Question: Markduplicates won't run
0
Marc • 30 wrote:
hi there,
This is what happened when I try to run Markduplicates the tool. Anyone knows how fix it?
| ## htsjdk.samtools.metrics.StringHeader |
| # picard.sam.markduplicates.MarkDuplicates INPUT=[/home/azureuser/galaxy/database/files/000/dataset_31.dat] OUTPUT=/home/azureuser/galaxy/database/files/000/dataset_49.dat METRICS_FILE=/home/azureuser/galaxy/database/files/000/dataset_48.dat REMOVE_DUPLICA |
| TES=false ASSUME_SORTED=true DUPLICATE_SCORING_STRATEGY=SUM_OF_BASE_QUALITIES READ_NAME_REGEX=[a-zA-Z0-9]+:[0-9]:([0-9]+):([0-9]+):([0-9]+).*. OPTICAL_DUPLICATE_PIXEL_DISTANCE=100 VERBOSITY=ERROR QUIET=true VALIDATION_STRINGENCY=LENIENT MAX_SEQUENCES_FO |
| R_DISK_READ_ENDS_MAP=50000 MAX_FILE_HANDLES_FOR_READ_ENDS_MAP=8000 SORTING_COLLECTION_SIZE_RATIO=0.25 PROGRAM_RECORD_ID=MarkDuplicates PROGRAM_GROUP_NAME=MarkDuplicates COMPRESSION_LEVEL=5 MAX_RECORDS_IN_RAM=500000 CREATE_INDEX=false CREATE_MD5_FILE=false |
| ## htsjdk.samtools.metrics.StringHeader |
| # Started on: Wed May 27 21:29:24 UTC 2015 |