Job ID = 12265453 SRX = SRX5010745 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: 00:08:02 30341723 reads; of these: 30341723 (100.00%) were unpaired; of these: 1233354 (4.06%) aligned 0 times 23538551 (77.58%) aligned exactly 1 time 5569818 (18.36%) aligned >1 times 95.94% overall alignment rate Time searching: 00:08:02 Overall time: 00:08:02 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] 16763936 / 29108369 = 0.5759 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 07:18:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5010745/SRX5010745.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5010745/SRX5010745.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5010745/SRX5010745.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5010745/SRX5010745.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 07:18:53: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:18:53: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:19:00: 1000000 INFO @ Sat, 03 Apr 2021 07:19:06: 2000000 INFO @ Sat, 03 Apr 2021 07:19:12: 3000000 INFO @ Sat, 03 Apr 2021 07:19:17: 4000000 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 07:19:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5010745/SRX5010745.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5010745/SRX5010745.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5010745/SRX5010745.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5010745/SRX5010745.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 07:19:23: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:19:23: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:19:23: 5000000 INFO @ Sat, 03 Apr 2021 07:19:30: 1000000 INFO @ Sat, 03 Apr 2021 07:19:30: 6000000 INFO @ Sat, 03 Apr 2021 07:19:37: 2000000 INFO @ Sat, 03 Apr 2021 07:19:37: 7000000 INFO @ Sat, 03 Apr 2021 07:19:44: 3000000 INFO @ Sat, 03 Apr 2021 07:19:44: 8000000 INFO @ Sat, 03 Apr 2021 07:19:51: 4000000 INFO @ Sat, 03 Apr 2021 07:19:51: 9000000 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 07:19:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5010745/SRX5010745.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5010745/SRX5010745.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5010745/SRX5010745.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5010745/SRX5010745.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 07:19:53: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:19:53: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:19:58: 5000000 INFO @ Sat, 03 Apr 2021 07:19:58: 10000000 INFO @ Sat, 03 Apr 2021 07:20:00: 1000000 INFO @ Sat, 03 Apr 2021 07:20:05: 6000000 INFO @ Sat, 03 Apr 2021 07:20:05: 11000000 INFO @ Sat, 03 Apr 2021 07:20:07: 2000000 INFO @ Sat, 03 Apr 2021 07:20:12: 7000000 INFO @ Sat, 03 Apr 2021 07:20:12: 12000000 INFO @ Sat, 03 Apr 2021 07:20:14: 3000000 INFO @ Sat, 03 Apr 2021 07:20:14: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:20:14: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:20:14: #1 total tags in treatment: 12344433 INFO @ Sat, 03 Apr 2021 07:20:14: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:20:14: #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 07:20:15: #1 tags after filtering in treatment: 12344346 INFO @ Sat, 03 Apr 2021 07:20:15: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:20:15: #1 finished! INFO @ Sat, 03 Apr 2021 07:20:15: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:20:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:20:16: #2 number of paired peaks: 1642 INFO @ Sat, 03 Apr 2021 07:20:16: start model_add_line... INFO @ Sat, 03 Apr 2021 07:20:16: start X-correlation... INFO @ Sat, 03 Apr 2021 07:20:16: end of X-cor INFO @ Sat, 03 Apr 2021 07:20:16: #2 finished! INFO @ Sat, 03 Apr 2021 07:20:16: #2 predicted fragment length is 75 bps INFO @ Sat, 03 Apr 2021 07:20:16: #2 alternative fragment length(s) may be 75 bps INFO @ Sat, 03 Apr 2021 07:20:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5010745/SRX5010745.05_model.r WARNING @ Sat, 03 Apr 2021 07:20:16: #2 Since the d (75) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:20:16: #2 You may need to consider one of the other alternative d(s): 75 WARNING @ Sat, 03 Apr 2021 07:20:16: #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 07:20:16: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:20:16: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:20:19: 8000000 INFO @ Sat, 03 Apr 2021 07:20:21: 4000000 INFO @ Sat, 03 Apr 2021 07:20:25: 9000000 INFO @ Sat, 03 Apr 2021 07:20:28: 5000000 INFO @ Sat, 03 Apr 2021 07:20:32: 10000000 INFO @ Sat, 03 Apr 2021 07:20:35: 6000000 INFO @ Sat, 03 Apr 2021 07:20:39: 11000000 INFO @ Sat, 03 Apr 2021 07:20:41: 7000000 INFO @ Sat, 03 Apr 2021 07:20:46: 12000000 INFO @ Sat, 03 Apr 2021 07:20:46: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:20:48: 8000000 INFO @ Sat, 03 Apr 2021 07:20:48: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:20:48: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:20:48: #1 total tags in treatment: 12344433 INFO @ Sat, 03 Apr 2021 07:20:48: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:20:48: #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 07:20:49: #1 tags after filtering in treatment: 12344346 INFO @ Sat, 03 Apr 2021 07:20:49: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:20:49: #1 finished! INFO @ Sat, 03 Apr 2021 07:20:49: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:20:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:20:50: #2 number of paired peaks: 1642 INFO @ Sat, 03 Apr 2021 07:20:50: start model_add_line... INFO @ Sat, 03 Apr 2021 07:20:50: start X-correlation... INFO @ Sat, 03 Apr 2021 07:20:50: end of X-cor INFO @ Sat, 03 Apr 2021 07:20:50: #2 finished! INFO @ Sat, 03 Apr 2021 07:20:50: #2 predicted fragment length is 75 bps INFO @ Sat, 03 Apr 2021 07:20:50: #2 alternative fragment length(s) may be 75 bps INFO @ Sat, 03 Apr 2021 07:20:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5010745/SRX5010745.10_model.r WARNING @ Sat, 03 Apr 2021 07:20:50: #2 Since the d (75) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:20:50: #2 You may need to consider one of the other alternative d(s): 75 WARNING @ Sat, 03 Apr 2021 07:20:50: #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 07:20:50: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:20:50: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:20:54: 9000000 INFO @ Sat, 03 Apr 2021 07:21:01: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 07:21:02: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5010745/SRX5010745.05_peaks.xls INFO @ Sat, 03 Apr 2021 07:21:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5010745/SRX5010745.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:21:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5010745/SRX5010745.05_summits.bed INFO @ Sat, 03 Apr 2021 07:21:02: Done! pass1 - making usageList (442 chroms): 2 millis pass2 - checking and writing primary data (12299 records, 4 fields): 25 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 07:21:07: 11000000 INFO @ Sat, 03 Apr 2021 07:21:13: 12000000 INFO @ Sat, 03 Apr 2021 07:21:15: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:21:15: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:21:15: #1 total tags in treatment: 12344433 INFO @ Sat, 03 Apr 2021 07:21:15: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:21:15: #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 07:21:15: #1 tags after filtering in treatment: 12344346 INFO @ Sat, 03 Apr 2021 07:21:15: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:21:15: #1 finished! INFO @ Sat, 03 Apr 2021 07:21:15: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:21:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:21:16: #2 number of paired peaks: 1642 INFO @ Sat, 03 Apr 2021 07:21:16: start model_add_line... INFO @ Sat, 03 Apr 2021 07:21:16: start X-correlation... INFO @ Sat, 03 Apr 2021 07:21:16: end of X-cor INFO @ Sat, 03 Apr 2021 07:21:16: #2 finished! INFO @ Sat, 03 Apr 2021 07:21:16: #2 predicted fragment length is 75 bps INFO @ Sat, 03 Apr 2021 07:21:16: #2 alternative fragment length(s) may be 75 bps INFO @ Sat, 03 Apr 2021 07:21:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5010745/SRX5010745.20_model.r WARNING @ Sat, 03 Apr 2021 07:21:16: #2 Since the d (75) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:21:16: #2 You may need to consider one of the other alternative d(s): 75 WARNING @ Sat, 03 Apr 2021 07:21:16: #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 07:21:16: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:21:16: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:21:19: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 07:21:33: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5010745/SRX5010745.10_peaks.xls INFO @ Sat, 03 Apr 2021 07:21:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5010745/SRX5010745.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:21:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5010745/SRX5010745.10_summits.bed INFO @ Sat, 03 Apr 2021 07:21:33: Done! pass1 - making usageList (259 chroms): 2 millis pass2 - checking and writing primary data (6867 records, 4 fields): 14 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 07:21:44: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:21:58: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5010745/SRX5010745.20_peaks.xls INFO @ Sat, 03 Apr 2021 07:21:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5010745/SRX5010745.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:21:58: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5010745/SRX5010745.20_summits.bed INFO @ Sat, 03 Apr 2021 07:21:58: Done! pass1 - making usageList (141 chroms): 1 millis pass2 - checking and writing primary data (2684 records, 4 fields): 8 millis CompletedMACS2peakCalling