Class picard.sam.GatherBamFilesTest

all > picard.sam > GatherBamFilesTest
2

tests
0

failures
0

ignored
0.078s

duration
100%

successful

Tests

Test Duration Result
sanityCheckTheGathering 0.044s passed
testTheGathering 0.034s passed

Standard output

Match	0
Differ	0
Unmapped_both	8
Unmapped_left	0
Unmapped_right	0
Missing_left	0
Missing_right	10
SAM files differ.
Match	10
Differ	0
Unmapped_both	8
Unmapped_left	0
Unmapped_right	0
Missing_left	0
Missing_right	0
SAM files match.

Standard error

[Tue Aug 16 04:11:46 CDT 2016] picard.sam.GatherBamFiles INPUT=[/bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indUnknownChrom.bam, /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indchr1.bam, /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indchr2.bam, /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indchr3.bam, /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indchr4.bam, /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indchr5.bam, /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indchr6.bam, /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indchr7.bam, /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indchr8.bam] OUTPUT=/tmp/gatherBamFilesTest.samFile.4022632098815056577.bam    VERBOSITY=INFO QUIET=false VALIDATION_STRINGENCY=STRICT COMPRESSION_LEVEL=5 MAX_RECORDS_IN_RAM=3098916 CREATE_INDEX=false CREATE_MD5_FILE=false GA4GH_CLIENT_SECRETS=client_secrets.json
[Tue Aug 16 04:11:46 CDT 2016] Executing as jli@corona on Linux 3.19.0-61-generic amd64; Java HotSpot(TM) 64-Bit Server VM 1.8.0_91-b14; Picard version: null
INFO	2016-08-16 04:11:46	BamFileIoUtils	Block copying /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indUnknownChrom.bam ...
INFO	2016-08-16 04:11:46	BamFileIoUtils	Block copying /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indchr1.bam ...
INFO	2016-08-16 04:11:46	BamFileIoUtils	Block copying /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indchr2.bam ...
INFO	2016-08-16 04:11:46	BamFileIoUtils	Block copying /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indchr3.bam ...
INFO	2016-08-16 04:11:46	BamFileIoUtils	Block copying /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indchr4.bam ...
INFO	2016-08-16 04:11:46	BamFileIoUtils	Block copying /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indchr5.bam ...
INFO	2016-08-16 04:11:46	BamFileIoUtils	Block copying /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indchr6.bam ...
INFO	2016-08-16 04:11:46	BamFileIoUtils	Block copying /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indchr7.bam ...
INFO	2016-08-16 04:11:46	BamFileIoUtils	Block copying /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indchr8.bam ...
[Tue Aug 16 04:11:46 CDT 2016] picard.sam.GatherBamFiles done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1826619392
[Tue Aug 16 04:11:46 CDT 2016] picard.sam.GatherBamFiles INPUT=[/bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indUnknownChrom.bam, /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indchr1.bam, /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indchr2.bam, /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indchr3.bam, /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indchr4.bam, /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indchr5.bam, /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indchr6.bam, /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indchr7.bam, /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indchr8.bam] OUTPUT=/tmp/gatherBamFilesTest.samFile.3912692540687369398.bam    VERBOSITY=INFO QUIET=false VALIDATION_STRINGENCY=STRICT COMPRESSION_LEVEL=5 MAX_RECORDS_IN_RAM=3098916 CREATE_INDEX=false CREATE_MD5_FILE=false GA4GH_CLIENT_SECRETS=client_secrets.json
[Tue Aug 16 04:11:46 CDT 2016] Executing as jli@corona on Linux 3.19.0-61-generic amd64; Java HotSpot(TM) 64-Bit Server VM 1.8.0_91-b14; Picard version: null
INFO	2016-08-16 04:11:46	BamFileIoUtils	Block copying /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indUnknownChrom.bam ...
INFO	2016-08-16 04:11:46	BamFileIoUtils	Block copying /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indchr1.bam ...
INFO	2016-08-16 04:11:46	BamFileIoUtils	Block copying /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indchr2.bam ...
INFO	2016-08-16 04:11:46	BamFileIoUtils	Block copying /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indchr3.bam ...
INFO	2016-08-16 04:11:46	BamFileIoUtils	Block copying /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indchr4.bam ...
INFO	2016-08-16 04:11:46	BamFileIoUtils	Block copying /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indchr5.bam ...
INFO	2016-08-16 04:11:46	BamFileIoUtils	Block copying /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indchr6.bam ...
INFO	2016-08-16 04:11:46	BamFileIoUtils	Block copying /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indchr7.bam ...
INFO	2016-08-16 04:11:46	BamFileIoUtils	Block copying /bar/jli/Chip-seq/script/picard/testdata/picard/sam/GatherBamFiles/indchr8.bam ...
[Tue Aug 16 04:11:46 CDT 2016] picard.sam.GatherBamFiles done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1826619392