Job ID = 6529560 SRX = SRX3167253 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: 00:15:24 51704556 reads; of these: 51704556 (100.00%) were unpaired; of these: 3463153 (6.70%) aligned 0 times 34174265 (66.10%) aligned exactly 1 time 14067138 (27.21%) aligned >1 times 93.30% overall alignment rate Time searching: 00:15:24 Overall time: 00:15:24 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] 10919155 / 48241403 = 0.2263 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 03:00:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3167253/SRX3167253.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3167253/SRX3167253.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3167253/SRX3167253.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3167253/SRX3167253.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 03:00:45: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:00:45: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:00:52: 1000000 INFO @ Tue, 30 Jun 2020 03:00:58: 2000000 INFO @ Tue, 30 Jun 2020 03:01:05: 3000000 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 03:01:13: 4000000 INFO @ Tue, 30 Jun 2020 03:01:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3167253/SRX3167253.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3167253/SRX3167253.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3167253/SRX3167253.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3167253/SRX3167253.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 03:01:13: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:01:13: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:01:20: 5000000 INFO @ Tue, 30 Jun 2020 03:01:21: 1000000 INFO @ Tue, 30 Jun 2020 03:01:27: 6000000 INFO @ Tue, 30 Jun 2020 03:01:28: 2000000 INFO @ Tue, 30 Jun 2020 03:01:35: 7000000 INFO @ Tue, 30 Jun 2020 03:01:35: 3000000 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 03:01:42: 4000000 INFO @ Tue, 30 Jun 2020 03:01:43: 8000000 INFO @ Tue, 30 Jun 2020 03:01:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3167253/SRX3167253.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3167253/SRX3167253.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3167253/SRX3167253.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3167253/SRX3167253.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 03:01:43: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:01:43: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:01:50: 5000000 INFO @ Tue, 30 Jun 2020 03:01:50: 9000000 INFO @ Tue, 30 Jun 2020 03:01:51: 1000000 INFO @ Tue, 30 Jun 2020 03:01:57: 6000000 INFO @ Tue, 30 Jun 2020 03:01:57: 10000000 INFO @ Tue, 30 Jun 2020 03:01:58: 2000000 INFO @ Tue, 30 Jun 2020 03:02:04: 7000000 INFO @ Tue, 30 Jun 2020 03:02:05: 11000000 INFO @ Tue, 30 Jun 2020 03:02:06: 3000000 INFO @ Tue, 30 Jun 2020 03:02:11: 8000000 INFO @ Tue, 30 Jun 2020 03:02:12: 12000000 INFO @ Tue, 30 Jun 2020 03:02:14: 4000000 INFO @ Tue, 30 Jun 2020 03:02:19: 9000000 INFO @ Tue, 30 Jun 2020 03:02:19: 13000000 INFO @ Tue, 30 Jun 2020 03:02:22: 5000000 INFO @ Tue, 30 Jun 2020 03:02:26: 10000000 INFO @ Tue, 30 Jun 2020 03:02:27: 14000000 INFO @ Tue, 30 Jun 2020 03:02:31: 6000000 INFO @ Tue, 30 Jun 2020 03:02:33: 11000000 INFO @ Tue, 30 Jun 2020 03:02:34: 15000000 INFO @ Tue, 30 Jun 2020 03:02:39: 7000000 INFO @ Tue, 30 Jun 2020 03:02:40: 12000000 INFO @ Tue, 30 Jun 2020 03:02:42: 16000000 INFO @ Tue, 30 Jun 2020 03:02:47: 13000000 INFO @ Tue, 30 Jun 2020 03:02:48: 8000000 INFO @ Tue, 30 Jun 2020 03:02:49: 17000000 INFO @ Tue, 30 Jun 2020 03:02:54: 14000000 INFO @ Tue, 30 Jun 2020 03:02:57: 9000000 INFO @ Tue, 30 Jun 2020 03:02:57: 18000000 INFO @ Tue, 30 Jun 2020 03:03:01: 15000000 INFO @ Tue, 30 Jun 2020 03:03:04: 19000000 INFO @ Tue, 30 Jun 2020 03:03:05: 10000000 INFO @ Tue, 30 Jun 2020 03:03:08: 16000000 INFO @ Tue, 30 Jun 2020 03:03:12: 20000000 INFO @ Tue, 30 Jun 2020 03:03:14: 11000000 INFO @ Tue, 30 Jun 2020 03:03:15: 17000000 INFO @ Tue, 30 Jun 2020 03:03:19: 21000000 INFO @ Tue, 30 Jun 2020 03:03:22: 18000000 INFO @ Tue, 30 Jun 2020 03:03:23: 12000000 INFO @ Tue, 30 Jun 2020 03:03:27: 22000000 INFO @ Tue, 30 Jun 2020 03:03:30: 19000000 INFO @ Tue, 30 Jun 2020 03:03:32: 13000000 INFO @ Tue, 30 Jun 2020 03:03:34: 23000000 INFO @ Tue, 30 Jun 2020 03:03:37: 20000000 INFO @ Tue, 30 Jun 2020 03:03:40: 14000000 INFO @ Tue, 30 Jun 2020 03:03:42: 24000000 INFO @ Tue, 30 Jun 2020 03:03:44: 21000000 INFO @ Tue, 30 Jun 2020 03:03:49: 15000000 INFO @ Tue, 30 Jun 2020 03:03:49: 25000000 INFO @ Tue, 30 Jun 2020 03:03:51: 22000000 INFO @ Tue, 30 Jun 2020 03:03:56: 16000000 INFO @ Tue, 30 Jun 2020 03:03:57: 26000000 INFO @ Tue, 30 Jun 2020 03:03:58: 23000000 INFO @ Tue, 30 Jun 2020 03:04:04: 27000000 INFO @ Tue, 30 Jun 2020 03:04:04: 17000000 INFO @ Tue, 30 Jun 2020 03:04:05: 24000000 INFO @ Tue, 30 Jun 2020 03:04:11: 28000000 INFO @ Tue, 30 Jun 2020 03:04:12: 25000000 INFO @ Tue, 30 Jun 2020 03:04:12: 18000000 INFO @ Tue, 30 Jun 2020 03:04:19: 26000000 INFO @ Tue, 30 Jun 2020 03:04:19: 29000000 INFO @ Tue, 30 Jun 2020 03:04:19: 19000000 INFO @ Tue, 30 Jun 2020 03:04:25: 27000000 INFO @ Tue, 30 Jun 2020 03:04:27: 30000000 INFO @ Tue, 30 Jun 2020 03:04:27: 20000000 INFO @ Tue, 30 Jun 2020 03:04:32: 28000000 INFO @ Tue, 30 Jun 2020 03:04:34: 31000000 INFO @ Tue, 30 Jun 2020 03:04:35: 21000000 INFO @ Tue, 30 Jun 2020 03:04:39: 29000000 INFO @ Tue, 30 Jun 2020 03:04:41: 32000000 INFO @ Tue, 30 Jun 2020 03:04:42: 22000000 INFO @ Tue, 30 Jun 2020 03:04:47: 30000000 INFO @ Tue, 30 Jun 2020 03:04:49: 33000000 INFO @ Tue, 30 Jun 2020 03:04:49: 23000000 INFO @ Tue, 30 Jun 2020 03:04:54: 31000000 INFO @ Tue, 30 Jun 2020 03:04:56: 34000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 03:04:57: 24000000 INFO @ Tue, 30 Jun 2020 03:05:01: 32000000 INFO @ Tue, 30 Jun 2020 03:05:03: 35000000 INFO @ Tue, 30 Jun 2020 03:05:04: 25000000 INFO @ Tue, 30 Jun 2020 03:05:08: 33000000 INFO @ Tue, 30 Jun 2020 03:05:11: 36000000 INFO @ Tue, 30 Jun 2020 03:05:12: 26000000 INFO @ Tue, 30 Jun 2020 03:05:15: 34000000 INFO @ Tue, 30 Jun 2020 03:05:18: 37000000 INFO @ Tue, 30 Jun 2020 03:05:19: 27000000 INFO @ Tue, 30 Jun 2020 03:05:21: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 03:05:21: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 03:05:21: #1 total tags in treatment: 37322248 INFO @ Tue, 30 Jun 2020 03:05:21: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:05:21: #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 03:05:22: 35000000 INFO @ Tue, 30 Jun 2020 03:05:22: #1 tags after filtering in treatment: 37322203 INFO @ Tue, 30 Jun 2020 03:05:22: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:05:22: #1 finished! INFO @ Tue, 30 Jun 2020 03:05:22: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:05:22: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:05:25: #2 number of paired peaks: 124 WARNING @ Tue, 30 Jun 2020 03:05:25: Fewer paired peaks (124) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 124 pairs to build model! INFO @ Tue, 30 Jun 2020 03:05:25: start model_add_line... INFO @ Tue, 30 Jun 2020 03:05:25: start X-correlation... INFO @ Tue, 30 Jun 2020 03:05:25: end of X-cor INFO @ Tue, 30 Jun 2020 03:05:25: #2 finished! INFO @ Tue, 30 Jun 2020 03:05:25: #2 predicted fragment length is 0 bps INFO @ Tue, 30 Jun 2020 03:05:25: #2 alternative fragment length(s) may be 0,46,551,567,578,581 bps INFO @ Tue, 30 Jun 2020 03:05:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3167253/SRX3167253.05_model.r WARNING @ Tue, 30 Jun 2020 03:05:25: #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 03:05:25: #2 You may need to consider one of the other alternative d(s): 0,46,551,567,578,581 WARNING @ Tue, 30 Jun 2020 03:05:25: #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 03:05:25: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:05:25: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:05:26: 28000000 INFO @ Tue, 30 Jun 2020 03:05:29: 36000000 INFO @ Tue, 30 Jun 2020 03:05:32: 29000000 INFO @ Tue, 30 Jun 2020 03:05:36: 37000000 INFO @ Tue, 30 Jun 2020 03:05:39: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 03:05:39: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 03:05:39: #1 total tags in treatment: 37322248 INFO @ Tue, 30 Jun 2020 03:05:39: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:05:39: #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 03:05:40: #1 tags after filtering in treatment: 37322203 INFO @ Tue, 30 Jun 2020 03:05:40: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:05:40: #1 finished! INFO @ Tue, 30 Jun 2020 03:05:40: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:05:40: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:05:40: 30000000 INFO @ Tue, 30 Jun 2020 03:05:42: #2 number of paired peaks: 124 WARNING @ Tue, 30 Jun 2020 03:05:42: Fewer paired peaks (124) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 124 pairs to build model! INFO @ Tue, 30 Jun 2020 03:05:42: start model_add_line... INFO @ Tue, 30 Jun 2020 03:05:42: start X-correlation... INFO @ Tue, 30 Jun 2020 03:05:42: end of X-cor INFO @ Tue, 30 Jun 2020 03:05:42: #2 finished! INFO @ Tue, 30 Jun 2020 03:05:42: #2 predicted fragment length is 0 bps INFO @ Tue, 30 Jun 2020 03:05:42: #2 alternative fragment length(s) may be 0,46,551,567,578,581 bps INFO @ Tue, 30 Jun 2020 03:05:42: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3167253/SRX3167253.10_model.r WARNING @ Tue, 30 Jun 2020 03:05:42: #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 03:05:42: #2 You may need to consider one of the other alternative d(s): 0,46,551,567,578,581 WARNING @ Tue, 30 Jun 2020 03:05:42: #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 03:05:42: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:05:42: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:05:46: 31000000 INFO @ Tue, 30 Jun 2020 03:05:52: 32000000 INFO @ Tue, 30 Jun 2020 03:05:59: 33000000 INFO @ Tue, 30 Jun 2020 03:06:05: 34000000 INFO @ Tue, 30 Jun 2020 03:06:12: 35000000 INFO @ Tue, 30 Jun 2020 03:06:18: 36000000 INFO @ Tue, 30 Jun 2020 03:06:25: 37000000 INFO @ Tue, 30 Jun 2020 03:06:28: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 03:06:28: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 03:06:28: #1 total tags in treatment: 37322248 INFO @ Tue, 30 Jun 2020 03:06:28: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:06:28: #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 03:06:29: #1 tags after filtering in treatment: 37322203 INFO @ Tue, 30 Jun 2020 03:06:29: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:06:29: #1 finished! INFO @ Tue, 30 Jun 2020 03:06:29: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:06:29: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:06:31: #2 number of paired peaks: 124 WARNING @ Tue, 30 Jun 2020 03:06:31: Fewer paired peaks (124) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 124 pairs to build model! INFO @ Tue, 30 Jun 2020 03:06:31: start model_add_line... INFO @ Tue, 30 Jun 2020 03:06:32: start X-correlation... INFO @ Tue, 30 Jun 2020 03:06:32: end of X-cor INFO @ Tue, 30 Jun 2020 03:06:32: #2 finished! INFO @ Tue, 30 Jun 2020 03:06:32: #2 predicted fragment length is 0 bps INFO @ Tue, 30 Jun 2020 03:06:32: #2 alternative fragment length(s) may be 0,46,551,567,578,581 bps INFO @ Tue, 30 Jun 2020 03:06:32: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3167253/SRX3167253.20_model.r WARNING @ Tue, 30 Jun 2020 03:06:32: #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 03:06:32: #2 You may need to consider one of the other alternative d(s): 0,46,551,567,578,581 WARNING @ Tue, 30 Jun 2020 03:06:32: #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 03:06:32: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:06:32: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 /var/spool/uge/it018/job_scripts/6529560: line 293: 20669 Terminated MACS $i /var/spool/uge/it018/job_scripts/6529560: line 293: 20773 Terminated MACS $i /var/spool/uge/it018/job_scripts/6529560: line 293: 20877 Terminated MACS $i ls: cannot access SRX3167253.05.bed: No such file or directory mv: cannot stat ‘SRX3167253.05.bed’: No such file or directory mv: cannot stat ‘SRX3167253.05.bb’: No such file or directory ls: cannot access SRX3167253.10.bed: No such file or directory mv: cannot stat ‘SRX3167253.10.bed’: No such file or directory mv: cannot stat ‘SRX3167253.10.bb’: No such file or directory ls: cannot access SRX3167253.20.bed: No such file or directory mv: cannot stat ‘SRX3167253.20.bed’: No such file or directory mv: cannot stat ‘SRX3167253.20.bb’: No such file or directory