Job ID = 1292510 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: 00:05:55 30788149 reads; of these: 30788149 (100.00%) were unpaired; of these: 171794 (0.56%) aligned 0 times 25273703 (82.09%) aligned exactly 1 time 5342652 (17.35%) aligned >1 times 99.44% overall alignment rate Time searching: 00:05:55 Overall time: 00:05:55 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] 4711617 / 30616355 = 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 19:34:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX466523/SRX466523.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX466523/SRX466523.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX466523/SRX466523.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX466523/SRX466523.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 19:34:26: #1 read tag files... INFO @ Sun, 02 Jun 2019 19:34:26: #1 read treatment tags... INFO @ Sun, 02 Jun 2019 19:34:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX466523/SRX466523.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX466523/SRX466523.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX466523/SRX466523.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX466523/SRX466523.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 19:34:26: #1 read tag files... INFO @ Sun, 02 Jun 2019 19:34:26: #1 read treatment tags... INFO @ Sun, 02 Jun 2019 19:34:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX466523/SRX466523.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX466523/SRX466523.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX466523/SRX466523.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX466523/SRX466523.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 19:34:26: #1 read tag files... INFO @ Sun, 02 Jun 2019 19:34:26: #1 read treatment tags... INFO @ Sun, 02 Jun 2019 19:34:33: 1000000 INFO @ Sun, 02 Jun 2019 19:34:35: 1000000 INFO @ Sun, 02 Jun 2019 19:34:36: 1000000 INFO @ Sun, 02 Jun 2019 19:34:39: 2000000 INFO @ Sun, 02 Jun 2019 19:34:44: 2000000 INFO @ Sun, 02 Jun 2019 19:34:45: 2000000 INFO @ Sun, 02 Jun 2019 19:34:46: 3000000 INFO @ Sun, 02 Jun 2019 19:34:52: 3000000 INFO @ Sun, 02 Jun 2019 19:34:53: 4000000 INFO @ Sun, 02 Jun 2019 19:34:54: 3000000 INFO @ Sun, 02 Jun 2019 19:34:59: 5000000 INFO @ Sun, 02 Jun 2019 19:35:00: 4000000 INFO @ Sun, 02 Jun 2019 19:35:03: 4000000 INFO @ Sun, 02 Jun 2019 19:35:06: 6000000 INFO @ Sun, 02 Jun 2019 19:35:08: 5000000 INFO @ Sun, 02 Jun 2019 19:35:12: 5000000 INFO @ Sun, 02 Jun 2019 19:35:12: 7000000 INFO @ Sun, 02 Jun 2019 19:35:16: 6000000 INFO @ Sun, 02 Jun 2019 19:35:19: 8000000 INFO @ Sun, 02 Jun 2019 19:35:21: 6000000 INFO @ Sun, 02 Jun 2019 19:35:24: 7000000 INFO @ Sun, 02 Jun 2019 19:35:25: 9000000 INFO @ Sun, 02 Jun 2019 19:35:30: 7000000 INFO @ Sun, 02 Jun 2019 19:35:32: 10000000 INFO @ Sun, 02 Jun 2019 19:35:32: 8000000 INFO @ Sun, 02 Jun 2019 19:35:39: 11000000 INFO @ Sun, 02 Jun 2019 19:35:39: 8000000 INFO @ Sun, 02 Jun 2019 19:35:40: 9000000 INFO @ Sun, 02 Jun 2019 19:35:45: 12000000 INFO @ Sun, 02 Jun 2019 19:35:48: 9000000 INFO @ Sun, 02 Jun 2019 19:35:49: 10000000 INFO @ Sun, 02 Jun 2019 19:35:52: 13000000 INFO @ Sun, 02 Jun 2019 19:35:57: 11000000 INFO @ Sun, 02 Jun 2019 19:35:57: 10000000 INFO @ Sun, 02 Jun 2019 19:35:58: 14000000 INFO @ Sun, 02 Jun 2019 19:36:05: 12000000 INFO @ Sun, 02 Jun 2019 19:36:05: 15000000 INFO @ Sun, 02 Jun 2019 19:36:06: 11000000 INFO @ Sun, 02 Jun 2019 19:36:12: 16000000 INFO @ Sun, 02 Jun 2019 19:36:13: 13000000 INFO @ Sun, 02 Jun 2019 19:36:15: 12000000 INFO @ Sun, 02 Jun 2019 19:36:19: 17000000 INFO @ Sun, 02 Jun 2019 19:36:21: 14000000 INFO @ Sun, 02 Jun 2019 19:36:25: 13000000 INFO @ Sun, 02 Jun 2019 19:36:25: 18000000 INFO @ Sun, 02 Jun 2019 19:36:29: 15000000 INFO @ Sun, 02 Jun 2019 19:36:32: 19000000 INFO @ Sun, 02 Jun 2019 19:36:34: 14000000 INFO @ Sun, 02 Jun 2019 19:36:37: 16000000 INFO @ Sun, 02 Jun 2019 19:36:38: 20000000 INFO @ Sun, 02 Jun 2019 19:36:43: 15000000 INFO @ Sun, 02 Jun 2019 19:36:45: 17000000 INFO @ Sun, 02 Jun 2019 19:36:45: 21000000 INFO @ Sun, 02 Jun 2019 19:36:51: 22000000 INFO @ Sun, 02 Jun 2019 19:36:52: 16000000 INFO @ Sun, 02 Jun 2019 19:36:53: 18000000 INFO @ Sun, 02 Jun 2019 19:36:58: 23000000 INFO @ Sun, 02 Jun 2019 19:37:01: 17000000 INFO @ Sun, 02 Jun 2019 19:37:01: 19000000 INFO @ Sun, 02 Jun 2019 19:37:05: 24000000 INFO @ Sun, 02 Jun 2019 19:37:09: 20000000 INFO @ Sun, 02 Jun 2019 19:37:10: 18000000 INFO @ Sun, 02 Jun 2019 19:37:11: 25000000 INFO @ Sun, 02 Jun 2019 19:37:17: 21000000 INFO @ Sun, 02 Jun 2019 19:37:17: #1 tag size is determined as 36 bps INFO @ Sun, 02 Jun 2019 19:37:17: #1 tag size = 36 INFO @ Sun, 02 Jun 2019 19:37:17: #1 total tags in treatment: 25904738 INFO @ Sun, 02 Jun 2019 19:37:17: #1 user defined the maximum tags... INFO @ Sun, 02 Jun 2019 19:37:17: #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 19:37:18: #1 tags after filtering in treatment: 25904738 INFO @ Sun, 02 Jun 2019 19:37:18: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 02 Jun 2019 19:37:18: #1 finished! INFO @ Sun, 02 Jun 2019 19:37:18: #2 Build Peak Model... INFO @ Sun, 02 Jun 2019 19:37:18: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 02 Jun 2019 19:37:19: 19000000 INFO @ Sun, 02 Jun 2019 19:37:20: #2 number of paired peaks: 151 WARNING @ Sun, 02 Jun 2019 19:37:20: Fewer paired peaks (151) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 151 pairs to build model! INFO @ Sun, 02 Jun 2019 19:37:20: start model_add_line... INFO @ Sun, 02 Jun 2019 19:37:20: start X-correlation... INFO @ Sun, 02 Jun 2019 19:37:20: end of X-cor INFO @ Sun, 02 Jun 2019 19:37:20: #2 finished! INFO @ Sun, 02 Jun 2019 19:37:20: #2 predicted fragment length is 0 bps INFO @ Sun, 02 Jun 2019 19:37:20: #2 alternative fragment length(s) may be 0,12,30,412,472,497 bps INFO @ Sun, 02 Jun 2019 19:37:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX466523/SRX466523.05_model.r WARNING @ Sun, 02 Jun 2019 19:37:20: #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 19:37:20: #2 You may need to consider one of the other alternative d(s): 0,12,30,412,472,497 WARNING @ Sun, 02 Jun 2019 19:37:20: #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 19:37:20: #3 Call peaks... INFO @ Sun, 02 Jun 2019 19:37:20: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 02 Jun 2019 19:37:25: 22000000 INFO @ Sun, 02 Jun 2019 19:37:28: 20000000 INFO @ Sun, 02 Jun 2019 19:37:33: 23000000 INFO @ Sun, 02 Jun 2019 19:37:37: 21000000 INFO @ Sun, 02 Jun 2019 19:37:41: 24000000 INFO @ Sun, 02 Jun 2019 19:37:46: 22000000 INFO @ Sun, 02 Jun 2019 19:37:49: 25000000 INFO @ Sun, 02 Jun 2019 19:37:55: 23000000 INFO @ Sun, 02 Jun 2019 19:37:56: #1 tag size is determined as 36 bps INFO @ Sun, 02 Jun 2019 19:37:56: #1 tag size = 36 INFO @ Sun, 02 Jun 2019 19:37:56: #1 total tags in treatment: 25904738 INFO @ Sun, 02 Jun 2019 19:37:56: #1 user defined the maximum tags... INFO @ Sun, 02 Jun 2019 19:37:56: #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 19:37:57: #1 tags after filtering in treatment: 25904738 INFO @ Sun, 02 Jun 2019 19:37:57: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 02 Jun 2019 19:37:57: #1 finished! INFO @ Sun, 02 Jun 2019 19:37:57: #2 Build Peak Model... INFO @ Sun, 02 Jun 2019 19:37:57: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 02 Jun 2019 19:37:59: #2 number of paired peaks: 151 WARNING @ Sun, 02 Jun 2019 19:37:59: Fewer paired peaks (151) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 151 pairs to build model! INFO @ Sun, 02 Jun 2019 19:37:59: start model_add_line... INFO @ Sun, 02 Jun 2019 19:37:59: start X-correlation... INFO @ Sun, 02 Jun 2019 19:37:59: end of X-cor INFO @ Sun, 02 Jun 2019 19:37:59: #2 finished! INFO @ Sun, 02 Jun 2019 19:37:59: #2 predicted fragment length is 0 bps INFO @ Sun, 02 Jun 2019 19:37:59: #2 alternative fragment length(s) may be 0,12,30,412,472,497 bps INFO @ Sun, 02 Jun 2019 19:37:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX466523/SRX466523.10_model.r WARNING @ Sun, 02 Jun 2019 19:37:59: #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 19:37:59: #2 You may need to consider one of the other alternative d(s): 0,12,30,412,472,497 WARNING @ Sun, 02 Jun 2019 19:37:59: #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 19:37:59: #3 Call peaks... INFO @ Sun, 02 Jun 2019 19:37:59: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 02 Jun 2019 19:38:04: 24000000 INFO @ Sun, 02 Jun 2019 19:38:13: 25000000 INFO @ Sun, 02 Jun 2019 19:38:21: #1 tag size is determined as 36 bps INFO @ Sun, 02 Jun 2019 19:38:21: #1 tag size = 36 INFO @ Sun, 02 Jun 2019 19:38:21: #1 total tags in treatment: 25904738 INFO @ Sun, 02 Jun 2019 19:38:21: #1 user defined the maximum tags... INFO @ Sun, 02 Jun 2019 19:38:21: #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 19:38:22: #1 tags after filtering in treatment: 25904738 INFO @ Sun, 02 Jun 2019 19:38:22: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 02 Jun 2019 19:38:22: #1 finished! INFO @ Sun, 02 Jun 2019 19:38:22: #2 Build Peak Model... INFO @ Sun, 02 Jun 2019 19:38:22: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 02 Jun 2019 19:38:24: #2 number of paired peaks: 151 WARNING @ Sun, 02 Jun 2019 19:38:24: Fewer paired peaks (151) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 151 pairs to build model! INFO @ Sun, 02 Jun 2019 19:38:24: start model_add_line... INFO @ Sun, 02 Jun 2019 19:38:24: start X-correlation... INFO @ Sun, 02 Jun 2019 19:38:24: end of X-cor INFO @ Sun, 02 Jun 2019 19:38:24: #2 finished! INFO @ Sun, 02 Jun 2019 19:38:24: #2 predicted fragment length is 0 bps INFO @ Sun, 02 Jun 2019 19:38:24: #2 alternative fragment length(s) may be 0,12,30,412,472,497 bps INFO @ Sun, 02 Jun 2019 19:38:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX466523/SRX466523.20_model.r WARNING @ Sun, 02 Jun 2019 19:38:24: #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 19:38:24: #2 You may need to consider one of the other alternative d(s): 0,12,30,412,472,497 WARNING @ Sun, 02 Jun 2019 19:38:24: #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 19:38:24: #3 Call peaks... INFO @ Sun, 02 Jun 2019 19:38:24: #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 SRX466523.05.bed: No such file or directory mv: cannot stat ‘SRX466523.05.bed’: No such file or directory /var/spool/uge/at101/job_scripts/1292510: line 321: 60541 Terminated MACS $i /var/spool/uge/at101/job_scripts/1292510: line 321: 60542 Terminated MACS $i /var/spool/uge/at101/job_scripts/1292510: line 321: 60543 Terminated MACS $i mv: cannot stat ‘SRX466523.05.bb’: No such file or directory ls: cannot access SRX466523.10.bed: No such file or directory mv: cannot stat ‘SRX466523.10.bed’: No such file or directory mv: cannot stat ‘SRX466523.10.bb’: No such file or directory ls: cannot access SRX466523.20.bed: No such file or directory mv: cannot stat ‘SRX466523.20.bed’: No such file or directory mv: cannot stat ‘SRX466523.20.bb’: No such file or directory