent of wherever this script is located)
30 my $fixture_path = 't/data/fixture/cxgn_fixture.sql';
32 GetOptions(
33 "carpalways" => \( my $carpalways = 0 ),
34 "verbose" => \$verbose ,
35 "nocleanup" => \$nocleanup,
36 "dumpupdatedfixture" => \$dumpupdatedfixture,
37 "noserver" => \$noserver,
38 "noparallel" => \$noparallel,
39 "fixture_path" => \$fixture_path,
42 require Carp::Always if $carpalways;
44 my @prove_args = @ARGV;
45 if(@prove_args){
46 @prove_args = map {abs_path($_)} @prove_args;
49 #Change cwd to `sgn/` (or parent of wherever this script is located)
50 my $sgn_dir = abs_path(dirname(abs_path($0))."/../");
51 print STDERR "####### ".$sgn_dir." #######";
52 chdir($sgn_dir);
53 @prove_args = ( 't' ) unless @prove_args;
55 #my $parallel = (grep /^-j\d*$/, @ARGV) ? 1 : 0;
57 $ENV{SGN_CONFIG_LOCAL_SUFFIX} = 'fixture';
58 #my $conf_file_base = 'sgn_local.conf'; # which conf file the sgn_fixture.conf should be based on
59 # relative to `sgn/`
60 my $conf_file_base = 'sgn_local.conf';
61 my $template_file = 'sgn_fixture_template.conf';
62 # get some defaults from sgn_local.conf
64 my $cfg = Config::Any->load_files({files=> [$conf_file_base, $template_file], use_ext=>1 });
66 my $config = $cfg->[0]->{$conf_file_base};
67 my $template = $cfg->[1]->{$template_file};
69 print STDERR Dumper($cfg);
70 my $db_user_password = $config->{dbpass};
71 my $dbhost = $config->{dbhost} || 'localhost';
72 my $dbport = $config->{dbport} || '5432';
73 my $db_postgres_password = $config->{DatabaseConnection}->{sgn_test}->{password};
74 print STDERR "Using $dbhost:$dbport\n";
75 my $test_dsn = $config->{DatabaseConnection}->{sgn_test}->{dsn};
76 my $catalyst_server_port = 3010;
78 # replace the keys in the sgn local file with what's in the template
80 foreach my $k (keys %{$template}) {
81 #print STDERR "Replacing key $k : $config->{$k} with $template->{$k}\n";
82 $config->{$k} = $template->{$k};
85 # load the database fixture
87 my $now = DateTime->now();
88 my $dbname = join "_", map { $now->$_ } (qw | year month day hour minute |);
89 $dbname = 'test_db_'.$dbname;
90 $dbname .= $$;
92 print STDERR "# Writing a .pgpass file... ";
93 # format = hostname:port:database:username:password
94 open(my $PGPASS, ">", "$ENV{HOME}/.pgpass") || die "Can't open .pgpass for writing.";
95 print $PGPASS "$dbhost:$dbport:$dbname:web_usr:$db_user_password\n";
96 print $PGPASS "$dbhost:$dbport:*:postgres:$db_postgres_password\n";
97 close($PGPASS);
98 system("chmod 0600 $ENV{HOME}/.pgpass");
99 print STDERR "Done.\n";
101 my $database_fixture_dump = $ENV{DATABASE_FIXTURE_PATH} || $fixture_path;
102 print STDERR "# Loading database fixture... $database_fixture_dump ... ";
103 system("createdb -h $config->{dbhost} -U postgres -T template0 -E SQL_ASCII --no-password $dbname");
104 system("cat $database_fixture_dump | psql -h $config->{dbhost} -U postgres $dbname > /dev/null");
106 print STDERR "Done.\n";
108 print STDERR "# Creating sgn_fixture.conf file... ";
109 $config->{dbname} = $dbname;
110 $test_dsn =~ s/dbname=(.*)$/dbname=$dbname/;
111 $config->{DatabaseConnection}->{sgn_test}->{dsn} = $test_dsn;
113 #print STDERR Dumper($config);
115 my $new_conf = hash2config($config);
117 open(my $NEWCONF, ">", "sgn_fixture.conf") || die "Can't open sgn_fixture.conf for writing";
118 print $NEWCONF $new_conf;
119 close($NEWCONF);
121 #run fixture and db patches.
122 system("t/data/fixture/patches/run_fixture_and_db_patches.pl -u postgres -p $db_postgres_password -h $config->{dbhost} -d $dbname -e janedoe");
124 # run the materialized views creation script
126 print STDERR "Running matview refresh with -H $dbhost -D $dbname -U postgres -P $db_postgres_password -m fullview\n";
127 system("perl bin/refresh_matviews.pl -H $dbhost -D $dbname -U postgres -P $db_postgres_password -m fullview");
129 if ($dumpupdatedfixture){
130 print STDERR "Dumping new updated fixture with all patches run on it to t/data/fixture/cxgn_fixture.sql\n";
131 system("pg_dump -U postgres $dbname > t/data/fixture/cxgn_fixture.sql");
134 print STDERR "Done.\n";
136 # start the test web server
138 my $server_pid;
139 my $logfile;
140 if ($noserver) {
141 print STDERR "# [ --noserver option: not starting web server]\n";
143 else {
144 $server_pid = fork;
145 $logfile = "logfile.$$.txt";
147 unless( $server_pid ) {
149 # web server process
151 #$ENV{SGN_TEST_MODE} = 1;
152 @ARGV = (
153 -p => $catalyst_server_port,
154 ( $noparallel ? () : ('--fork') ),
157 if (!$verbose) {
158 print STDERR "# [Server logfile at $logfile]\n";
159 open (STDERR, ">$logfile") || die "can't open logfile.";
161 Catalyst::ScriptRunner->run('SGN', 'Server');
163 exit;
165 print STDERR "# Starting web server (PID=$server_pid)... ";
169 # wait for the test server to start
172 local $SIG{CHLD} = sub {
173 waitpid $server_pid, 0;
174 die "\nTest server failed to start. Aborting.\n";
176 print STDERR "Done.\n";
178 if (!$noserver) {
179 sleep 1 until !kill(0, $server_pid) || get "http://localhost:$catalyst_server_port";
183 my $prove_pid = fork;
184 unless( $prove_pid ) {
186 # test harness process
188 print STDERR "# Starting tests... \n";
190 # set up env vars for prove and the tests
192 $ENV{SGN_TEST_SERVER} = "http://localhost:$catalyst_server_port";
193 if(! $noparallel ) {
194 $ENV{SGN_PARALLEL_TESTING} = 1;
195 $ENV{SGN_SKIP_LEAK_TEST} = 1;
198 # now run the tests against it
200 my $app = App::Prove->new;
201 $app->process_args(
202 '-lr',
203 ( map { -I => $_ } @INC ),
204 @prove_args
206 exit( $app->run ? 0 : 1 );
209 #$SIG{CHLD} = 'IGNORE'; # problematic
210 $SIG{INT} = sub { kill 15, $server_pid, $prove_pid };
211 $SIG{KILL} = sub { kill 9, $server_pid, $prove_pid };
213 print STDERR "# Start prove (PID $prove_pid)... \n";
214 waitpid $prove_pid, 0;
215 print STDERR "# Prove finished, stopping web server PID $server_pid... ";
217 END { kill 15, $server_pid if $server_pid }
218 waitpid $server_pid, 0;
219 sleep(3);
220 print STDERR "Done.\n";
222 if (!$nocleanup) {
223 print STDERR "# Removing test database ($dbname)... ";
224 system("dropdb -h $config->{dbhost} -U postgres --no-password $dbname");
225 print STDERR "Done.\n";
227 if ($noserver) {
228 print STDERR "# [ --noserver option: No logfile to remove]\n";
230 else {
231 print STDERR "# Delete server logfile... ";
232 close($logfile);
233 unlink $logfile;
234 print STDERR "Done.\n";
236 print STDERR "# Delete fixture conf file... ";
237 unlink "sgn_fixture.conf";
238 print STDERR "Done.\n";
241 else {
242 print STDERR "# --nocleanup option: not removing db or files.\n";
244 print STDERR "# Test run complete.\n\n";
248 sub hash2config {
249 my $hash = shift;
251 my $s = "";
252 foreach my $k (keys(%$hash)) {
253 if (ref($hash->{$k}) eq "ARRAY") {
254 foreach my $v (@{$hash->{$k}}) {
255 $s .= "$k $v\n";
258 elsif (ref($hash->{$k}) eq "HASH") {
259 foreach my $n (keys(%{$hash->{$k}})) {
260 if (ref($hash->{$k}->{$n}) eq "HASH") {
261 $s .= "<$k $n>\n";
262 $s .= hash2config($hash->{$k}->{$n});
264 else {
265 $s .= "<$k>\n";
266 $s .= hash2config($hash->{$k});
268 $s .= "</$k>\n";
271 else {
272 $s .= "$k $hash->{$k}\n";
276 # if nothing matched the replace keys, add them here
279 # if (exists($hash->{dbname})) {
280 # $s .= "dbname $dbname\n";
283 return $s;
288 __END__
290 =head1 NAME
292 test_fixture.pl - start a dev server and run tests against it
294 =head1 SYNOPSIS
296 t/test_fixture.pl --carpalways -- -v -j5 t/mytest.t t/mydiroftests/
298 =head1 OPTIONS
300 -v verbose - the output of the server is not re-directed to file,
301 but rather output to the screen.
303 --carpalways Load Carp::Always in both the server and the test process
304 to force backtraces of all warnings and errors
306 --nocleanup Do not clean up database and logfile
308 --noserver Do not start webserver (if running unit_fixture tests only)
310 --noparallel Do not run the server in parallel mode.
312 --fixture_path specify a path to the fixture different from the default
313 (t/data/fixture/cxgn_fixture.pl). Note: You can also set the env
314 variable DATABASE_FIXTURE_PATH, which will overrule this
315 option.
317 -- -v options specified after two dashes will be passed to prove
318 directly, such -v will run prove in verbose mode.
320 =head1 AUTHORS
322 Robert Buels (initial script)
323 Lukas Mueller <lam87@cornell.edu> (fixture implementation)
325 =cut