Job ID = 6530057 SRX = SRX685466 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 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: 00:13:13 45263312 reads; of these: 45263312 (100.00%) were unpaired; of these: 1495052 (3.30%) aligned 0 times 29468649 (65.10%) aligned exactly 1 time 14299611 (31.59%) aligned >1 times 96.70% overall alignment rate Time searching: 00:13:13 Overall time: 00:13:13 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_sort_core] merging from 20 files... [bam_rmdupse_core] 9579132 / 43768260 = 0.2189 in library ' ' BAM に変換しました。 Bed ファイルを作成中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 30 Jun 2020 03:26:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX685466/SRX685466.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX685466/SRX685466.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX685466/SRX685466.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX685466/SRX685466.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 30 Jun 2020 03:26:33: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:26:33: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:26:39: 1000000 INFO @ Tue, 30 Jun 2020 03:26:45: 2000000 INFO @ Tue, 30 Jun 2020 03:26:51: 3000000 INFO @ Tue, 30 Jun 2020 03:26:57: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 30 Jun 2020 03:27:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX685466/SRX685466.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX685466/SRX685466.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX685466/SRX685466.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX685466/SRX685466.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 30 Jun 2020 03:27:03: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:27:03: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:27:03: 5000000 INFO @ Tue, 30 Jun 2020 03:27:10: 1000000 INFO @ Tue, 30 Jun 2020 03:27:10: 6000000 INFO @ Tue, 30 Jun 2020 03:27:16: 2000000 INFO @ Tue, 30 Jun 2020 03:27:17: 7000000 INFO @ Tue, 30 Jun 2020 03:27:23: 3000000 INFO @ Tue, 30 Jun 2020 03:27:23: 8000000 INFO @ Tue, 30 Jun 2020 03:27:30: 4000000 INFO @ Tue, 30 Jun 2020 03:27:30: 9000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 30 Jun 2020 03:27:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX685466/SRX685466.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX685466/SRX685466.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX685466/SRX685466.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX685466/SRX685466.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 30 Jun 2020 03:27:33: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:27:33: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:27:37: 10000000 INFO @ Tue, 30 Jun 2020 03:27:37: 5000000 INFO @ Tue, 30 Jun 2020 03:27:40: 1000000 INFO @ Tue, 30 Jun 2020 03:27:44: 11000000 INFO @ Tue, 30 Jun 2020 03:27:45: 6000000 INFO @ Tue, 30 Jun 2020 03:27:48: 2000000 INFO @ Tue, 30 Jun 2020 03:27:52: 12000000 INFO @ Tue, 30 Jun 2020 03:27:52: 7000000 INFO @ Tue, 30 Jun 2020 03:27:55: 3000000 INFO @ Tue, 30 Jun 2020 03:27:59: 13000000 INFO @ Tue, 30 Jun 2020 03:28:00: 8000000 INFO @ Tue, 30 Jun 2020 03:28:03: 4000000 INFO @ Tue, 30 Jun 2020 03:28:06: 14000000 INFO @ Tue, 30 Jun 2020 03:28:07: 9000000 INFO @ Tue, 30 Jun 2020 03:28:10: 5000000 INFO @ Tue, 30 Jun 2020 03:28:13: 15000000 INFO @ Tue, 30 Jun 2020 03:28:14: 10000000 INFO @ Tue, 30 Jun 2020 03:28:18: 6000000 INFO @ Tue, 30 Jun 2020 03:28:21: 16000000 INFO @ Tue, 30 Jun 2020 03:28:22: 11000000 INFO @ Tue, 30 Jun 2020 03:28:25: 7000000 INFO @ Tue, 30 Jun 2020 03:28:28: 17000000 INFO @ Tue, 30 Jun 2020 03:28:29: 12000000 INFO @ Tue, 30 Jun 2020 03:28:32: 8000000 INFO @ Tue, 30 Jun 2020 03:28:35: 18000000 INFO @ Tue, 30 Jun 2020 03:28:37: 13000000 INFO @ Tue, 30 Jun 2020 03:28:40: 9000000 INFO @ Tue, 30 Jun 2020 03:28:43: 19000000 INFO @ Tue, 30 Jun 2020 03:28:44: 14000000 INFO @ Tue, 30 Jun 2020 03:28:47: 10000000 INFO @ Tue, 30 Jun 2020 03:28:50: 20000000 INFO @ Tue, 30 Jun 2020 03:28:51: 15000000 INFO @ Tue, 30 Jun 2020 03:28:54: 11000000 INFO @ Tue, 30 Jun 2020 03:28:57: 21000000 INFO @ Tue, 30 Jun 2020 03:28:59: 16000000 INFO @ Tue, 30 Jun 2020 03:29:01: 12000000 INFO @ Tue, 30 Jun 2020 03:29:04: 22000000 INFO @ Tue, 30 Jun 2020 03:29:06: 17000000 INFO @ Tue, 30 Jun 2020 03:29:08: 13000000 INFO @ Tue, 30 Jun 2020 03:29:11: 23000000 INFO @ Tue, 30 Jun 2020 03:29:14: 18000000 INFO @ Tue, 30 Jun 2020 03:29:16: 14000000 INFO @ Tue, 30 Jun 2020 03:29:18: 24000000 INFO @ Tue, 30 Jun 2020 03:29:21: 19000000 INFO @ Tue, 30 Jun 2020 03:29:23: 15000000 INFO @ Tue, 30 Jun 2020 03:29:25: 25000000 INFO @ Tue, 30 Jun 2020 03:29:28: 20000000 INFO @ Tue, 30 Jun 2020 03:29:30: 16000000 INFO @ Tue, 30 Jun 2020 03:29:33: 26000000 INFO @ Tue, 30 Jun 2020 03:29:36: 21000000 INFO @ Tue, 30 Jun 2020 03:29:37: 17000000 INFO @ Tue, 30 Jun 2020 03:29:40: 27000000 INFO @ Tue, 30 Jun 2020 03:29:43: 22000000 INFO @ Tue, 30 Jun 2020 03:29:45: 18000000 INFO @ Tue, 30 Jun 2020 03:29:47: 28000000 INFO @ Tue, 30 Jun 2020 03:29:50: 23000000 INFO @ Tue, 30 Jun 2020 03:29:52: 19000000 INFO @ Tue, 30 Jun 2020 03:29:55: 29000000 INFO @ Tue, 30 Jun 2020 03:29:57: 24000000 INFO @ Tue, 30 Jun 2020 03:29:59: 20000000 INFO @ Tue, 30 Jun 2020 03:30:02: 30000000 INFO @ Tue, 30 Jun 2020 03:30:04: 25000000 INFO @ Tue, 30 Jun 2020 03:30:06: 21000000 INFO @ Tue, 30 Jun 2020 03:30:10: 31000000 INFO @ Tue, 30 Jun 2020 03:30:12: 26000000 INFO @ Tue, 30 Jun 2020 03:30:13: 22000000 INFO @ Tue, 30 Jun 2020 03:30:17: 32000000 INFO @ Tue, 30 Jun 2020 03:30:19: 27000000 INFO @ Tue, 30 Jun 2020 03:30:20: 23000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 03:30:24: 33000000 INFO @ Tue, 30 Jun 2020 03:30:27: 28000000 INFO @ Tue, 30 Jun 2020 03:30:27: 24000000 INFO @ Tue, 30 Jun 2020 03:30:32: 34000000 INFO @ Tue, 30 Jun 2020 03:30:33: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:30:33: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:30:33: #1 total tags in treatment: 34189128 INFO @ Tue, 30 Jun 2020 03:30:33: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:30:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 03:30:34: 25000000 INFO @ Tue, 30 Jun 2020 03:30:34: #1 tags after filtering in treatment: 34189091 INFO @ Tue, 30 Jun 2020 03:30:34: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:30:34: #1 finished! INFO @ Tue, 30 Jun 2020 03:30:34: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:30:34: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:30:35: 29000000 INFO @ Tue, 30 Jun 2020 03:30:37: #2 number of paired peaks: 305 WARNING @ Tue, 30 Jun 2020 03:30:37: Fewer paired peaks (305) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 305 pairs to build model! INFO @ Tue, 30 Jun 2020 03:30:37: start model_add_line... INFO @ Tue, 30 Jun 2020 03:30:37: start X-correlation... INFO @ Tue, 30 Jun 2020 03:30:37: end of X-cor INFO @ Tue, 30 Jun 2020 03:30:37: #2 finished! INFO @ Tue, 30 Jun 2020 03:30:37: #2 predicted fragment length is 0 bps INFO @ Tue, 30 Jun 2020 03:30:37: #2 alternative fragment length(s) may be 0,22,43,46 bps INFO @ Tue, 30 Jun 2020 03:30:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX685466/SRX685466.05_model.r WARNING @ Tue, 30 Jun 2020 03:30:37: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 03:30:37: #2 You may need to consider one of the other alternative d(s): 0,22,43,46 WARNING @ Tue, 30 Jun 2020 03:30:37: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 30 Jun 2020 03:30:37: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:30:37: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:30:41: 26000000 INFO @ Tue, 30 Jun 2020 03:30:42: 30000000 INFO @ Tue, 30 Jun 2020 03:30:48: 27000000 INFO @ Tue, 30 Jun 2020 03:30:48: 31000000 INFO @ Tue, 30 Jun 2020 03:30:54: 28000000 INFO @ Tue, 30 Jun 2020 03:30:55: 32000000 INFO @ Tue, 30 Jun 2020 03:31:02: 29000000 INFO @ Tue, 30 Jun 2020 03:31:02: 33000000 INFO @ Tue, 30 Jun 2020 03:31:08: 30000000 INFO @ Tue, 30 Jun 2020 03:31:09: 34000000 INFO @ Tue, 30 Jun 2020 03:31:11: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:31:11: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:31:11: #1 total tags in treatment: 34189128 INFO @ Tue, 30 Jun 2020 03:31:11: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:31:11: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 03:31:12: #1 tags after filtering in treatment: 34189091 INFO @ Tue, 30 Jun 2020 03:31:12: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:31:12: #1 finished! INFO @ Tue, 30 Jun 2020 03:31:12: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:31:12: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:31:14: #2 number of paired peaks: 305 WARNING @ Tue, 30 Jun 2020 03:31:14: Fewer paired peaks (305) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 305 pairs to build model! INFO @ Tue, 30 Jun 2020 03:31:14: start model_add_line... INFO @ Tue, 30 Jun 2020 03:31:14: start X-correlation... INFO @ Tue, 30 Jun 2020 03:31:14: end of X-cor INFO @ Tue, 30 Jun 2020 03:31:14: #2 finished! INFO @ Tue, 30 Jun 2020 03:31:14: #2 predicted fragment length is 0 bps INFO @ Tue, 30 Jun 2020 03:31:14: #2 alternative fragment length(s) may be 0,22,43,46 bps INFO @ Tue, 30 Jun 2020 03:31:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX685466/SRX685466.10_model.r WARNING @ Tue, 30 Jun 2020 03:31:14: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 03:31:14: #2 You may need to consider one of the other alternative d(s): 0,22,43,46 WARNING @ Tue, 30 Jun 2020 03:31:14: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 30 Jun 2020 03:31:14: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:31:14: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:31:14: 31000000 INFO @ Tue, 30 Jun 2020 03:31:20: 32000000 INFO @ Tue, 30 Jun 2020 03:31:26: 33000000 INFO @ Tue, 30 Jun 2020 03:31:33: 34000000 INFO @ Tue, 30 Jun 2020 03:31:34: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:31:34: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:31:34: #1 total tags in treatment: 34189128 INFO @ Tue, 30 Jun 2020 03:31:34: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:31:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 03:31:35: #1 tags after filtering in treatment: 34189091 INFO @ Tue, 30 Jun 2020 03:31:35: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:31:35: #1 finished! INFO @ Tue, 30 Jun 2020 03:31:35: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:31:35: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:31:37: #2 number of paired peaks: 305 WARNING @ Tue, 30 Jun 2020 03:31:37: Fewer paired peaks (305) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 305 pairs to build model! INFO @ Tue, 30 Jun 2020 03:31:37: start model_add_line... INFO @ Tue, 30 Jun 2020 03:31:38: start X-correlation... INFO @ Tue, 30 Jun 2020 03:31:38: end of X-cor INFO @ Tue, 30 Jun 2020 03:31:38: #2 finished! INFO @ Tue, 30 Jun 2020 03:31:38: #2 predicted fragment length is 0 bps INFO @ Tue, 30 Jun 2020 03:31:38: #2 alternative fragment length(s) may be 0,22,43,46 bps INFO @ Tue, 30 Jun 2020 03:31:38: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX685466/SRX685466.20_model.r WARNING @ Tue, 30 Jun 2020 03:31:38: #2 Since the d (0) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 03:31:38: #2 You may need to consider one of the other alternative d(s): 0,22,43,46 WARNING @ Tue, 30 Jun 2020 03:31:38: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 30 Jun 2020 03:31:38: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:31:38: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 /var/spool/uge/it029/job_scripts/6530057: line 293: 2150 Terminated MACS $i /var/spool/uge/it029/job_scripts/6530057: line 293: 11507 Terminated MACS $i /var/spool/uge/it029/job_scripts/6530057: line 293: 11622 Terminated MACS $i ls: cannot access SRX685466.05.bed: No such file or directory mv: cannot stat ‘SRX685466.05.bed’: No such file or directory mv: cannot stat ‘SRX685466.05.bb’: No such file or directory ls: cannot access SRX685466.10.bed: No such file or directory mv: cannot stat ‘SRX685466.10.bed’: No such file or directory mv: cannot stat ‘SRX685466.10.bb’: No such file or directory ls: cannot access SRX685466.20.bed: No such file or directory mv: cannot stat ‘SRX685466.20.bed’: No such file or directory mv: cannot stat ‘SRX685466.20.bb’: No such file or directory