Job ID = 6530035 SRX = SRX6468496 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: 00:08:30 32288188 reads; of these: 32288188 (100.00%) were unpaired; of these: 3497181 (10.83%) aligned 0 times 20116060 (62.30%) aligned exactly 1 time 8674947 (26.87%) aligned >1 times 89.17% overall alignment rate Time searching: 00:08:30 Overall time: 00:08:30 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 12 files... [bam_rmdupse_core] 10973448 / 28791007 = 0.3811 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 03:12:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6468496/SRX6468496.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6468496/SRX6468496.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6468496/SRX6468496.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6468496/SRX6468496.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 03:12:51: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:12:51: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:12:58: 1000000 INFO @ Tue, 30 Jun 2020 03:13:04: 2000000 INFO @ Tue, 30 Jun 2020 03:13:11: 3000000 INFO @ Tue, 30 Jun 2020 03:13:17: 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 03:13:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6468496/SRX6468496.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6468496/SRX6468496.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6468496/SRX6468496.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6468496/SRX6468496.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 03:13:21: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:13:21: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:13:24: 5000000 INFO @ Tue, 30 Jun 2020 03:13:27: 1000000 INFO @ Tue, 30 Jun 2020 03:13:30: 6000000 INFO @ Tue, 30 Jun 2020 03:13:33: 2000000 INFO @ Tue, 30 Jun 2020 03:13:37: 7000000 INFO @ Tue, 30 Jun 2020 03:13:39: 3000000 INFO @ Tue, 30 Jun 2020 03:13:44: 8000000 INFO @ Tue, 30 Jun 2020 03:13:45: 4000000 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 03:13:51: 9000000 INFO @ Tue, 30 Jun 2020 03:13:51: 5000000 INFO @ Tue, 30 Jun 2020 03:13:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6468496/SRX6468496.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6468496/SRX6468496.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6468496/SRX6468496.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6468496/SRX6468496.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 03:13:51: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:13:51: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:13:57: 6000000 INFO @ Tue, 30 Jun 2020 03:13:57: 1000000 INFO @ Tue, 30 Jun 2020 03:13:58: 10000000 INFO @ Tue, 30 Jun 2020 03:14:04: 7000000 INFO @ Tue, 30 Jun 2020 03:14:04: 2000000 INFO @ Tue, 30 Jun 2020 03:14:04: 11000000 INFO @ Tue, 30 Jun 2020 03:14:10: 8000000 INFO @ Tue, 30 Jun 2020 03:14:10: 3000000 INFO @ Tue, 30 Jun 2020 03:14:11: 12000000 INFO @ Tue, 30 Jun 2020 03:14:16: 9000000 INFO @ Tue, 30 Jun 2020 03:14:16: 4000000 INFO @ Tue, 30 Jun 2020 03:14:17: 13000000 INFO @ Tue, 30 Jun 2020 03:14:22: 10000000 INFO @ Tue, 30 Jun 2020 03:14:22: 5000000 INFO @ Tue, 30 Jun 2020 03:14:24: 14000000 INFO @ Tue, 30 Jun 2020 03:14:28: 11000000 INFO @ Tue, 30 Jun 2020 03:14:28: 6000000 INFO @ Tue, 30 Jun 2020 03:14:31: 15000000 INFO @ Tue, 30 Jun 2020 03:14:34: 12000000 INFO @ Tue, 30 Jun 2020 03:14:34: 7000000 INFO @ Tue, 30 Jun 2020 03:14:38: 16000000 INFO @ Tue, 30 Jun 2020 03:14:40: 13000000 INFO @ Tue, 30 Jun 2020 03:14:40: 8000000 INFO @ Tue, 30 Jun 2020 03:14:44: 17000000 INFO @ Tue, 30 Jun 2020 03:14:46: 14000000 INFO @ Tue, 30 Jun 2020 03:14:46: 9000000 INFO @ Tue, 30 Jun 2020 03:14:50: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:14:50: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:14:50: #1 total tags in treatment: 17817559 INFO @ Tue, 30 Jun 2020 03:14:50: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:14:50: #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 03:14:51: #1 tags after filtering in treatment: 17817559 INFO @ Tue, 30 Jun 2020 03:14:51: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:14:51: #1 finished! INFO @ Tue, 30 Jun 2020 03:14:51: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:14:51: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:14:52: #2 number of paired peaks: 108 WARNING @ Tue, 30 Jun 2020 03:14:52: Fewer paired peaks (108) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 108 pairs to build model! INFO @ Tue, 30 Jun 2020 03:14:52: start model_add_line... INFO @ Tue, 30 Jun 2020 03:14:52: start X-correlation... INFO @ Tue, 30 Jun 2020 03:14:52: end of X-cor INFO @ Tue, 30 Jun 2020 03:14:52: #2 finished! INFO @ Tue, 30 Jun 2020 03:14:52: #2 predicted fragment length is 0 bps INFO @ Tue, 30 Jun 2020 03:14:52: #2 alternative fragment length(s) may be 0,23,41 bps INFO @ Tue, 30 Jun 2020 03:14:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6468496/SRX6468496.05_model.r WARNING @ Tue, 30 Jun 2020 03:14:52: #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 03:14:52: #2 You may need to consider one of the other alternative d(s): 0,23,41 WARNING @ Tue, 30 Jun 2020 03:14:52: #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 03:14:52: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:14:52: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:14:52: 10000000 INFO @ Tue, 30 Jun 2020 03:14:52: 15000000 INFO @ Tue, 30 Jun 2020 03:14:58: 11000000 INFO @ Tue, 30 Jun 2020 03:14:58: 16000000 INFO @ Tue, 30 Jun 2020 03:15:03: 12000000 INFO @ Tue, 30 Jun 2020 03:15:04: 17000000 INFO @ Tue, 30 Jun 2020 03:15:09: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:15:09: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:15:09: #1 total tags in treatment: 17817559 INFO @ Tue, 30 Jun 2020 03:15:09: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:15:09: #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 03:15:09: 13000000 INFO @ Tue, 30 Jun 2020 03:15:09: #1 tags after filtering in treatment: 17817559 INFO @ Tue, 30 Jun 2020 03:15:09: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:15:09: #1 finished! INFO @ Tue, 30 Jun 2020 03:15:09: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:15:09: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:15:10: #2 number of paired peaks: 108 WARNING @ Tue, 30 Jun 2020 03:15:10: Fewer paired peaks (108) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 108 pairs to build model! INFO @ Tue, 30 Jun 2020 03:15:10: start model_add_line... INFO @ Tue, 30 Jun 2020 03:15:11: start X-correlation... INFO @ Tue, 30 Jun 2020 03:15:11: end of X-cor INFO @ Tue, 30 Jun 2020 03:15:11: #2 finished! INFO @ Tue, 30 Jun 2020 03:15:11: #2 predicted fragment length is 0 bps INFO @ Tue, 30 Jun 2020 03:15:11: #2 alternative fragment length(s) may be 0,23,41 bps INFO @ Tue, 30 Jun 2020 03:15:11: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6468496/SRX6468496.10_model.r WARNING @ Tue, 30 Jun 2020 03:15:11: #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 03:15:11: #2 You may need to consider one of the other alternative d(s): 0,23,41 WARNING @ Tue, 30 Jun 2020 03:15:11: #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 03:15:11: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:15:11: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 03:15:15: 14000000 INFO @ Tue, 30 Jun 2020 03:15:20: 15000000 INFO @ Tue, 30 Jun 2020 03:15:25: 16000000 INFO @ Tue, 30 Jun 2020 03:15:31: 17000000 INFO @ Tue, 30 Jun 2020 03:15:35: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:15:35: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:15:35: #1 total tags in treatment: 17817559 INFO @ Tue, 30 Jun 2020 03:15:35: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:15:35: #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 03:15:36: #1 tags after filtering in treatment: 17817559 INFO @ Tue, 30 Jun 2020 03:15:36: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:15:36: #1 finished! INFO @ Tue, 30 Jun 2020 03:15:36: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:15:36: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:15:37: #2 number of paired peaks: 108 WARNING @ Tue, 30 Jun 2020 03:15:37: Fewer paired peaks (108) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 108 pairs to build model! INFO @ Tue, 30 Jun 2020 03:15:37: start model_add_line... INFO @ Tue, 30 Jun 2020 03:15:37: start X-correlation... INFO @ Tue, 30 Jun 2020 03:15:37: end of X-cor INFO @ Tue, 30 Jun 2020 03:15:37: #2 finished! INFO @ Tue, 30 Jun 2020 03:15:37: #2 predicted fragment length is 0 bps INFO @ Tue, 30 Jun 2020 03:15:37: #2 alternative fragment length(s) may be 0,23,41 bps INFO @ Tue, 30 Jun 2020 03:15:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6468496/SRX6468496.20_model.r WARNING @ Tue, 30 Jun 2020 03:15:37: #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 03:15:37: #2 You may need to consider one of the other alternative d(s): 0,23,41 WARNING @ Tue, 30 Jun 2020 03:15:37: #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 03:15:37: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:15:37: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 /var/spool/uge/at158/job_scripts/6530035: line 293: 40119 Terminated MACS $i /var/spool/uge/at158/job_scripts/6530035: line 293: 55173 Terminated MACS $i /var/spool/uge/at158/job_scripts/6530035: line 293: 92821 Terminated MACS $i ls: cannot access SRX6468496.05.bed: No such file or directory mv: cannot stat ‘SRX6468496.05.bed’: No such file or directory mv: cannot stat ‘SRX6468496.05.bb’: No such file or directory ls: cannot access SRX6468496.10.bed: No such file or directory mv: cannot stat ‘SRX6468496.10.bed’: No such file or directory mv: cannot stat ‘SRX6468496.10.bb’: No such file or directory ls: cannot access SRX6468496.20.bed: No such file or directory mv: cannot stat ‘SRX6468496.20.bed’: No such file or directory mv: cannot stat ‘SRX6468496.20.bb’: No such file or directory