Class org.broadinstitute.hellbender.utils.read.ReadUtilsIntegrationTest

all > org.broadinstitute.hellbender.utils.read > ReadUtilsIntegrationTest
8

tests
0

failures
0

ignored
16.400s

duration
100%

successful

Tests

Test Duration Result
testCreatePathSAMWriter[0](src/test/resources/org/broadinstitute/hellbender/utils/read/ReadUtils/print_reads.sam, src/test/resources/org/broadinstitute/hellbender/utils/read/ReadUtils/print_reads.fasta, .cram, false, true, true, false) 2.717s passed
testCreatePathSAMWriter[1](src/test/resources/org/broadinstitute/hellbender/utils/read/ReadUtils/query_sorted.bam, null, .bam, false, true, true, false) 2.686s passed
testCreatePathSAMWriter[2](src/test/resources/org/broadinstitute/hellbender/utils/read/ReadUtils/coordinate_sorted.bam, null, .bam, false, true, true, true) 1.205s passed
testCreatePathSAMWriter[3](src/test/resources/org/broadinstitute/hellbender/utils/read/ReadUtils/query_sorted.bam, null, .bam, true, true, true, false) 2.443s passed
testCreatePathSAMWriter[4](src/test/resources/org/broadinstitute/hellbender/utils/read/ReadUtils/coordinate_sorted.bam, null, .bam, true, true, true, true) 1.446s passed
testCreatePathSAMWriter[5](src/test/resources/org/broadinstitute/hellbender/utils/read/ReadUtils/query_sorted.bam, null, .bam, true, true, false, false) 2.352s passed
testCreatePathSAMWriter[6](src/test/resources/org/broadinstitute/hellbender/utils/read/ReadUtils/coordinate_sorted.bam, null, .bam, true, true, false, true) 0.994s passed
testCreatePathSAMWriter[7](src/test/resources/org/broadinstitute/hellbender/utils/read/ReadUtils/coordinate_sorted.bam, null, .bam, true, false, false, false) 2.557s passed

Standard error

20:52:12.931 WARN  ReadUtils - Skipping index file creation for: staging/samWriterTest/58427fe3-574f-41a2-bf7c-d31faab50d9c.cram. Index file creation requires reads in coordinate sorted order.
20:52:15.631 WARN  ReadUtils - Skipping index file creation for: staging/samWriterTest/e0cb8c55-8ea8-4f4b-ad58-2b7fc9c526fd.bam. Index file creation requires reads in coordinate sorted order.
20:52:19.520 WARN  ReadUtils - Skipping index file creation for: staging/samWriterTest/d590bd10-c2ea-458a-abb1-cbb838594f7f.bam. Index file creation requires reads in coordinate sorted order.
20:52:23.410 WARN  ReadUtils - Skipping index file creation for: staging/samWriterTest/53ae0f9b-3815-4b35-b0e7-70ae5a4e5cd5.bam. Index file creation requires reads in coordinate sorted order.