Job ID = 12265409 SRX = SRX5010731 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: 00:06:19 22418822 reads; of these: 22418822 (100.00%) were unpaired; of these: 927380 (4.14%) aligned 0 times 17854060 (79.64%) aligned exactly 1 time 3637382 (16.22%) aligned >1 times 95.86% overall alignment rate Time searching: 00:06:19 Overall time: 00:06:19 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] 11838224 / 21491442 = 0.5508 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 07:04:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5010731/SRX5010731.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5010731/SRX5010731.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5010731/SRX5010731.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5010731/SRX5010731.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 @ Sat, 03 Apr 2021 07:04:59: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:04:59: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:05:09: 1000000 INFO @ Sat, 03 Apr 2021 07:05:19: 2000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 07:05:28: 3000000 INFO @ Sat, 03 Apr 2021 07:05:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5010731/SRX5010731.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5010731/SRX5010731.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5010731/SRX5010731.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5010731/SRX5010731.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 @ Sat, 03 Apr 2021 07:05:29: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:05:29: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:05:37: 4000000 INFO @ Sat, 03 Apr 2021 07:05:40: 1000000 INFO @ Sat, 03 Apr 2021 07:05:47: 5000000 INFO @ Sat, 03 Apr 2021 07:05:50: 2000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 07:05:57: 6000000 INFO @ Sat, 03 Apr 2021 07:05:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5010731/SRX5010731.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5010731/SRX5010731.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5010731/SRX5010731.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5010731/SRX5010731.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 @ Sat, 03 Apr 2021 07:05:59: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:05:59: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:06:00: 3000000 INFO @ Sat, 03 Apr 2021 07:06:07: 7000000 INFO @ Sat, 03 Apr 2021 07:06:11: 1000000 INFO @ Sat, 03 Apr 2021 07:06:11: 4000000 INFO @ Sat, 03 Apr 2021 07:06:18: 8000000 INFO @ Sat, 03 Apr 2021 07:06:22: 2000000 INFO @ Sat, 03 Apr 2021 07:06:22: 5000000 INFO @ Sat, 03 Apr 2021 07:06:29: 9000000 INFO @ Sat, 03 Apr 2021 07:06:33: 6000000 INFO @ Sat, 03 Apr 2021 07:06:33: 3000000 INFO @ Sat, 03 Apr 2021 07:06:35: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:06:35: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:06:35: #1 total tags in treatment: 9653218 INFO @ Sat, 03 Apr 2021 07:06:35: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:06:35: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 07:06:36: #1 tags after filtering in treatment: 9653089 INFO @ Sat, 03 Apr 2021 07:06:36: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:06:36: #1 finished! INFO @ Sat, 03 Apr 2021 07:06:36: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:06:36: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:06:36: #2 number of paired peaks: 1661 INFO @ Sat, 03 Apr 2021 07:06:36: start model_add_line... INFO @ Sat, 03 Apr 2021 07:06:37: start X-correlation... INFO @ Sat, 03 Apr 2021 07:06:37: end of X-cor INFO @ Sat, 03 Apr 2021 07:06:37: #2 finished! INFO @ Sat, 03 Apr 2021 07:06:37: #2 predicted fragment length is 76 bps INFO @ Sat, 03 Apr 2021 07:06:37: #2 alternative fragment length(s) may be 76 bps INFO @ Sat, 03 Apr 2021 07:06:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5010731/SRX5010731.05_model.r WARNING @ Sat, 03 Apr 2021 07:06:37: #2 Since the d (76) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:06:37: #2 You may need to consider one of the other alternative d(s): 76 WARNING @ Sat, 03 Apr 2021 07:06:37: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 07:06:37: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:06:37: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:06:44: 7000000 INFO @ Sat, 03 Apr 2021 07:06:45: 4000000 INFO @ Sat, 03 Apr 2021 07:06:56: 5000000 INFO @ Sat, 03 Apr 2021 07:06:57: 8000000 INFO @ Sat, 03 Apr 2021 07:06:59: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:07:07: 6000000 INFO @ Sat, 03 Apr 2021 07:07:09: 9000000 INFO @ Sat, 03 Apr 2021 07:07:12: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5010731/SRX5010731.05_peaks.xls INFO @ Sat, 03 Apr 2021 07:07:13: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5010731/SRX5010731.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:07:13: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5010731/SRX5010731.05_summits.bed INFO @ Sat, 03 Apr 2021 07:07:13: Done! pass1 - making usageList (321 chroms): 3 millis pass2 - checking and writing primary data (11571 records, 4 fields): 70 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 07:07:15: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:07:15: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:07:15: #1 total tags in treatment: 9653218 INFO @ Sat, 03 Apr 2021 07:07:15: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:07:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 07:07:16: #1 tags after filtering in treatment: 9653089 INFO @ Sat, 03 Apr 2021 07:07:16: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:07:16: #1 finished! INFO @ Sat, 03 Apr 2021 07:07:16: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:07:16: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:07:17: #2 number of paired peaks: 1661 INFO @ Sat, 03 Apr 2021 07:07:17: start model_add_line... INFO @ Sat, 03 Apr 2021 07:07:17: start X-correlation... INFO @ Sat, 03 Apr 2021 07:07:17: end of X-cor INFO @ Sat, 03 Apr 2021 07:07:17: #2 finished! INFO @ Sat, 03 Apr 2021 07:07:17: #2 predicted fragment length is 76 bps INFO @ Sat, 03 Apr 2021 07:07:17: #2 alternative fragment length(s) may be 76 bps INFO @ Sat, 03 Apr 2021 07:07:17: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5010731/SRX5010731.10_model.r WARNING @ Sat, 03 Apr 2021 07:07:17: #2 Since the d (76) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:07:17: #2 You may need to consider one of the other alternative d(s): 76 WARNING @ Sat, 03 Apr 2021 07:07:17: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 07:07:17: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:07:17: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:07:18: 7000000 INFO @ Sat, 03 Apr 2021 07:07:29: 8000000 INFO @ Sat, 03 Apr 2021 07:07:39: 9000000 INFO @ Sat, 03 Apr 2021 07:07:40: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:07:46: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:07:46: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:07:46: #1 total tags in treatment: 9653218 INFO @ Sat, 03 Apr 2021 07:07:46: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:07:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 07:07:47: #1 tags after filtering in treatment: 9653089 INFO @ Sat, 03 Apr 2021 07:07:47: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:07:47: #1 finished! INFO @ Sat, 03 Apr 2021 07:07:47: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:07:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:07:48: #2 number of paired peaks: 1661 INFO @ Sat, 03 Apr 2021 07:07:48: start model_add_line... INFO @ Sat, 03 Apr 2021 07:07:48: start X-correlation... INFO @ Sat, 03 Apr 2021 07:07:48: end of X-cor INFO @ Sat, 03 Apr 2021 07:07:48: #2 finished! INFO @ Sat, 03 Apr 2021 07:07:48: #2 predicted fragment length is 76 bps INFO @ Sat, 03 Apr 2021 07:07:48: #2 alternative fragment length(s) may be 76 bps INFO @ Sat, 03 Apr 2021 07:07:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5010731/SRX5010731.20_model.r WARNING @ Sat, 03 Apr 2021 07:07:48: #2 Since the d (76) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:07:48: #2 You may need to consider one of the other alternative d(s): 76 WARNING @ Sat, 03 Apr 2021 07:07:48: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 07:07:48: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:07:48: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:07:53: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5010731/SRX5010731.10_peaks.xls INFO @ Sat, 03 Apr 2021 07:07:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5010731/SRX5010731.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:07:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5010731/SRX5010731.10_summits.bed INFO @ Sat, 03 Apr 2021 07:07:53: Done! pass1 - making usageList (175 chroms): 2 millis pass2 - checking and writing primary data (6137 records, 4 fields): 18 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 07:08:10: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 07:08:24: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5010731/SRX5010731.20_peaks.xls INFO @ Sat, 03 Apr 2021 07:08:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5010731/SRX5010731.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:08:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5010731/SRX5010731.20_summits.bed INFO @ Sat, 03 Apr 2021 07:08:24: Done! pass1 - making usageList (123 chroms): 2 millis pass2 - checking and writing primary data (1911 records, 4 fields): 10 millis CompletedMACS2peakCalling BigWig に変換しました。