[stdout]
Args { cmd_martian: true, arg_adapter: ["mark_duplicates", "split", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/NASH/data/Chow1/Chow_1_Test/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/split-u8c0aa71e80", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/NASH/data/Chow1/Chow_1_Test/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/split-u8c0aa71e80/files", "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/NASH/data/Chow1/Chow_1_Test/journal/ID.Chow_1_Test.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.MARK_DUPLICATES.fork0.u8c0aa71e80"] }
/share/pkg.7/cellranger/3.1.0/install/bin/cellranger-cs/3.1.0/lib/bin/cr_stage martian mark_duplicates split /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/NASH/data/Chow1/Chow_1_Test/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/split-u8c0aa71e80 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/NASH/data/Chow1/Chow_1_Test/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/split-u8c0aa71e80/files /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/NASH/data/Chow1/Chow_1_Test/journal/ID.Chow_1_Test.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.MARK_DUPLICATES.fork0.u8c0aa71e80
got metadata: Metadata { stage_name: "mark_duplicates", stage_type: "split", metadata_path: "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/NASH/data/Chow1/Chow_1_Test/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/split-u8c0aa71e80", files_path: "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/NASH/data/Chow1/Chow_1_Test/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/split-u8c0aa71e80/files", run_file: "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/NASH/data/Chow1/Chow_1_Test/journal/ID.Chow_1_Test.SC_RNA_COUNTER_CS.SC_RNA_COUNTER._BASIC_SC_RNA_COUNTER.MARK_DUPLICATES.fork0.u8c0aa71e80", jobinfo: {}, cache: {}, log_file: File { fd: 3, path: "/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/NASH/data/Chow1/Chow_1_Test/SC_RNA_COUNTER_CS/SC_RNA_COUNTER/_BASIC_SC_RNA_COUNTER/MARK_DUPLICATES/fork0/split-u8c0aa71e80/_log", read: false, write: true } }
[2019-10-16 09:43:30][INFO] Found first block at real offset 2502
[2019-10-16 09:43:41][INFO] Found 1611452 blocks
[2019-10-16 09:43:41][INFO] size_gb=21.050979748, chunk_size_gb=0.5, num_chunks=43
[2019-10-16 09:43:41][INFO] Found first block at real offset 2502
[2019-10-16 09:43:41][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:41][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:41][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:41][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:41][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:41][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:41][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:41][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:41][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:41][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:41][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:41][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:41][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:42][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:42][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:42][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:42][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:42][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:42][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:42][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:42][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:42][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:42][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:42][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:43][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:43][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:43][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:43][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:43][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:43][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:43][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:43][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:43][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:43][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:43][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:43][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:43][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:43][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
[2019-10-16 09:43:43][WARN] Taking a long time to find a chunk boundary. Check your chunk_bound_key function?
