Job ID = 12265484 SRX = SRX5010770 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: 00:12:02 34868300 reads; of these: 34868300 (100.00%) were unpaired; of these: 1436822 (4.12%) aligned 0 times 28042682 (80.42%) aligned exactly 1 time 5388796 (15.45%) aligned >1 times 95.88% overall alignment rate Time searching: 00:12:02 Overall time: 00:12:02 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 16 files... [bam_rmdupse_core] 23052514 / 33431478 = 0.6895 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 07:33:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5010770/SRX5010770.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5010770/SRX5010770.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5010770/SRX5010770.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5010770/SRX5010770.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 07:33:03: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:33:03: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:33:09: 1000000 INFO @ Sat, 03 Apr 2021 07:33:15: 2000000 INFO @ Sat, 03 Apr 2021 07:33:21: 3000000 INFO @ Sat, 03 Apr 2021 07:33:27: 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 07:33:33: 5000000 INFO @ Sat, 03 Apr 2021 07:33:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5010770/SRX5010770.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5010770/SRX5010770.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5010770/SRX5010770.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5010770/SRX5010770.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 07:33:33: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:33:33: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:33:39: 6000000 INFO @ Sat, 03 Apr 2021 07:33:40: 1000000 INFO @ Sat, 03 Apr 2021 07:33:46: 7000000 INFO @ Sat, 03 Apr 2021 07:33:47: 2000000 INFO @ Sat, 03 Apr 2021 07:33:53: 8000000 INFO @ Sat, 03 Apr 2021 07:33:53: 3000000 INFO @ Sat, 03 Apr 2021 07:34:00: 9000000 INFO @ Sat, 03 Apr 2021 07:34:00: 4000000 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 07:34:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5010770/SRX5010770.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5010770/SRX5010770.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5010770/SRX5010770.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5010770/SRX5010770.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 07:34:03: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:34:03: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:34:07: 5000000 INFO @ Sat, 03 Apr 2021 07:34:07: 10000000 INFO @ Sat, 03 Apr 2021 07:34:10: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:34:10: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:34:10: #1 total tags in treatment: 10378964 INFO @ Sat, 03 Apr 2021 07:34:10: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:34:10: #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 07:34:10: #1 tags after filtering in treatment: 10378870 INFO @ Sat, 03 Apr 2021 07:34:10: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:34:10: #1 finished! INFO @ Sat, 03 Apr 2021 07:34:10: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:34:10: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:34:11: 1000000 INFO @ Sat, 03 Apr 2021 07:34:11: #2 number of paired peaks: 1905 INFO @ Sat, 03 Apr 2021 07:34:11: start model_add_line... INFO @ Sat, 03 Apr 2021 07:34:11: start X-correlation... INFO @ Sat, 03 Apr 2021 07:34:11: end of X-cor INFO @ Sat, 03 Apr 2021 07:34:11: #2 finished! INFO @ Sat, 03 Apr 2021 07:34:11: #2 predicted fragment length is 67 bps INFO @ Sat, 03 Apr 2021 07:34:11: #2 alternative fragment length(s) may be 67 bps INFO @ Sat, 03 Apr 2021 07:34:11: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5010770/SRX5010770.05_model.r WARNING @ Sat, 03 Apr 2021 07:34:11: #2 Since the d (67) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:34:11: #2 You may need to consider one of the other alternative d(s): 67 WARNING @ Sat, 03 Apr 2021 07:34:11: #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 07:34:11: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:34:11: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:34:14: 6000000 INFO @ Sat, 03 Apr 2021 07:34:18: 2000000 INFO @ Sat, 03 Apr 2021 07:34:21: 7000000 INFO @ Sat, 03 Apr 2021 07:34:25: 3000000 INFO @ Sat, 03 Apr 2021 07:34:27: 8000000 INFO @ Sat, 03 Apr 2021 07:34:31: 4000000 INFO @ Sat, 03 Apr 2021 07:34:34: 9000000 INFO @ Sat, 03 Apr 2021 07:34:37: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:34:38: 5000000 INFO @ Sat, 03 Apr 2021 07:34:41: 10000000 INFO @ Sat, 03 Apr 2021 07:34:44: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:34:44: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:34:44: #1 total tags in treatment: 10378964 INFO @ Sat, 03 Apr 2021 07:34:44: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:34:44: #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 07:34:45: #1 tags after filtering in treatment: 10378870 INFO @ Sat, 03 Apr 2021 07:34:45: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:34:45: #1 finished! INFO @ Sat, 03 Apr 2021 07:34:45: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:34:45: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:34:45: 6000000 INFO @ Sat, 03 Apr 2021 07:34:46: #2 number of paired peaks: 1905 INFO @ Sat, 03 Apr 2021 07:34:46: start model_add_line... INFO @ Sat, 03 Apr 2021 07:34:46: start X-correlation... INFO @ Sat, 03 Apr 2021 07:34:46: end of X-cor INFO @ Sat, 03 Apr 2021 07:34:46: #2 finished! INFO @ Sat, 03 Apr 2021 07:34:46: #2 predicted fragment length is 67 bps INFO @ Sat, 03 Apr 2021 07:34:46: #2 alternative fragment length(s) may be 67 bps INFO @ Sat, 03 Apr 2021 07:34:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5010770/SRX5010770.10_model.r WARNING @ Sat, 03 Apr 2021 07:34:46: #2 Since the d (67) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:34:46: #2 You may need to consider one of the other alternative d(s): 67 WARNING @ Sat, 03 Apr 2021 07:34:46: #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 07:34:46: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:34:46: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:34:50: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5010770/SRX5010770.05_peaks.xls INFO @ Sat, 03 Apr 2021 07:34:50: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5010770/SRX5010770.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:34:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5010770/SRX5010770.05_summits.bed INFO @ Sat, 03 Apr 2021 07:34:50: Done! pass1 - making usageList (530 chroms): 3 millis pass2 - checking and writing primary data (9735 records, 4 fields): 25 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 07:34:51: 7000000 INFO @ Sat, 03 Apr 2021 07:34:57: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 07:35:04: 9000000 INFO @ Sat, 03 Apr 2021 07:35:10: 10000000 INFO @ Sat, 03 Apr 2021 07:35:11: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:35:13: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:35:13: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:35:13: #1 total tags in treatment: 10378964 INFO @ Sat, 03 Apr 2021 07:35:13: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:35:13: #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 07:35:13: #1 tags after filtering in treatment: 10378870 INFO @ Sat, 03 Apr 2021 07:35:13: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:35:13: #1 finished! INFO @ Sat, 03 Apr 2021 07:35:13: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:35:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:35:14: #2 number of paired peaks: 1905 INFO @ Sat, 03 Apr 2021 07:35:14: start model_add_line... INFO @ Sat, 03 Apr 2021 07:35:14: start X-correlation... INFO @ Sat, 03 Apr 2021 07:35:14: end of X-cor INFO @ Sat, 03 Apr 2021 07:35:14: #2 finished! INFO @ Sat, 03 Apr 2021 07:35:14: #2 predicted fragment length is 67 bps INFO @ Sat, 03 Apr 2021 07:35:14: #2 alternative fragment length(s) may be 67 bps INFO @ Sat, 03 Apr 2021 07:35:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5010770/SRX5010770.20_model.r WARNING @ Sat, 03 Apr 2021 07:35:14: #2 Since the d (67) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:35:14: #2 You may need to consider one of the other alternative d(s): 67 WARNING @ Sat, 03 Apr 2021 07:35:14: #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 07:35:14: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:35:14: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:35:23: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5010770/SRX5010770.10_peaks.xls INFO @ Sat, 03 Apr 2021 07:35:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5010770/SRX5010770.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:35:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5010770/SRX5010770.10_summits.bed INFO @ Sat, 03 Apr 2021 07:35:24: Done! pass1 - making usageList (270 chroms): 2 millis pass2 - checking and writing primary data (4764 records, 4 fields): 14 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 07:35:40: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:35:54: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5010770/SRX5010770.20_peaks.xls INFO @ Sat, 03 Apr 2021 07:35:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5010770/SRX5010770.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:35:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5010770/SRX5010770.20_summits.bed INFO @ Sat, 03 Apr 2021 07:35:54: Done! pass1 - making usageList (142 chroms): 1 millis pass2 - checking and writing primary data (1702 records, 4 fields): 7 millis CompletedMACS2peakCalling