Job ID = 6529364 SRX = SRX2055953 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: 00:09:35 27968435 reads; of these: 27968435 (100.00%) were unpaired; of these: 1024229 (3.66%) aligned 0 times 13416376 (47.97%) aligned exactly 1 time 13527830 (48.37%) aligned >1 times 96.34% overall alignment rate Time searching: 00:09:35 Overall time: 00:09:35 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] 5939033 / 26944206 = 0.2204 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 02:19:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2055953/SRX2055953.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2055953/SRX2055953.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2055953/SRX2055953.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2055953/SRX2055953.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 02:19:48: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:19:48: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:19:53: 1000000 INFO @ Tue, 30 Jun 2020 02:19:59: 2000000 INFO @ Tue, 30 Jun 2020 02:20:04: 3000000 INFO @ Tue, 30 Jun 2020 02:20:09: 4000000 INFO @ Tue, 30 Jun 2020 02:20:14: 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 02:20:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2055953/SRX2055953.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2055953/SRX2055953.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2055953/SRX2055953.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2055953/SRX2055953.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 02:20:18: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:20:18: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:20:19: 6000000 INFO @ Tue, 30 Jun 2020 02:20:25: 7000000 INFO @ Tue, 30 Jun 2020 02:20:25: 1000000 INFO @ Tue, 30 Jun 2020 02:20:30: 8000000 INFO @ Tue, 30 Jun 2020 02:20:31: 2000000 INFO @ Tue, 30 Jun 2020 02:20:36: 9000000 INFO @ Tue, 30 Jun 2020 02:20:37: 3000000 INFO @ Tue, 30 Jun 2020 02:20:41: 10000000 INFO @ Tue, 30 Jun 2020 02:20:43: 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 02:20:47: 11000000 INFO @ Tue, 30 Jun 2020 02:20:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2055953/SRX2055953.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2055953/SRX2055953.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2055953/SRX2055953.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2055953/SRX2055953.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 02:20:48: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:20:48: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:20:49: 5000000 INFO @ Tue, 30 Jun 2020 02:20:53: 12000000 INFO @ Tue, 30 Jun 2020 02:20:54: 1000000 INFO @ Tue, 30 Jun 2020 02:20:55: 6000000 INFO @ Tue, 30 Jun 2020 02:20:58: 13000000 INFO @ Tue, 30 Jun 2020 02:21:00: 2000000 INFO @ Tue, 30 Jun 2020 02:21:01: 7000000 INFO @ Tue, 30 Jun 2020 02:21:04: 14000000 INFO @ Tue, 30 Jun 2020 02:21:05: 3000000 INFO @ Tue, 30 Jun 2020 02:21:07: 8000000 INFO @ Tue, 30 Jun 2020 02:21:10: 15000000 INFO @ Tue, 30 Jun 2020 02:21:11: 4000000 INFO @ Tue, 30 Jun 2020 02:21:14: 9000000 INFO @ Tue, 30 Jun 2020 02:21:16: 16000000 INFO @ Tue, 30 Jun 2020 02:21:17: 5000000 INFO @ Tue, 30 Jun 2020 02:21:20: 10000000 INFO @ Tue, 30 Jun 2020 02:21:21: 17000000 INFO @ Tue, 30 Jun 2020 02:21:23: 6000000 INFO @ Tue, 30 Jun 2020 02:21:26: 11000000 INFO @ Tue, 30 Jun 2020 02:21:27: 18000000 INFO @ Tue, 30 Jun 2020 02:21:28: 7000000 INFO @ Tue, 30 Jun 2020 02:21:32: 12000000 INFO @ Tue, 30 Jun 2020 02:21:33: 19000000 INFO @ Tue, 30 Jun 2020 02:21:34: 8000000 INFO @ Tue, 30 Jun 2020 02:21:39: 13000000 INFO @ Tue, 30 Jun 2020 02:21:39: 20000000 INFO @ Tue, 30 Jun 2020 02:21:40: 9000000 INFO @ Tue, 30 Jun 2020 02:21:45: 21000000 INFO @ Tue, 30 Jun 2020 02:21:45: 14000000 INFO @ Tue, 30 Jun 2020 02:21:45: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 02:21:45: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 02:21:45: #1 total tags in treatment: 21005173 INFO @ Tue, 30 Jun 2020 02:21:45: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:21:45: #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 02:21:45: #1 tags after filtering in treatment: 21005134 INFO @ Tue, 30 Jun 2020 02:21:45: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:21:45: #1 finished! INFO @ Tue, 30 Jun 2020 02:21:45: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:21:45: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:21:45: 10000000 INFO @ Tue, 30 Jun 2020 02:21:47: #2 number of paired peaks: 1887 INFO @ Tue, 30 Jun 2020 02:21:47: start model_add_line... INFO @ Tue, 30 Jun 2020 02:21:47: start X-correlation... INFO @ Tue, 30 Jun 2020 02:21:47: end of X-cor INFO @ Tue, 30 Jun 2020 02:21:47: #2 finished! INFO @ Tue, 30 Jun 2020 02:21:47: #2 predicted fragment length is 2 bps INFO @ Tue, 30 Jun 2020 02:21:47: #2 alternative fragment length(s) may be 2,36,584 bps INFO @ Tue, 30 Jun 2020 02:21:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2055953/SRX2055953.05_model.r WARNING @ Tue, 30 Jun 2020 02:21:47: #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 02:21:47: #2 You may need to consider one of the other alternative d(s): 2,36,584 WARNING @ Tue, 30 Jun 2020 02:21:47: #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 02:21:47: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:21:47: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:21:51: 15000000 INFO @ Tue, 30 Jun 2020 02:21:51: 11000000 INFO @ Tue, 30 Jun 2020 02:21:56: 12000000 INFO @ Tue, 30 Jun 2020 02:21:57: 16000000 INFO @ Tue, 30 Jun 2020 02:22:02: 13000000 INFO @ Tue, 30 Jun 2020 02:22:03: 17000000 INFO @ Tue, 30 Jun 2020 02:22:08: 14000000 INFO @ Tue, 30 Jun 2020 02:22:10: 18000000 INFO @ Tue, 30 Jun 2020 02:22:13: 15000000 INFO @ Tue, 30 Jun 2020 02:22:16: 19000000 INFO @ Tue, 30 Jun 2020 02:22:19: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 02:22:19: 16000000 INFO @ Tue, 30 Jun 2020 02:22:22: 20000000 INFO @ Tue, 30 Jun 2020 02:22:24: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 02:22:29: 21000000 INFO @ Tue, 30 Jun 2020 02:22:29: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 02:22:29: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 02:22:29: #1 total tags in treatment: 21005173 INFO @ Tue, 30 Jun 2020 02:22:29: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:22:29: #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 02:22:29: #1 tags after filtering in treatment: 21005134 INFO @ Tue, 30 Jun 2020 02:22:29: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:22:29: #1 finished! INFO @ Tue, 30 Jun 2020 02:22:29: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:22:29: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:22:30: 18000000 INFO @ Tue, 30 Jun 2020 02:22:31: #2 number of paired peaks: 1887 INFO @ Tue, 30 Jun 2020 02:22:31: start model_add_line... INFO @ Tue, 30 Jun 2020 02:22:31: start X-correlation... INFO @ Tue, 30 Jun 2020 02:22:31: end of X-cor INFO @ Tue, 30 Jun 2020 02:22:31: #2 finished! INFO @ Tue, 30 Jun 2020 02:22:31: #2 predicted fragment length is 2 bps INFO @ Tue, 30 Jun 2020 02:22:31: #2 alternative fragment length(s) may be 2,36,584 bps INFO @ Tue, 30 Jun 2020 02:22:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2055953/SRX2055953.10_model.r WARNING @ Tue, 30 Jun 2020 02:22:31: #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 02:22:31: #2 You may need to consider one of the other alternative d(s): 2,36,584 WARNING @ Tue, 30 Jun 2020 02:22:31: #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 02:22:31: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:22:31: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:22:33: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2055953/SRX2055953.05_peaks.xls INFO @ Tue, 30 Jun 2020 02:22:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2055953/SRX2055953.05_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:22:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2055953/SRX2055953.05_summits.bed INFO @ Tue, 30 Jun 2020 02:22:33: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 02:22:36: 19000000 INFO @ Tue, 30 Jun 2020 02:22:41: 20000000 INFO @ Tue, 30 Jun 2020 02:22:46: 21000000 INFO @ Tue, 30 Jun 2020 02:22:47: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 02:22:47: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 02:22:47: #1 total tags in treatment: 21005173 INFO @ Tue, 30 Jun 2020 02:22:47: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:22:47: #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 02:22:47: #1 tags after filtering in treatment: 21005134 INFO @ Tue, 30 Jun 2020 02:22:47: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:22:47: #1 finished! INFO @ Tue, 30 Jun 2020 02:22:47: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:22:47: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:22:49: #2 number of paired peaks: 1887 INFO @ Tue, 30 Jun 2020 02:22:49: start model_add_line... INFO @ Tue, 30 Jun 2020 02:22:49: start X-correlation... INFO @ Tue, 30 Jun 2020 02:22:49: end of X-cor INFO @ Tue, 30 Jun 2020 02:22:49: #2 finished! INFO @ Tue, 30 Jun 2020 02:22:49: #2 predicted fragment length is 2 bps INFO @ Tue, 30 Jun 2020 02:22:49: #2 alternative fragment length(s) may be 2,36,584 bps INFO @ Tue, 30 Jun 2020 02:22:49: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2055953/SRX2055953.20_model.r WARNING @ Tue, 30 Jun 2020 02:22:49: #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 02:22:49: #2 You may need to consider one of the other alternative d(s): 2,36,584 WARNING @ Tue, 30 Jun 2020 02:22:49: #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 02:22:49: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:22:49: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:23:03: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 02:23:18: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2055953/SRX2055953.10_peaks.xls INFO @ Tue, 30 Jun 2020 02:23:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2055953/SRX2055953.10_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:23:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2055953/SRX2055953.10_summits.bed INFO @ Tue, 30 Jun 2020 02:23:18: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 02:23:20: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 02:23:35: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2055953/SRX2055953.20_peaks.xls INFO @ Tue, 30 Jun 2020 02:23:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2055953/SRX2055953.20_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:23:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2055953/SRX2055953.20_summits.bed INFO @ Tue, 30 Jun 2020 02:23:35: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling