Job ID = 1292593 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 30,788,149 reads read : 30,788,149 reads written : 30,788,149 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: 00:05:37 30788149 reads; of these: 30788149 (100.00%) were unpaired; of these: 171806 (0.56%) aligned 0 times 25273640 (82.09%) aligned exactly 1 time 5342703 (17.35%) aligned >1 times 99.44% overall alignment rate Time searching: 00:05:37 Overall time: 00:05:37 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 8 files... [bam_rmdupse_core] 4711042 / 30616343 = 0.1539 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 20:00:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX494844/SRX494844.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX494844/SRX494844.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX494844/SRX494844.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX494844/SRX494844.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 20:00:55: #1 read tag files... INFO @ Sun, 02 Jun 2019 20:00:55: #1 read treatment tags... INFO @ Sun, 02 Jun 2019 20:00:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX494844/SRX494844.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX494844/SRX494844.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX494844/SRX494844.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX494844/SRX494844.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 20:00:55: #1 read tag files... INFO @ Sun, 02 Jun 2019 20:00:55: #1 read treatment tags... INFO @ Sun, 02 Jun 2019 20:00:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX494844/SRX494844.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX494844/SRX494844.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX494844/SRX494844.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX494844/SRX494844.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 20:00:55: #1 read tag files... INFO @ Sun, 02 Jun 2019 20:00:55: #1 read treatment tags... INFO @ Sun, 02 Jun 2019 20:01:03: 1000000 INFO @ Sun, 02 Jun 2019 20:01:03: 1000000 INFO @ Sun, 02 Jun 2019 20:01:03: 1000000 INFO @ Sun, 02 Jun 2019 20:01:09: 2000000 INFO @ Sun, 02 Jun 2019 20:01:11: 2000000 INFO @ Sun, 02 Jun 2019 20:01:11: 2000000 INFO @ Sun, 02 Jun 2019 20:01:16: 3000000 INFO @ Sun, 02 Jun 2019 20:01:18: 3000000 INFO @ Sun, 02 Jun 2019 20:01:18: 3000000 INFO @ Sun, 02 Jun 2019 20:01:23: 4000000 INFO @ Sun, 02 Jun 2019 20:01:26: 4000000 INFO @ Sun, 02 Jun 2019 20:01:26: 4000000 INFO @ Sun, 02 Jun 2019 20:01:30: 5000000 INFO @ Sun, 02 Jun 2019 20:01:33: 5000000 INFO @ Sun, 02 Jun 2019 20:01:34: 5000000 INFO @ Sun, 02 Jun 2019 20:01:37: 6000000 INFO @ Sun, 02 Jun 2019 20:01:41: 6000000 INFO @ Sun, 02 Jun 2019 20:01:42: 6000000 INFO @ Sun, 02 Jun 2019 20:01:44: 7000000 INFO @ Sun, 02 Jun 2019 20:01:49: 7000000 INFO @ Sun, 02 Jun 2019 20:01:49: 7000000 INFO @ Sun, 02 Jun 2019 20:01:50: 8000000 INFO @ Sun, 02 Jun 2019 20:01:56: 8000000 INFO @ Sun, 02 Jun 2019 20:01:57: 8000000 INFO @ Sun, 02 Jun 2019 20:01:57: 9000000 INFO @ Sun, 02 Jun 2019 20:02:04: 10000000 INFO @ Sun, 02 Jun 2019 20:02:04: 9000000 INFO @ Sun, 02 Jun 2019 20:02:04: 9000000 INFO @ Sun, 02 Jun 2019 20:02:11: 11000000 INFO @ Sun, 02 Jun 2019 20:02:12: 10000000 INFO @ Sun, 02 Jun 2019 20:02:12: 10000000 INFO @ Sun, 02 Jun 2019 20:02:17: 12000000 INFO @ Sun, 02 Jun 2019 20:02:19: 11000000 INFO @ Sun, 02 Jun 2019 20:02:20: 11000000 INFO @ Sun, 02 Jun 2019 20:02:24: 13000000 INFO @ Sun, 02 Jun 2019 20:02:27: 12000000 INFO @ Sun, 02 Jun 2019 20:02:27: 12000000 INFO @ Sun, 02 Jun 2019 20:02:31: 14000000 INFO @ Sun, 02 Jun 2019 20:02:34: 13000000 INFO @ Sun, 02 Jun 2019 20:02:35: 13000000 INFO @ Sun, 02 Jun 2019 20:02:38: 15000000 INFO @ Sun, 02 Jun 2019 20:02:42: 14000000 INFO @ Sun, 02 Jun 2019 20:02:42: 14000000 INFO @ Sun, 02 Jun 2019 20:02:44: 16000000 INFO @ Sun, 02 Jun 2019 20:02:49: 15000000 INFO @ Sun, 02 Jun 2019 20:02:50: 15000000 INFO @ Sun, 02 Jun 2019 20:02:51: 17000000 INFO @ Sun, 02 Jun 2019 20:02:57: 16000000 INFO @ Sun, 02 Jun 2019 20:02:57: 16000000 INFO @ Sun, 02 Jun 2019 20:02:58: 18000000 INFO @ Sun, 02 Jun 2019 20:03:04: 17000000 INFO @ Sun, 02 Jun 2019 20:03:05: 19000000 INFO @ Sun, 02 Jun 2019 20:03:05: 17000000 INFO @ Sun, 02 Jun 2019 20:03:12: 20000000 INFO @ Sun, 02 Jun 2019 20:03:12: 18000000 INFO @ Sun, 02 Jun 2019 20:03:13: 18000000 INFO @ Sun, 02 Jun 2019 20:03:18: 21000000 INFO @ Sun, 02 Jun 2019 20:03:19: 19000000 INFO @ Sun, 02 Jun 2019 20:03:20: 19000000 INFO @ Sun, 02 Jun 2019 20:03:25: 22000000 INFO @ Sun, 02 Jun 2019 20:03:26: 20000000 INFO @ Sun, 02 Jun 2019 20:03:27: 20000000 INFO @ Sun, 02 Jun 2019 20:03:32: 23000000 INFO @ Sun, 02 Jun 2019 20:03:34: 21000000 INFO @ Sun, 02 Jun 2019 20:03:35: 21000000 INFO @ Sun, 02 Jun 2019 20:03:38: 24000000 INFO @ Sun, 02 Jun 2019 20:03:41: 22000000 INFO @ Sun, 02 Jun 2019 20:03:42: 22000000 INFO @ Sun, 02 Jun 2019 20:03:45: 25000000 INFO @ Sun, 02 Jun 2019 20:03:48: 23000000 INFO @ Sun, 02 Jun 2019 20:03:49: 23000000 INFO @ Sun, 02 Jun 2019 20:03:51: #1 tag size is determined as 36 bps INFO @ Sun, 02 Jun 2019 20:03:51: #1 tag size = 36 INFO @ Sun, 02 Jun 2019 20:03:51: #1 total tags in treatment: 25905301 INFO @ Sun, 02 Jun 2019 20:03:51: #1 user defined the maximum tags... INFO @ Sun, 02 Jun 2019 20:03:51: #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 20:03:52: #1 tags after filtering in treatment: 25905301 INFO @ Sun, 02 Jun 2019 20:03:52: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 02 Jun 2019 20:03:52: #1 finished! INFO @ Sun, 02 Jun 2019 20:03:52: #2 Build Peak Model... INFO @ Sun, 02 Jun 2019 20:03:52: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 02 Jun 2019 20:03:55: #2 number of paired peaks: 143 WARNING @ Sun, 02 Jun 2019 20:03:55: Fewer paired peaks (143) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 143 pairs to build model! INFO @ Sun, 02 Jun 2019 20:03:55: start model_add_line... INFO @ Sun, 02 Jun 2019 20:03:55: start X-correlation... INFO @ Sun, 02 Jun 2019 20:03:55: end of X-cor INFO @ Sun, 02 Jun 2019 20:03:55: #2 finished! INFO @ Sun, 02 Jun 2019 20:03:55: #2 predicted fragment length is 0 bps INFO @ Sun, 02 Jun 2019 20:03:55: #2 alternative fragment length(s) may be 0,24,296,357,509,554,568 bps INFO @ Sun, 02 Jun 2019 20:03:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX494844/SRX494844.05_model.r WARNING @ Sun, 02 Jun 2019 20:03:55: #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 20:03:55: #2 You may need to consider one of the other alternative d(s): 0,24,296,357,509,554,568 WARNING @ Sun, 02 Jun 2019 20:03:55: #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 20:03:55: #3 Call peaks... INFO @ Sun, 02 Jun 2019 20:03:55: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 02 Jun 2019 20:03:55: 24000000 INFO @ Sun, 02 Jun 2019 20:03:57: 24000000 INFO @ Sun, 02 Jun 2019 20:04:03: 25000000 INFO @ Sun, 02 Jun 2019 20:04:04: 25000000 INFO @ Sun, 02 Jun 2019 20:04:09: #1 tag size is determined as 36 bps INFO @ Sun, 02 Jun 2019 20:04:09: #1 tag size = 36 INFO @ Sun, 02 Jun 2019 20:04:09: #1 total tags in treatment: 25905301 INFO @ Sun, 02 Jun 2019 20:04:09: #1 user defined the maximum tags... INFO @ Sun, 02 Jun 2019 20:04:09: #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 20:04:10: #1 tags after filtering in treatment: 25905301 INFO @ Sun, 02 Jun 2019 20:04:10: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 02 Jun 2019 20:04:10: #1 finished! INFO @ Sun, 02 Jun 2019 20:04:10: #2 Build Peak Model... INFO @ Sun, 02 Jun 2019 20:04:10: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 02 Jun 2019 20:04:11: #1 tag size is determined as 36 bps INFO @ Sun, 02 Jun 2019 20:04:11: #1 tag size = 36 INFO @ Sun, 02 Jun 2019 20:04:11: #1 total tags in treatment: 25905301 INFO @ Sun, 02 Jun 2019 20:04:11: #1 user defined the maximum tags... INFO @ Sun, 02 Jun 2019 20:04:11: #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 20:04:12: #1 tags after filtering in treatment: 25905301 INFO @ Sun, 02 Jun 2019 20:04:12: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 02 Jun 2019 20:04:12: #1 finished! INFO @ Sun, 02 Jun 2019 20:04:12: #2 Build Peak Model... INFO @ Sun, 02 Jun 2019 20:04:12: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 02 Jun 2019 20:04:13: #2 number of paired peaks: 143 WARNING @ Sun, 02 Jun 2019 20:04:13: Fewer paired peaks (143) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 143 pairs to build model! INFO @ Sun, 02 Jun 2019 20:04:13: start model_add_line... INFO @ Sun, 02 Jun 2019 20:04:13: start X-correlation... INFO @ Sun, 02 Jun 2019 20:04:13: end of X-cor INFO @ Sun, 02 Jun 2019 20:04:13: #2 finished! INFO @ Sun, 02 Jun 2019 20:04:13: #2 predicted fragment length is 0 bps INFO @ Sun, 02 Jun 2019 20:04:13: #2 alternative fragment length(s) may be 0,24,296,357,509,554,568 bps INFO @ Sun, 02 Jun 2019 20:04:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX494844/SRX494844.10_model.r WARNING @ Sun, 02 Jun 2019 20:04:13: #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 20:04:13: #2 You may need to consider one of the other alternative d(s): 0,24,296,357,509,554,568 WARNING @ Sun, 02 Jun 2019 20:04:13: #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 20:04:13: #3 Call peaks... INFO @ Sun, 02 Jun 2019 20:04:13: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 02 Jun 2019 20:04:14: #2 number of paired peaks: 143 WARNING @ Sun, 02 Jun 2019 20:04:14: Fewer paired peaks (143) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 143 pairs to build model! INFO @ Sun, 02 Jun 2019 20:04:14: start model_add_line... INFO @ Sun, 02 Jun 2019 20:04:15: start X-correlation... INFO @ Sun, 02 Jun 2019 20:04:15: end of X-cor INFO @ Sun, 02 Jun 2019 20:04:15: #2 finished! INFO @ Sun, 02 Jun 2019 20:04:15: #2 predicted fragment length is 0 bps INFO @ Sun, 02 Jun 2019 20:04:15: #2 alternative fragment length(s) may be 0,24,296,357,509,554,568 bps INFO @ Sun, 02 Jun 2019 20:04:15: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX494844/SRX494844.20_model.r WARNING @ Sun, 02 Jun 2019 20:04:15: #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 20:04:15: #2 You may need to consider one of the other alternative d(s): 0,24,296,357,509,554,568 WARNING @ Sun, 02 Jun 2019 20:04:15: #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 20:04:15: #3 Call peaks... INFO @ Sun, 02 Jun 2019 20:04:15: #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 SRX494844.05.bed: No such file or directory mv: cannot stat ‘SRX494844.05.bed’: No such file or directory /var/spool/uge/at102/job_scripts/1292593: line 321: 17787 Terminated MACS $i /var/spool/uge/at102/job_scripts/1292593: line 321: 17788 Terminated MACS $i /var/spool/uge/at102/job_scripts/1292593: line 321: 17789 Terminated MACS $i mv: cannot stat ‘SRX494844.05.bb’: No such file or directory ls: cannot access SRX494844.10.bed: No such file or directory mv: cannot stat ‘SRX494844.10.bed’: No such file or directory mv: cannot stat ‘SRX494844.10.bb’: No such file or directory ls: cannot access SRX494844.20.bed: No such file or directory mv: cannot stat ‘SRX494844.20.bed’: No such file or directory mv: cannot stat ‘SRX494844.20.bb’: No such file or directory