Job ID = 1291875 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 35,613,013 reads read : 71,226,026 reads written : 35,613,013 reads 0-length : 35,613,013 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘fastqDump_tmp*’: No such file or directory fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:08:18 35613013 reads; of these: 35613013 (100.00%) were unpaired; of these: 1394478 (3.92%) aligned 0 times 29140197 (81.82%) aligned exactly 1 time 5078338 (14.26%) aligned >1 times 96.08% overall alignment rate Time searching: 00:08:18 Overall time: 00:08:18 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_sort_core] merging from 16 files... [bam_rmdupse_core] 6820422 / 34218535 = 0.1993 in library ' ' BAM に変換しました。 Bed ファイルを作成中... BedGraph に変換中... INFO @ Sun, 02 Jun 2019 17:13:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX2737086/SRX2737086.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX2737086/SRX2737086.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX2737086/SRX2737086.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX2737086/SRX2737086.bam'] # control file = None # effective genome size = 9.00e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sun, 02 Jun 2019 17:13:55: #1 read tag files... INFO @ Sun, 02 Jun 2019 17:13:55: #1 read treatment tags... INFO @ Sun, 02 Jun 2019 17:13:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX2737086/SRX2737086.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX2737086/SRX2737086.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX2737086/SRX2737086.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX2737086/SRX2737086.bam'] # control file = None # effective genome size = 9.00e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sun, 02 Jun 2019 17:13:55: #1 read tag files... INFO @ Sun, 02 Jun 2019 17:13:55: #1 read treatment tags... INFO @ Sun, 02 Jun 2019 17:13:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX2737086/SRX2737086.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX2737086/SRX2737086.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX2737086/SRX2737086.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX2737086/SRX2737086.bam'] # control file = None # effective genome size = 9.00e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sun, 02 Jun 2019 17:13:55: #1 read tag files... INFO @ Sun, 02 Jun 2019 17:13:55: #1 read treatment tags... INFO @ Sun, 02 Jun 2019 17:14:03: 1000000 INFO @ Sun, 02 Jun 2019 17:14:03: 1000000 INFO @ Sun, 02 Jun 2019 17:14:04: 1000000 INFO @ Sun, 02 Jun 2019 17:14:10: 2000000 INFO @ Sun, 02 Jun 2019 17:14:11: 2000000 INFO @ Sun, 02 Jun 2019 17:14:12: 2000000 INFO @ Sun, 02 Jun 2019 17:14:18: 3000000 INFO @ Sun, 02 Jun 2019 17:14:18: 3000000 INFO @ Sun, 02 Jun 2019 17:14:19: 3000000 INFO @ Sun, 02 Jun 2019 17:14:25: 4000000 INFO @ Sun, 02 Jun 2019 17:14:25: 4000000 INFO @ Sun, 02 Jun 2019 17:14:27: 4000000 INFO @ Sun, 02 Jun 2019 17:14:32: 5000000 INFO @ Sun, 02 Jun 2019 17:14:32: 5000000 INFO @ Sun, 02 Jun 2019 17:14:35: 5000000 INFO @ Sun, 02 Jun 2019 17:14:39: 6000000 INFO @ Sun, 02 Jun 2019 17:14:39: 6000000 INFO @ Sun, 02 Jun 2019 17:14:43: 6000000 INFO @ Sun, 02 Jun 2019 17:14:46: 7000000 INFO @ Sun, 02 Jun 2019 17:14:46: 7000000 INFO @ Sun, 02 Jun 2019 17:14:51: 7000000 INFO @ Sun, 02 Jun 2019 17:14:53: 8000000 INFO @ Sun, 02 Jun 2019 17:14:54: 8000000 INFO @ Sun, 02 Jun 2019 17:14:59: 8000000 INFO @ Sun, 02 Jun 2019 17:15:01: 9000000 INFO @ Sun, 02 Jun 2019 17:15:01: 9000000 INFO @ Sun, 02 Jun 2019 17:15:07: 9000000 INFO @ Sun, 02 Jun 2019 17:15:08: 10000000 INFO @ Sun, 02 Jun 2019 17:15:08: 10000000 INFO @ Sun, 02 Jun 2019 17:15:14: 10000000 INFO @ Sun, 02 Jun 2019 17:15:15: 11000000 INFO @ Sun, 02 Jun 2019 17:15:15: 11000000 INFO @ Sun, 02 Jun 2019 17:15:22: 12000000 INFO @ Sun, 02 Jun 2019 17:15:22: 11000000 INFO @ Sun, 02 Jun 2019 17:15:22: 12000000 INFO @ Sun, 02 Jun 2019 17:15:30: 13000000 INFO @ Sun, 02 Jun 2019 17:15:30: 13000000 INFO @ Sun, 02 Jun 2019 17:15:30: 12000000 INFO @ Sun, 02 Jun 2019 17:15:37: 14000000 INFO @ Sun, 02 Jun 2019 17:15:37: 14000000 INFO @ Sun, 02 Jun 2019 17:15:38: 13000000 INFO @ Sun, 02 Jun 2019 17:15:44: 15000000 INFO @ Sun, 02 Jun 2019 17:15:45: 15000000 INFO @ Sun, 02 Jun 2019 17:15:46: 14000000 INFO @ Sun, 02 Jun 2019 17:15:51: 16000000 INFO @ Sun, 02 Jun 2019 17:15:52: 16000000 INFO @ Sun, 02 Jun 2019 17:15:54: 15000000 INFO @ Sun, 02 Jun 2019 17:15:59: 17000000 INFO @ Sun, 02 Jun 2019 17:15:59: 17000000 INFO @ Sun, 02 Jun 2019 17:16:03: 16000000 INFO @ Sun, 02 Jun 2019 17:16:06: 18000000 INFO @ Sun, 02 Jun 2019 17:16:06: 18000000 INFO @ Sun, 02 Jun 2019 17:16:09: 17000000 INFO @ Sun, 02 Jun 2019 17:16:13: 19000000 INFO @ Sun, 02 Jun 2019 17:16:13: 19000000 INFO @ Sun, 02 Jun 2019 17:16:16: 18000000 INFO @ Sun, 02 Jun 2019 17:16:20: 20000000 INFO @ Sun, 02 Jun 2019 17:16:20: 20000000 INFO @ Sun, 02 Jun 2019 17:16:22: 19000000 INFO @ Sun, 02 Jun 2019 17:16:27: 21000000 INFO @ Sun, 02 Jun 2019 17:16:27: 21000000 INFO @ Sun, 02 Jun 2019 17:16:30: 20000000 INFO @ Sun, 02 Jun 2019 17:16:34: 22000000 INFO @ Sun, 02 Jun 2019 17:16:34: 22000000 INFO @ Sun, 02 Jun 2019 17:16:38: 21000000 INFO @ Sun, 02 Jun 2019 17:16:41: 23000000 INFO @ Sun, 02 Jun 2019 17:16:41: 23000000 INFO @ Sun, 02 Jun 2019 17:16:45: 22000000 INFO @ Sun, 02 Jun 2019 17:16:48: 24000000 INFO @ Sun, 02 Jun 2019 17:16:48: 24000000 INFO @ Sun, 02 Jun 2019 17:16:53: 23000000 INFO @ Sun, 02 Jun 2019 17:16:55: 25000000 INFO @ Sun, 02 Jun 2019 17:16:55: 25000000 INFO @ Sun, 02 Jun 2019 17:17:01: 24000000 INFO @ Sun, 02 Jun 2019 17:17:02: 26000000 INFO @ Sun, 02 Jun 2019 17:17:02: 26000000 INFO @ Sun, 02 Jun 2019 17:17:08: 25000000 INFO @ Sun, 02 Jun 2019 17:17:09: 27000000 INFO @ Sun, 02 Jun 2019 17:17:09: 27000000 INFO @ Sun, 02 Jun 2019 17:17:12: #1 tag size is determined as 51 bps INFO @ Sun, 02 Jun 2019 17:17:12: #1 tag size = 51 INFO @ Sun, 02 Jun 2019 17:17:12: #1 total tags in treatment: 27398113 INFO @ Sun, 02 Jun 2019 17:17:12: #1 user defined the maximum tags... INFO @ Sun, 02 Jun 2019 17:17:12: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 02 Jun 2019 17:17:12: #1 tags after filtering in treatment: 27398113 INFO @ Sun, 02 Jun 2019 17:17:12: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 02 Jun 2019 17:17:12: #1 finished! INFO @ Sun, 02 Jun 2019 17:17:12: #2 Build Peak Model... INFO @ Sun, 02 Jun 2019 17:17:12: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 02 Jun 2019 17:17:12: #1 tag size is determined as 51 bps INFO @ Sun, 02 Jun 2019 17:17:12: #1 tag size = 51 INFO @ Sun, 02 Jun 2019 17:17:12: #1 total tags in treatment: 27398113 INFO @ Sun, 02 Jun 2019 17:17:12: #1 user defined the maximum tags... INFO @ Sun, 02 Jun 2019 17:17:12: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 02 Jun 2019 17:17:13: #1 tags after filtering in treatment: 27398113 INFO @ Sun, 02 Jun 2019 17:17:13: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 02 Jun 2019 17:17:13: #1 finished! INFO @ Sun, 02 Jun 2019 17:17:13: #2 Build Peak Model... INFO @ Sun, 02 Jun 2019 17:17:13: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 02 Jun 2019 17:17:14: #2 number of paired peaks: 105 WARNING @ Sun, 02 Jun 2019 17:17:14: Fewer paired peaks (105) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 105 pairs to build model! INFO @ Sun, 02 Jun 2019 17:17:14: start model_add_line... INFO @ Sun, 02 Jun 2019 17:17:15: start X-correlation... INFO @ Sun, 02 Jun 2019 17:17:15: end of X-cor INFO @ Sun, 02 Jun 2019 17:17:15: #2 finished! INFO @ Sun, 02 Jun 2019 17:17:15: #2 predicted fragment length is 0 bps INFO @ Sun, 02 Jun 2019 17:17:15: #2 alternative fragment length(s) may be 0,46,464,491,541 bps INFO @ Sun, 02 Jun 2019 17:17:15: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX2737086/SRX2737086.10_model.r WARNING @ Sun, 02 Jun 2019 17:17:15: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sun, 02 Jun 2019 17:17:15: #2 You may need to consider one of the other alternative d(s): 0,46,464,491,541 WARNING @ Sun, 02 Jun 2019 17:17:15: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sun, 02 Jun 2019 17:17:15: #3 Call peaks... INFO @ Sun, 02 Jun 2019 17:17:15: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 02 Jun 2019 17:17:15: 26000000 INFO @ Sun, 02 Jun 2019 17:17:15: #2 number of paired peaks: 105 WARNING @ Sun, 02 Jun 2019 17:17:15: Fewer paired peaks (105) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 105 pairs to build model! INFO @ Sun, 02 Jun 2019 17:17:15: start model_add_line... INFO @ Sun, 02 Jun 2019 17:17:15: start X-correlation... INFO @ Sun, 02 Jun 2019 17:17:15: end of X-cor INFO @ Sun, 02 Jun 2019 17:17:15: #2 finished! INFO @ Sun, 02 Jun 2019 17:17:15: #2 predicted fragment length is 0 bps INFO @ Sun, 02 Jun 2019 17:17:15: #2 alternative fragment length(s) may be 0,46,464,491,541 bps INFO @ Sun, 02 Jun 2019 17:17:15: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX2737086/SRX2737086.05_model.r WARNING @ Sun, 02 Jun 2019 17:17:15: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sun, 02 Jun 2019 17:17:15: #2 You may need to consider one of the other alternative d(s): 0,46,464,491,541 WARNING @ Sun, 02 Jun 2019 17:17:15: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sun, 02 Jun 2019 17:17:15: #3 Call peaks... INFO @ Sun, 02 Jun 2019 17:17:15: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 02 Jun 2019 17:17:22: 27000000 INFO @ Sun, 02 Jun 2019 17:17:25: #1 tag size is determined as 51 bps INFO @ Sun, 02 Jun 2019 17:17:25: #1 tag size = 51 INFO @ Sun, 02 Jun 2019 17:17:25: #1 total tags in treatment: 27398113 INFO @ Sun, 02 Jun 2019 17:17:25: #1 user defined the maximum tags... INFO @ Sun, 02 Jun 2019 17:17:25: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 02 Jun 2019 17:17:26: #1 tags after filtering in treatment: 27398113 INFO @ Sun, 02 Jun 2019 17:17:26: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 02 Jun 2019 17:17:26: #1 finished! INFO @ Sun, 02 Jun 2019 17:17:26: #2 Build Peak Model... INFO @ Sun, 02 Jun 2019 17:17:26: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 02 Jun 2019 17:17:28: #2 number of paired peaks: 105 WARNING @ Sun, 02 Jun 2019 17:17:28: Fewer paired peaks (105) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 105 pairs to build model! INFO @ Sun, 02 Jun 2019 17:17:28: start model_add_line... INFO @ Sun, 02 Jun 2019 17:17:28: start X-correlation... INFO @ Sun, 02 Jun 2019 17:17:28: end of X-cor INFO @ Sun, 02 Jun 2019 17:17:28: #2 finished! INFO @ Sun, 02 Jun 2019 17:17:28: #2 predicted fragment length is 0 bps INFO @ Sun, 02 Jun 2019 17:17:28: #2 alternative fragment length(s) may be 0,46,464,491,541 bps INFO @ Sun, 02 Jun 2019 17:17:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX2737086/SRX2737086.20_model.r WARNING @ Sun, 02 Jun 2019 17:17:28: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sun, 02 Jun 2019 17:17:28: #2 You may need to consider one of the other alternative d(s): 0,46,464,491,541 WARNING @ Sun, 02 Jun 2019 17:17:28: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sun, 02 Jun 2019 17:17:28: #3 Call peaks... INFO @ Sun, 02 Jun 2019 17:17:28: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。 ls: cannot access SRX2737086.05.bed: No such file or directory mv: cannot stat ‘SRX2737086.05.bed’: No such file or directory /var/spool/uge/at080/job_scripts/1291875: line 321: 46428 Terminated MACS $i /var/spool/uge/at080/job_scripts/1291875: line 321: 46429 Terminated MACS $i /var/spool/uge/at080/job_scripts/1291875: line 321: 46430 Terminated MACS $i mv: cannot stat ‘SRX2737086.05.bb’: No such file or directory ls: cannot access SRX2737086.10.bed: No such file or directory mv: cannot stat ‘SRX2737086.10.bed’: No such file or directory mv: cannot stat ‘SRX2737086.10.bb’: No such file or directory ls: cannot access SRX2737086.20.bed: No such file or directory mv: cannot stat ‘SRX2737086.20.bed’: No such file or directory mv: cannot stat ‘SRX2737086.20.bb’: No such file or directory