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Cut down the number of embed_ref=2 tests that get run #1537

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merged 1 commit into from
Dec 15, 2022
Merged

Cut down the number of embed_ref=2 tests that get run #1537

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23 changes: 15 additions & 8 deletions test/test.pl
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Original file line number Diff line number Diff line change
Expand Up @@ -661,14 +661,6 @@ sub test_view
testv $opts, "./compare_sam.pl -Baux $md $sam $jsam";
}

# embed_ref=2 mode
my $ersam = "ce#1000.sam";
my $ercram = "ce#1000_er.tmp.cram";
my $ersam2 = "${ercram}.sam";
testv $opts, "./test_view $tv_args -C -p $ercram $ersam";
testv $opts, "./test_view $tv_args -p $ersam2 $ercram";
testv $opts, "./compare_sam.pl $ersam $ersam2";

if ($test_view_failures == 0)
{
passed($opts, "$sam conversions");
Expand All @@ -679,6 +671,21 @@ sub test_view
}
}

# embed_ref=2 mode
print "test_view testing embed_ref=2:\n";
$test_view_failures = 0;
my $ersam = "ce#1000.sam";
my $ercram = "ce#1000_er.tmp.cram";
my $ersam2 = "${ercram}.sam";
testv $opts, "./test_view $tv_args -C -p $ercram $ersam";
testv $opts, "./test_view $tv_args -p $ersam2 $ercram";
testv $opts, "./compare_sam.pl $ersam $ersam2";
if ($test_view_failures == 0) {
passed($opts, "embed_ref=2 tests");
} else {
failed($opts, "embed_ref=2 tests", "$test_view_failures subtests failed");
}

# BAM and CRAM range queries on prebuilt BAM and CRAM
# The cram file has @SQ UR: set to point to an invalid location to
# force the reference to be reloaded from the one given on the
Expand Down