Using GATK jar /usr/local/share/gatk4-4.5.0.0-0/gatk-package-4.5.0.0-local.jar
Running:
    java -Dsamjdk.use_async_io_read_samtools=false -Dsamjdk.use_async_io_write_samtools=true -Dsamjdk.use_async_io_write_tribble=false -Dsamjdk.compression_level=2 -Xmx3276M -XX:-UsePerfData -jar /usr/local/share/gatk4-4.5.0.0-0/gatk-package-4.5.0.0-local.jar MergeVcfs --INPUT Sig_18_Blood.haplotyper.chr21_44120631-44120778.bed.unfiltered.vcf.gz --INPUT Sig_18_Blood.haplotyper.chr21_5117103-5117231.bed.unfiltered.vcf.gz --OUTPUT Sig_18_Blood.haplotyper.unfiltered.vcf.gz --SEQUENCE_DICTIONARY Homo_sapiens_assembly38.dict --TMP_DIR .
19:29:00.353 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/usr/local/share/gatk4-4.5.0.0-0/gatk-package-4.5.0.0-local.jar!/com/intel/gkl/native/libgkl_compression.so
[Thu Jun 04 19:29:00 GMT 2026] MergeVcfs --INPUT Sig_18_Blood.haplotyper.chr21_44120631-44120778.bed.unfiltered.vcf.gz --INPUT Sig_18_Blood.haplotyper.chr21_5117103-5117231.bed.unfiltered.vcf.gz --OUTPUT Sig_18_Blood.haplotyper.unfiltered.vcf.gz --SEQUENCE_DICTIONARY Homo_sapiens_assembly38.dict --TMP_DIR . --VERBOSITY INFO --QUIET false --VALIDATION_STRINGENCY STRICT --COMPRESSION_LEVEL 2 --MAX_RECORDS_IN_RAM 500000 --CREATE_INDEX true --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Thu Jun 04 19:29:00 GMT 2026] Executing as ?@nf-86bc6f0728c5f4fc15008c2dfde9e784-6b9b4-kmwvd on Linux 6.12.88 amd64; OpenJDK 64-Bit Server VM 17.0.10-internal+0-adhoc..src; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:4.5.0.0
[Thu Jun 04 19:29:00 GMT 2026] picard.vcf.MergeVcfs done. Elapsed time: 0.01 minutes.
Runtime.totalMemory()=113246208