Standard error
[Thu Apr 24 13:00:14 EDT 2025] BamToBfq --INPUT /mounts/lovelace/software/picard/picard/testdata/picard/sam/aligned_queryname_sorted.bam --ANALYSIS_DIR /tmp/BamToBfqTestDir18054155073915928370 --OUTPUT_FILE_PREFIX bam_to_bfq_test --READS_TO_ALIGN 8 --PAIRED_RUN false --READ_CHUNK_SIZE 2000000 --INCLUDE_NON_PF_READS false --CLIP_ADAPTERS true --VERBOSITY INFO --QUIET false --VALIDATION_STRINGENCY STRICT --COMPRESSION_LEVEL 5 --MAX_RECORDS_IN_RAM 500000 --CREATE_INDEX false --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Thu Apr 24 13:00:14 EDT 2025] Executing as root@lovelace on Linux 6.1.0-28-amd64 amd64; OpenJDK 64-Bit Server VM 17.0.13+11-Debian-2deb12u1; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:null
INFO 2025-04-24 13:00:14 SamToBfqWriter Now writing to file /tmp/BamToBfqTestDir18054155073915928370/bam_to_bfq_test.0.1.bfq
INFO 2025-04-24 13:00:14 SamToBfqWriter Wrote 8 bfq records.
[Thu Apr 24 13:00:14 EDT 2025] picard.fastq.BamToBfq done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1073741824
[Thu Apr 24 13:00:14 EDT 2025] BamToBfq --INPUT /mounts/lovelace/software/picard/picard/testdata/picard/sam/aligned_queryname_sorted.bam --ANALYSIS_DIR /tmp/BamToBfqTestDir4597294875588826380 --OUTPUT_FILE_PREFIX bam_to_bfq_paired_test --READS_TO_ALIGN 8 --PAIRED_RUN true --READ_CHUNK_SIZE 2000000 --INCLUDE_NON_PF_READS false --CLIP_ADAPTERS true --VERBOSITY INFO --QUIET false --VALIDATION_STRINGENCY STRICT --COMPRESSION_LEVEL 5 --MAX_RECORDS_IN_RAM 500000 --CREATE_INDEX false --CREATE_MD5_FILE false --help false --version false --showHidden false --USE_JDK_DEFLATER false --USE_JDK_INFLATER false
[Thu Apr 24 13:00:14 EDT 2025] Executing as root@lovelace on Linux 6.1.0-28-amd64 amd64; OpenJDK 64-Bit Server VM 17.0.13+11-Debian-2deb12u1; Deflater: Intel; Inflater: Intel; Provider GCS is available; Picard version: Version:null
INFO 2025-04-24 13:00:14 SamToBfqWriter Now writing to file /tmp/BamToBfqTestDir4597294875588826380/bam_to_bfq_paired_test.0.1.bfq
INFO 2025-04-24 13:00:14 SamToBfqWriter Now writing to file /tmp/BamToBfqTestDir4597294875588826380/bam_to_bfq_paired_test.0.2.bfq
INFO 2025-04-24 13:00:14 SamToBfqWriter Wrote 4 bfq records.
[Thu Apr 24 13:00:14 EDT 2025] picard.fastq.BamToBfq done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1073741824