Class org.broadinstitute.hellbender.tools.funcotator.FuncotatorDataSourceDownloaderIntegrationTest

all > org.broadinstitute.hellbender.tools.funcotator > FuncotatorDataSourceDownloaderIntegrationTest
tests
failures
ignored
0.357s
duration
100%
successful
Tests
Standard error
Tests

Test	Duration	Result
testDownloadDummySmallDataSources[0](true, true, false)	0.090s	passed
testDownloadDummySmallDataSources[1](true, false, false)	0.063s	passed
testDownloadDummySmallDataSources[2](true, true, true)	0.106s	passed
testDownloadDummySmallDataSources[3](true, false, true)	0.098s	passed
Standard error

17:44:10.230 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:44:10.237 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression10846759590646779820.so: /tmp/libgkl_compression10846759590646779820.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:44:10.237 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:44:10.240 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression14577308939641069940.so: /tmp/libgkl_compression14577308939641069940.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:44:10.242 INFO  FuncotatorDataSourceDownloader - ------------------------------------------------------------
17:44:10.242 INFO  FuncotatorDataSourceDownloader - org.broadinstitute.hellbender.tools.funcotator vUnavailable
17:44:10.242 INFO  FuncotatorDataSourceDownloader - For support and documentation go to https://software.broadinstitute.org/gatk/
17:44:10.242 INFO  FuncotatorDataSourceDownloader - Executing as runner@runnervmrcw8b on Linux v6.11.0-1018-azure aarch64
17:44:10.242 INFO  FuncotatorDataSourceDownloader - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
17:44:10.242 INFO  FuncotatorDataSourceDownloader - Start Date/Time: October 27, 2025 at 5:44:10 PM UTC
17:44:10.242 INFO  FuncotatorDataSourceDownloader - ------------------------------------------------------------
17:44:10.242 INFO  FuncotatorDataSourceDownloader - ------------------------------------------------------------
17:44:10.243 INFO  FuncotatorDataSourceDownloader - HTSJDK Defaults.COMPRESSION_LEVEL : 2
17:44:10.243 INFO  FuncotatorDataSourceDownloader - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
17:44:10.243 INFO  FuncotatorDataSourceDownloader - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
17:44:10.243 INFO  FuncotatorDataSourceDownloader - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
17:44:10.243 INFO  FuncotatorDataSourceDownloader - Deflater: JdkDeflater
17:44:10.243 INFO  FuncotatorDataSourceDownloader - Inflater: JdkInflater
17:44:10.243 INFO  FuncotatorDataSourceDownloader - GCS max retries/reopens: 20
17:44:10.243 INFO  FuncotatorDataSourceDownloader - Requester pays: disabled
17:44:10.243 INFO  FuncotatorDataSourceDownloader - Initializing engine
17:44:10.243 INFO  FuncotatorDataSourceDownloader - Overwrite ENABLED.  Will overwrite existing data sources download.
17:44:10.243 INFO  FuncotatorDataSourceDownloader - Done initializing engine
17:44:10.243 INFO  FuncotatorDataSourceDownloader - TESTING data sources selected.
17:44:10.244 INFO  FuncotatorDataSourceDownloader - Collecting expected checksum...
17:44:10.245 INFO  FuncotatorDataSourceDownloader - Collection complete!
17:44:10.245 INFO  NioFileCopierWithProgressMeter - Initiating copy from file:///home/runner/work/gatk/gatk/src/test/resources/large/funcotator/dummyDataSources.tar.gz to file:///tmp/FuncotatorDataSourceDownloaderIntegrationTest_testDownloadDummySmallDataSources16648569076157092088/dummyDataSources.tar.gz
17:44:10.247 INFO  NioFileCopierWithProgressMeter - File size: 1180641 bytes (1 MB).
17:44:10.247 INFO  NioFileCopierWithProgressMeter - Please wait.  This could take a while...
17:44:10.251 INFO  NioFileCopierWithProgressMeter -     Transfer:  80.00% complete.  Est. time remaining: 00.000 (@341333.33 kbps)
17:44:10.251 INFO  NioFileCopierWithProgressMeter -     Transfer:  100.00% complete.  Est. time remaining: 00.000 (@202909.10 kbps)
17:44:10.256 INFO  NioFileCopierWithProgressMeter - Download Complete! - Total elapsed time: 0s
17:44:10.257 INFO  FuncotatorDataSourceDownloader - Integrity check on downloaded data sources succeeded.
17:44:10.257 INFO  FuncotatorDataSourceDownloader - IMPORTANT: You must unzip the downloaded data sources prior to using them with Funcotator.
17:44:10.257 INFO  FuncotatorDataSourceDownloader - Shutting down engine
[October 27, 2025 at 5:44:10 PM UTC] org.broadinstitute.hellbender.tools.funcotator.FuncotatorDataSourceDownloader done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1155530752
17:44:10.310 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:44:10.313 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression16560668566910239388.so: /tmp/libgkl_compression16560668566910239388.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:44:10.313 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:44:10.316 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression7568752768547859176.so: /tmp/libgkl_compression7568752768547859176.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:44:10.317 INFO  FuncotatorDataSourceDownloader - ------------------------------------------------------------
17:44:10.318 INFO  FuncotatorDataSourceDownloader - org.broadinstitute.hellbender.tools.funcotator vUnavailable
17:44:10.318 INFO  FuncotatorDataSourceDownloader - For support and documentation go to https://software.broadinstitute.org/gatk/
17:44:10.318 INFO  FuncotatorDataSourceDownloader - Executing as runner@runnervmrcw8b on Linux v6.11.0-1018-azure aarch64
17:44:10.318 INFO  FuncotatorDataSourceDownloader - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
17:44:10.318 INFO  FuncotatorDataSourceDownloader - Start Date/Time: October 27, 2025 at 5:44:10 PM UTC
17:44:10.318 INFO  FuncotatorDataSourceDownloader - ------------------------------------------------------------
17:44:10.318 INFO  FuncotatorDataSourceDownloader - ------------------------------------------------------------
17:44:10.318 INFO  FuncotatorDataSourceDownloader - HTSJDK Defaults.COMPRESSION_LEVEL : 2
17:44:10.318 INFO  FuncotatorDataSourceDownloader - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
17:44:10.318 INFO  FuncotatorDataSourceDownloader - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
17:44:10.318 INFO  FuncotatorDataSourceDownloader - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
17:44:10.318 INFO  FuncotatorDataSourceDownloader - Deflater: JdkDeflater
17:44:10.318 INFO  FuncotatorDataSourceDownloader - Inflater: JdkInflater
17:44:10.318 INFO  FuncotatorDataSourceDownloader - GCS max retries/reopens: 20
17:44:10.318 INFO  FuncotatorDataSourceDownloader - Requester pays: disabled
17:44:10.318 INFO  FuncotatorDataSourceDownloader - Initializing engine
17:44:10.318 INFO  FuncotatorDataSourceDownloader - Overwrite ENABLED.  Will overwrite existing data sources download.
17:44:10.319 INFO  FuncotatorDataSourceDownloader - Done initializing engine
17:44:10.319 INFO  FuncotatorDataSourceDownloader - TESTING data sources selected.
17:44:10.319 INFO  NioFileCopierWithProgressMeter - Initiating copy from file:///home/runner/work/gatk/gatk/src/test/resources/large/funcotator/dummyDataSources.tar.gz to file:///tmp/FuncotatorDataSourceDownloaderIntegrationTest_testDownloadDummySmallDataSources15911121739424744108/dummyDataSources.tar.gz
17:44:10.319 INFO  NioFileCopierWithProgressMeter - File size: 1180641 bytes (1 MB).
17:44:10.319 INFO  NioFileCopierWithProgressMeter - Please wait.  This could take a while...
17:44:10.320 INFO  NioFileCopierWithProgressMeter -     Transfer:  80.00% complete.  Est. time remaining: 00.000 (@1024000.00 kbps)
17:44:10.320 INFO  NioFileCopierWithProgressMeter -     Transfer:  100.00% complete.  Est. time remaining: 00.000 (@Infinity kbps)
17:44:10.321 INFO  NioFileCopierWithProgressMeter - Download Complete! - Total elapsed time: 0s
17:44:10.321 INFO  FuncotatorDataSourceDownloader - IMPORTANT: You must unzip the downloaded data sources prior to using them with Funcotator.
17:44:10.321 INFO  FuncotatorDataSourceDownloader - Shutting down engine
[October 27, 2025 at 5:44:10 PM UTC] org.broadinstitute.hellbender.tools.funcotator.FuncotatorDataSourceDownloader done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1155530752
17:44:10.379 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:44:10.382 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression15939478394049383979.so: /tmp/libgkl_compression15939478394049383979.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:44:10.382 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:44:10.385 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression10096320120178868202.so: /tmp/libgkl_compression10096320120178868202.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:44:10.386 INFO  FuncotatorDataSourceDownloader - ------------------------------------------------------------
17:44:10.386 INFO  FuncotatorDataSourceDownloader - org.broadinstitute.hellbender.tools.funcotator vUnavailable
17:44:10.386 INFO  FuncotatorDataSourceDownloader - For support and documentation go to https://software.broadinstitute.org/gatk/
17:44:10.386 INFO  FuncotatorDataSourceDownloader - Executing as runner@runnervmrcw8b on Linux v6.11.0-1018-azure aarch64
17:44:10.386 INFO  FuncotatorDataSourceDownloader - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
17:44:10.386 INFO  FuncotatorDataSourceDownloader - Start Date/Time: October 27, 2025 at 5:44:10 PM UTC
17:44:10.386 INFO  FuncotatorDataSourceDownloader - ------------------------------------------------------------
17:44:10.386 INFO  FuncotatorDataSourceDownloader - ------------------------------------------------------------
17:44:10.387 INFO  FuncotatorDataSourceDownloader - HTSJDK Defaults.COMPRESSION_LEVEL : 2
17:44:10.387 INFO  FuncotatorDataSourceDownloader - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
17:44:10.387 INFO  FuncotatorDataSourceDownloader - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
17:44:10.387 INFO  FuncotatorDataSourceDownloader - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
17:44:10.387 INFO  FuncotatorDataSourceDownloader - Deflater: JdkDeflater
17:44:10.387 INFO  FuncotatorDataSourceDownloader - Inflater: JdkInflater
17:44:10.387 INFO  FuncotatorDataSourceDownloader - GCS max retries/reopens: 20
17:44:10.387 INFO  FuncotatorDataSourceDownloader - Requester pays: disabled
17:44:10.387 INFO  FuncotatorDataSourceDownloader - Initializing engine
17:44:10.387 INFO  FuncotatorDataSourceDownloader - Overwrite ENABLED.  Will overwrite existing data sources download.
17:44:10.387 INFO  FuncotatorDataSourceDownloader - Done initializing engine
17:44:10.387 INFO  FuncotatorDataSourceDownloader - TESTING data sources selected.
17:44:10.387 INFO  FuncotatorDataSourceDownloader - Collecting expected checksum...
17:44:10.387 INFO  FuncotatorDataSourceDownloader - Collection complete!
17:44:10.388 INFO  NioFileCopierWithProgressMeter - Initiating copy from file:///home/runner/work/gatk/gatk/src/test/resources/large/funcotator/dummyDataSources.tar.gz to file:///tmp/FuncotatorDataSourceDownloaderIntegrationTest_testDownloadDummySmallDataSources3086767505399712485/dummyDataSources.tar.gz
17:44:10.388 INFO  NioFileCopierWithProgressMeter - File size: 1180641 bytes (1 MB).
17:44:10.388 INFO  NioFileCopierWithProgressMeter - Please wait.  This could take a while...
17:44:10.389 INFO  NioFileCopierWithProgressMeter -     Transfer:  80.00% complete.  Est. time remaining: 00.000 (@1024000.00 kbps)
17:44:10.390 INFO  NioFileCopierWithProgressMeter -     Transfer:  100.00% complete.  Est. time remaining: 00.000 (@Infinity kbps)
17:44:10.390 INFO  NioFileCopierWithProgressMeter - Download Complete! - Total elapsed time: 0s
17:44:10.390 INFO  FuncotatorDataSourceDownloader - Integrity check on downloaded data sources succeeded.
17:44:10.390 INFO  IOUtils - Extracting data from archive: file:///tmp/FuncotatorDataSourceDownloaderIntegrationTest_testDownloadDummySmallDataSources3086767505399712485/dummyDataSources.tar.gz
17:44:10.391 INFO  IOUtils - Extracting file: dummyDataSources/
17:44:10.391 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc1/
17:44:10.392 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc2/
17:44:10.392 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc3/
17:44:10.392 INFO  IOUtils - Extracting file: dummyDataSources/MANIFEST.txt
17:44:10.393 INFO  IOUtils - Extracting file: dummyDataSources/README.txt
17:44:10.393 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc3/hg19/
17:44:10.394 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc3/hg38
17:44:10.394 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc3/hg19/familial.config
17:44:10.395 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc3/hg19/Familial_Cancer_Genes.no_dupes.tsv
17:44:10.395 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc2/hg19/
17:44:10.395 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc2/hg38/
17:44:10.396 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc2/hg38/gencode_xrefseq.config
17:44:10.396 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc2/hg38/gencode_xrefseq_v90_38.tsv
17:44:10.405 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc2/hg19/gencode_xrefseq.config
17:44:10.406 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc2/hg19/gencode_xrefseq_v75_37.tsv
17:44:10.412 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc1/hg19/
17:44:10.412 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc1/hg38/
17:44:10.413 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc1/hg38/cancer_gene_census.config
17:44:10.413 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc1/hg38/CancerGeneCensus_Table_1_full_2012-03-15.txt
17:44:10.414 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc1/hg19/dnaRepairGenes.20180524T145835.csv
17:44:10.414 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc1/hg19/dnaRepairGenes.config
17:44:10.415 INFO  FuncotatorDataSourceDownloader - Shutting down engine
[October 27, 2025 at 5:44:10 PM UTC] org.broadinstitute.hellbender.tools.funcotator.FuncotatorDataSourceDownloader done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1155530752
17:44:10.486 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:44:10.489 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression15118064483629767363.so: /tmp/libgkl_compression15118064483629767363.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:44:10.489 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:44:10.492 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression8665241821096621942.so: /tmp/libgkl_compression8665241821096621942.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:44:10.493 INFO  FuncotatorDataSourceDownloader - ------------------------------------------------------------
17:44:10.493 INFO  FuncotatorDataSourceDownloader - org.broadinstitute.hellbender.tools.funcotator vUnavailable
17:44:10.493 INFO  FuncotatorDataSourceDownloader - For support and documentation go to https://software.broadinstitute.org/gatk/
17:44:10.493 INFO  FuncotatorDataSourceDownloader - Executing as runner@runnervmrcw8b on Linux v6.11.0-1018-azure aarch64
17:44:10.493 INFO  FuncotatorDataSourceDownloader - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
17:44:10.494 INFO  FuncotatorDataSourceDownloader - Start Date/Time: October 27, 2025 at 5:44:10 PM UTC
17:44:10.494 INFO  FuncotatorDataSourceDownloader - ------------------------------------------------------------
17:44:10.494 INFO  FuncotatorDataSourceDownloader - ------------------------------------------------------------
17:44:10.494 INFO  FuncotatorDataSourceDownloader - HTSJDK Defaults.COMPRESSION_LEVEL : 2
17:44:10.494 INFO  FuncotatorDataSourceDownloader - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
17:44:10.494 INFO  FuncotatorDataSourceDownloader - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
17:44:10.494 INFO  FuncotatorDataSourceDownloader - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
17:44:10.494 INFO  FuncotatorDataSourceDownloader - Deflater: JdkDeflater
17:44:10.494 INFO  FuncotatorDataSourceDownloader - Inflater: JdkInflater
17:44:10.494 INFO  FuncotatorDataSourceDownloader - GCS max retries/reopens: 20
17:44:10.494 INFO  FuncotatorDataSourceDownloader - Requester pays: disabled
17:44:10.494 INFO  FuncotatorDataSourceDownloader - Initializing engine
17:44:10.494 INFO  FuncotatorDataSourceDownloader - Overwrite ENABLED.  Will overwrite existing data sources download.
17:44:10.494 INFO  FuncotatorDataSourceDownloader - Done initializing engine
17:44:10.494 INFO  FuncotatorDataSourceDownloader - TESTING data sources selected.
17:44:10.494 INFO  NioFileCopierWithProgressMeter - Initiating copy from file:///home/runner/work/gatk/gatk/src/test/resources/large/funcotator/dummyDataSources.tar.gz to file:///tmp/FuncotatorDataSourceDownloaderIntegrationTest_testDownloadDummySmallDataSources13757028706743416096/dummyDataSources.tar.gz
17:44:10.494 INFO  NioFileCopierWithProgressMeter - File size: 1180641 bytes (1 MB).
17:44:10.495 INFO  NioFileCopierWithProgressMeter - Please wait.  This could take a while...
17:44:10.495 INFO  NioFileCopierWithProgressMeter -     Transfer:  80.00% complete.  Est. time remaining: 00.000 (@Infinity kbps)
17:44:10.496 INFO  NioFileCopierWithProgressMeter -     Transfer:  100.00% complete.  Est. time remaining: 00.000 (@Infinity kbps)
17:44:10.496 INFO  NioFileCopierWithProgressMeter - Download Complete! - Total elapsed time: 0s
17:44:10.496 INFO  IOUtils - Extracting data from archive: file:///tmp/FuncotatorDataSourceDownloaderIntegrationTest_testDownloadDummySmallDataSources13757028706743416096/dummyDataSources.tar.gz
17:44:10.496 INFO  IOUtils - Extracting file: dummyDataSources/
17:44:10.497 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc1/
17:44:10.497 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc2/
17:44:10.497 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc3/
17:44:10.498 INFO  IOUtils - Extracting file: dummyDataSources/MANIFEST.txt
17:44:10.498 INFO  IOUtils - Extracting file: dummyDataSources/README.txt
17:44:10.498 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc3/hg19/
17:44:10.499 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc3/hg38
17:44:10.499 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc3/hg19/familial.config
17:44:10.500 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc3/hg19/Familial_Cancer_Genes.no_dupes.tsv
17:44:10.500 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc2/hg19/
17:44:10.500 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc2/hg38/
17:44:10.501 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc2/hg38/gencode_xrefseq.config
17:44:10.501 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc2/hg38/gencode_xrefseq_v90_38.tsv
17:44:10.510 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc2/hg19/gencode_xrefseq.config
17:44:10.511 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc2/hg19/gencode_xrefseq_v75_37.tsv
17:44:10.517 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc1/hg19/
17:44:10.517 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc1/hg38/
17:44:10.517 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc1/hg38/cancer_gene_census.config
17:44:10.518 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc1/hg38/CancerGeneCensus_Table_1_full_2012-03-15.txt
17:44:10.521 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc1/hg19/dnaRepairGenes.20180524T145835.csv
17:44:10.522 INFO  IOUtils - Extracting file: dummyDataSources/dummySrc1/hg19/dnaRepairGenes.config
17:44:10.522 INFO  FuncotatorDataSourceDownloader - Shutting down engine
[October 27, 2025 at 5:44:10 PM UTC] org.broadinstitute.hellbender.tools.funcotator.FuncotatorDataSourceDownloader done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1155530752
17:44:10.523 INFO  BlockManagerInfo - Removed broadcast_11_piece0 on localhost:43989 in memory (size: 2.4 KiB, free: 1920.0 MiB)
17:44:10.525 INFO  BlockManagerInfo - Removed broadcast_12_piece0 on localhost:43989 in memory (size: 2.4 KiB, free: 1920.0 MiB)