Job ID = 6529269 SRX = SRX1149373 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: 00:10:56 38878888 reads; of these: 38878888 (100.00%) were unpaired; of these: 759652 (1.95%) aligned 0 times 21704787 (55.83%) aligned exactly 1 time 16414449 (42.22%) aligned >1 times 98.05% overall alignment rate Time searching: 00:10:56 Overall time: 00:10:56 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 16 files... [bam_rmdupse_core] 8779407 / 38119236 = 0.2303 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 01:51:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1149373/SRX1149373.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1149373/SRX1149373.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1149373/SRX1149373.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1149373/SRX1149373.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 01:51:57: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:51:57: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:52:03: 1000000 INFO @ Tue, 30 Jun 2020 01:52:08: 2000000 INFO @ Tue, 30 Jun 2020 01:52:13: 3000000 INFO @ Tue, 30 Jun 2020 01:52:18: 4000000 INFO @ Tue, 30 Jun 2020 01:52:24: 5000000 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 01:52:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1149373/SRX1149373.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1149373/SRX1149373.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1149373/SRX1149373.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1149373/SRX1149373.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 01:52:28: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:52:28: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:52:29: 6000000 INFO @ Tue, 30 Jun 2020 01:52:33: 1000000 INFO @ Tue, 30 Jun 2020 01:52:35: 7000000 INFO @ Tue, 30 Jun 2020 01:52:39: 2000000 INFO @ Tue, 30 Jun 2020 01:52:40: 8000000 INFO @ Tue, 30 Jun 2020 01:52:45: 3000000 INFO @ Tue, 30 Jun 2020 01:52:46: 9000000 INFO @ Tue, 30 Jun 2020 01:52:51: 4000000 INFO @ Tue, 30 Jun 2020 01:52:52: 10000000 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 01:52:57: 5000000 INFO @ Tue, 30 Jun 2020 01:52:57: 11000000 INFO @ Tue, 30 Jun 2020 01:52:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1149373/SRX1149373.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1149373/SRX1149373.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1149373/SRX1149373.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1149373/SRX1149373.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 01:52:58: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:52:58: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:53:03: 12000000 INFO @ Tue, 30 Jun 2020 01:53:03: 6000000 INFO @ Tue, 30 Jun 2020 01:53:03: 1000000 INFO @ Tue, 30 Jun 2020 01:53:09: 13000000 INFO @ Tue, 30 Jun 2020 01:53:09: 7000000 INFO @ Tue, 30 Jun 2020 01:53:09: 2000000 INFO @ Tue, 30 Jun 2020 01:53:15: 14000000 INFO @ Tue, 30 Jun 2020 01:53:15: 3000000 INFO @ Tue, 30 Jun 2020 01:53:15: 8000000 INFO @ Tue, 30 Jun 2020 01:53:20: 15000000 INFO @ Tue, 30 Jun 2020 01:53:21: 4000000 INFO @ Tue, 30 Jun 2020 01:53:21: 9000000 INFO @ Tue, 30 Jun 2020 01:53:26: 16000000 INFO @ Tue, 30 Jun 2020 01:53:27: 5000000 INFO @ Tue, 30 Jun 2020 01:53:28: 10000000 INFO @ Tue, 30 Jun 2020 01:53:32: 17000000 INFO @ Tue, 30 Jun 2020 01:53:33: 6000000 INFO @ Tue, 30 Jun 2020 01:53:34: 11000000 INFO @ Tue, 30 Jun 2020 01:53:38: 18000000 INFO @ Tue, 30 Jun 2020 01:53:39: 7000000 INFO @ Tue, 30 Jun 2020 01:53:40: 12000000 INFO @ Tue, 30 Jun 2020 01:53:43: 19000000 INFO @ Tue, 30 Jun 2020 01:53:45: 8000000 INFO @ Tue, 30 Jun 2020 01:53:46: 13000000 INFO @ Tue, 30 Jun 2020 01:53:49: 20000000 INFO @ Tue, 30 Jun 2020 01:53:51: 9000000 INFO @ Tue, 30 Jun 2020 01:53:52: 14000000 INFO @ Tue, 30 Jun 2020 01:53:55: 21000000 INFO @ Tue, 30 Jun 2020 01:53:56: 10000000 INFO @ Tue, 30 Jun 2020 01:53:58: 15000000 INFO @ Tue, 30 Jun 2020 01:54:01: 22000000 INFO @ Tue, 30 Jun 2020 01:54:02: 11000000 INFO @ Tue, 30 Jun 2020 01:54:04: 16000000 INFO @ Tue, 30 Jun 2020 01:54:07: 23000000 INFO @ Tue, 30 Jun 2020 01:54:08: 12000000 INFO @ Tue, 30 Jun 2020 01:54:10: 17000000 INFO @ Tue, 30 Jun 2020 01:54:13: 24000000 INFO @ Tue, 30 Jun 2020 01:54:14: 13000000 INFO @ Tue, 30 Jun 2020 01:54:16: 18000000 INFO @ Tue, 30 Jun 2020 01:54:19: 25000000 INFO @ Tue, 30 Jun 2020 01:54:19: 14000000 INFO @ Tue, 30 Jun 2020 01:54:22: 19000000 INFO @ Tue, 30 Jun 2020 01:54:25: 26000000 INFO @ Tue, 30 Jun 2020 01:54:25: 15000000 INFO @ Tue, 30 Jun 2020 01:54:28: 20000000 INFO @ Tue, 30 Jun 2020 01:54:30: 27000000 INFO @ Tue, 30 Jun 2020 01:54:31: 16000000 INFO @ Tue, 30 Jun 2020 01:54:33: 21000000 INFO @ Tue, 30 Jun 2020 01:54:36: 28000000 INFO @ Tue, 30 Jun 2020 01:54:36: 17000000 INFO @ Tue, 30 Jun 2020 01:54:39: 22000000 INFO @ Tue, 30 Jun 2020 01:54:42: 18000000 INFO @ Tue, 30 Jun 2020 01:54:42: 29000000 INFO @ Tue, 30 Jun 2020 01:54:44: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:54:44: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:54:44: #1 total tags in treatment: 29339829 INFO @ Tue, 30 Jun 2020 01:54:44: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:54:44: #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 01:54:45: #1 tags after filtering in treatment: 29339797 INFO @ Tue, 30 Jun 2020 01:54:45: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:54:45: #1 finished! INFO @ Tue, 30 Jun 2020 01:54:45: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:54:45: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:54:46: 23000000 INFO @ Tue, 30 Jun 2020 01:54:47: 19000000 INFO @ Tue, 30 Jun 2020 01:54:47: #2 number of paired peaks: 1433 INFO @ Tue, 30 Jun 2020 01:54:47: start model_add_line... INFO @ Tue, 30 Jun 2020 01:54:47: start X-correlation... INFO @ Tue, 30 Jun 2020 01:54:47: end of X-cor INFO @ Tue, 30 Jun 2020 01:54:47: #2 finished! INFO @ Tue, 30 Jun 2020 01:54:47: #2 predicted fragment length is 2 bps INFO @ Tue, 30 Jun 2020 01:54:47: #2 alternative fragment length(s) may be 2,44 bps INFO @ Tue, 30 Jun 2020 01:54:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1149373/SRX1149373.05_model.r WARNING @ Tue, 30 Jun 2020 01:54:47: #2 Since the d (2) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 01:54:47: #2 You may need to consider one of the other alternative d(s): 2,44 WARNING @ Tue, 30 Jun 2020 01:54:47: #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 01:54:47: #3 Call peaks... INFO @ Tue, 30 Jun 2020 01:54:47: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 01:54:52: 20000000 INFO @ Tue, 30 Jun 2020 01:54:53: 24000000 INFO @ Tue, 30 Jun 2020 01:54:57: 21000000 INFO @ Tue, 30 Jun 2020 01:54:59: 25000000 INFO @ Tue, 30 Jun 2020 01:55:02: 22000000 INFO @ Tue, 30 Jun 2020 01:55:04: 26000000 INFO @ Tue, 30 Jun 2020 01:55:08: 23000000 INFO @ Tue, 30 Jun 2020 01:55:11: 27000000 INFO @ Tue, 30 Jun 2020 01:55:13: 24000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 01:55:17: 28000000 INFO @ Tue, 30 Jun 2020 01:55:18: 25000000 INFO @ Tue, 30 Jun 2020 01:55:24: 26000000 INFO @ Tue, 30 Jun 2020 01:55:25: 29000000 INFO @ Tue, 30 Jun 2020 01:55:26: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 01:55:27: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:55:27: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:55:27: #1 total tags in treatment: 29339829 INFO @ Tue, 30 Jun 2020 01:55:27: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:55:27: #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 01:55:29: #1 tags after filtering in treatment: 29339797 INFO @ Tue, 30 Jun 2020 01:55:29: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:55:29: #1 finished! INFO @ Tue, 30 Jun 2020 01:55:29: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:55:29: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:55:29: 27000000 INFO @ Tue, 30 Jun 2020 01:55:31: #2 number of paired peaks: 1433 INFO @ Tue, 30 Jun 2020 01:55:31: start model_add_line... INFO @ Tue, 30 Jun 2020 01:55:31: start X-correlation... INFO @ Tue, 30 Jun 2020 01:55:31: end of X-cor INFO @ Tue, 30 Jun 2020 01:55:31: #2 finished! INFO @ Tue, 30 Jun 2020 01:55:31: #2 predicted fragment length is 2 bps INFO @ Tue, 30 Jun 2020 01:55:31: #2 alternative fragment length(s) may be 2,44 bps INFO @ Tue, 30 Jun 2020 01:55:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1149373/SRX1149373.10_model.r WARNING @ Tue, 30 Jun 2020 01:55:31: #2 Since the d (2) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 01:55:31: #2 You may need to consider one of the other alternative d(s): 2,44 WARNING @ Tue, 30 Jun 2020 01:55:31: #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 01:55:31: #3 Call peaks... INFO @ Tue, 30 Jun 2020 01:55:31: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 01:55:34: 28000000 INFO @ Tue, 30 Jun 2020 01:55:39: 29000000 INFO @ Tue, 30 Jun 2020 01:55:41: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:55:41: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:55:41: #1 total tags in treatment: 29339829 INFO @ Tue, 30 Jun 2020 01:55:41: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:55:41: #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 01:55:42: #1 tags after filtering in treatment: 29339797 INFO @ Tue, 30 Jun 2020 01:55:42: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:55:42: #1 finished! INFO @ Tue, 30 Jun 2020 01:55:42: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:55:42: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:55:44: #2 number of paired peaks: 1433 INFO @ Tue, 30 Jun 2020 01:55:44: start model_add_line... INFO @ Tue, 30 Jun 2020 01:55:44: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1149373/SRX1149373.05_peaks.xls INFO @ Tue, 30 Jun 2020 01:55:44: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1149373/SRX1149373.05_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 01:55:44: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1149373/SRX1149373.05_summits.bed INFO @ Tue, 30 Jun 2020 01:55:44: Done! INFO @ Tue, 30 Jun 2020 01:55:45: start X-correlation... INFO @ Tue, 30 Jun 2020 01:55:45: end of X-cor INFO @ Tue, 30 Jun 2020 01:55:45: #2 finished! INFO @ Tue, 30 Jun 2020 01:55:45: #2 predicted fragment length is 2 bps INFO @ Tue, 30 Jun 2020 01:55:45: #2 alternative fragment length(s) may be 2,44 bps INFO @ Tue, 30 Jun 2020 01:55:45: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1149373/SRX1149373.20_model.r WARNING @ Tue, 30 Jun 2020 01:55:45: #2 Since the d (2) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 01:55:45: #2 You may need to consider one of the other alternative d(s): 2,44 WARNING @ Tue, 30 Jun 2020 01:55:45: #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 01:55:45: #3 Call peaks... INFO @ Tue, 30 Jun 2020 01:55:45: #3 Pre-compute pvalue-qvalue table... pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:56:09: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 01:56:22: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 01:56:27: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1149373/SRX1149373.10_peaks.xls INFO @ Tue, 30 Jun 2020 01:56:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1149373/SRX1149373.10_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 01:56:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1149373/SRX1149373.10_summits.bed INFO @ Tue, 30 Jun 2020 01:56:27: Done! BigWig に変換しました。 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:56:40: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1149373/SRX1149373.20_peaks.xls INFO @ Tue, 30 Jun 2020 01:56:40: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1149373/SRX1149373.20_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 01:56:40: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1149373/SRX1149373.20_summits.bed INFO @ Tue, 30 Jun 2020 01:56:40: Done! pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling