Job ID = 12265472 SRX = SRX5010766 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: 00:08:17 33874296 reads; of these: 33874296 (100.00%) were unpaired; of these: 1390662 (4.11%) aligned 0 times 26604121 (78.54%) aligned exactly 1 time 5879513 (17.36%) aligned >1 times 95.89% overall alignment rate Time searching: 00:08:17 Overall time: 00:08:17 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] 21218191 / 32483634 = 0.6532 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 07:24:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5010766/SRX5010766.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5010766/SRX5010766.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5010766/SRX5010766.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5010766/SRX5010766.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 07:24:41: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:24:41: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:24:46: 1000000 INFO @ Sat, 03 Apr 2021 07:24:51: 2000000 INFO @ Sat, 03 Apr 2021 07:24:56: 3000000 INFO @ Sat, 03 Apr 2021 07:25:02: 4000000 INFO @ Sat, 03 Apr 2021 07:25:07: 5000000 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 07:25:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5010766/SRX5010766.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5010766/SRX5010766.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5010766/SRX5010766.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5010766/SRX5010766.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 07:25:11: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:25:11: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:25:12: 6000000 INFO @ Sat, 03 Apr 2021 07:25:17: 1000000 INFO @ Sat, 03 Apr 2021 07:25:17: 7000000 INFO @ Sat, 03 Apr 2021 07:25:22: 2000000 INFO @ Sat, 03 Apr 2021 07:25:22: 8000000 INFO @ Sat, 03 Apr 2021 07:25:28: 3000000 INFO @ Sat, 03 Apr 2021 07:25:28: 9000000 INFO @ Sat, 03 Apr 2021 07:25:33: 4000000 INFO @ Sat, 03 Apr 2021 07:25:34: 10000000 INFO @ Sat, 03 Apr 2021 07:25:38: 5000000 INFO @ Sat, 03 Apr 2021 07:25:39: 11000000 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 07:25:41: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:25:41: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:25:41: #1 total tags in treatment: 11265443 INFO @ Sat, 03 Apr 2021 07:25:41: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:25:41: #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 07:25:41: #1 tags after filtering in treatment: 11265364 INFO @ Sat, 03 Apr 2021 07:25:41: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:25:41: #1 finished! INFO @ Sat, 03 Apr 2021 07:25:41: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:25:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:25:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5010766/SRX5010766.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5010766/SRX5010766.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5010766/SRX5010766.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5010766/SRX5010766.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 07:25:41: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:25:41: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:25:42: #2 number of paired peaks: 2785 INFO @ Sat, 03 Apr 2021 07:25:42: start model_add_line... INFO @ Sat, 03 Apr 2021 07:25:42: start X-correlation... INFO @ Sat, 03 Apr 2021 07:25:42: end of X-cor INFO @ Sat, 03 Apr 2021 07:25:42: #2 finished! INFO @ Sat, 03 Apr 2021 07:25:42: #2 predicted fragment length is 73 bps INFO @ Sat, 03 Apr 2021 07:25:42: #2 alternative fragment length(s) may be 73 bps INFO @ Sat, 03 Apr 2021 07:25:42: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5010766/SRX5010766.05_model.r WARNING @ Sat, 03 Apr 2021 07:25:42: #2 Since the d (73) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:25:42: #2 You may need to consider one of the other alternative d(s): 73 WARNING @ Sat, 03 Apr 2021 07:25:42: #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 07:25:42: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:25:42: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:25:44: 6000000 INFO @ Sat, 03 Apr 2021 07:25:47: 1000000 INFO @ Sat, 03 Apr 2021 07:25:49: 7000000 INFO @ Sat, 03 Apr 2021 07:25:52: 2000000 INFO @ Sat, 03 Apr 2021 07:25:54: 8000000 INFO @ Sat, 03 Apr 2021 07:25:58: 3000000 INFO @ Sat, 03 Apr 2021 07:26:00: 9000000 INFO @ Sat, 03 Apr 2021 07:26:03: 4000000 INFO @ Sat, 03 Apr 2021 07:26:06: 10000000 INFO @ Sat, 03 Apr 2021 07:26:06: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:26:09: 5000000 INFO @ Sat, 03 Apr 2021 07:26:11: 11000000 INFO @ Sat, 03 Apr 2021 07:26:13: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:26:13: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:26:13: #1 total tags in treatment: 11265443 INFO @ Sat, 03 Apr 2021 07:26:13: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:26:13: #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 07:26:13: #1 tags after filtering in treatment: 11265364 INFO @ Sat, 03 Apr 2021 07:26:13: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:26:13: #1 finished! INFO @ Sat, 03 Apr 2021 07:26:13: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:26:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:26:14: 6000000 INFO @ Sat, 03 Apr 2021 07:26:14: #2 number of paired peaks: 2785 INFO @ Sat, 03 Apr 2021 07:26:14: start model_add_line... INFO @ Sat, 03 Apr 2021 07:26:14: start X-correlation... INFO @ Sat, 03 Apr 2021 07:26:14: end of X-cor INFO @ Sat, 03 Apr 2021 07:26:14: #2 finished! INFO @ Sat, 03 Apr 2021 07:26:14: #2 predicted fragment length is 73 bps INFO @ Sat, 03 Apr 2021 07:26:14: #2 alternative fragment length(s) may be 73 bps INFO @ Sat, 03 Apr 2021 07:26:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5010766/SRX5010766.10_model.r WARNING @ Sat, 03 Apr 2021 07:26:14: #2 Since the d (73) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:26:14: #2 You may need to consider one of the other alternative d(s): 73 WARNING @ Sat, 03 Apr 2021 07:26:14: #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 07:26:14: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:26:14: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:26:19: 7000000 INFO @ Sat, 03 Apr 2021 07:26:20: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5010766/SRX5010766.05_peaks.xls INFO @ Sat, 03 Apr 2021 07:26:20: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5010766/SRX5010766.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:26:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5010766/SRX5010766.05_summits.bed INFO @ Sat, 03 Apr 2021 07:26:20: Done! pass1 - making usageList (418 chroms): 3 millis pass2 - checking and writing primary data (12717 records, 4 fields): 22 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 07:26:24: 8000000 INFO @ Sat, 03 Apr 2021 07:26:30: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 07:26:35: 10000000 INFO @ Sat, 03 Apr 2021 07:26:40: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:26:40: 11000000 INFO @ Sat, 03 Apr 2021 07:26:42: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:26:42: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:26:42: #1 total tags in treatment: 11265443 INFO @ Sat, 03 Apr 2021 07:26:42: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:26:42: #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 07:26:42: #1 tags after filtering in treatment: 11265364 INFO @ Sat, 03 Apr 2021 07:26:42: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:26:42: #1 finished! INFO @ Sat, 03 Apr 2021 07:26:42: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:26:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:26:43: #2 number of paired peaks: 2785 INFO @ Sat, 03 Apr 2021 07:26:43: start model_add_line... INFO @ Sat, 03 Apr 2021 07:26:43: start X-correlation... INFO @ Sat, 03 Apr 2021 07:26:43: end of X-cor INFO @ Sat, 03 Apr 2021 07:26:43: #2 finished! INFO @ Sat, 03 Apr 2021 07:26:43: #2 predicted fragment length is 73 bps INFO @ Sat, 03 Apr 2021 07:26:43: #2 alternative fragment length(s) may be 73 bps INFO @ Sat, 03 Apr 2021 07:26:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5010766/SRX5010766.20_model.r WARNING @ Sat, 03 Apr 2021 07:26:43: #2 Since the d (73) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:26:43: #2 You may need to consider one of the other alternative d(s): 73 WARNING @ Sat, 03 Apr 2021 07:26:43: #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 07:26:43: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:26:43: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:26:53: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5010766/SRX5010766.10_peaks.xls INFO @ Sat, 03 Apr 2021 07:26:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5010766/SRX5010766.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:26:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5010766/SRX5010766.10_summits.bed INFO @ Sat, 03 Apr 2021 07:26:54: Done! pass1 - making usageList (238 chroms): 2 millis pass2 - checking and writing primary data (6808 records, 4 fields): 13 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 07:27:09: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:27:22: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5010766/SRX5010766.20_peaks.xls INFO @ Sat, 03 Apr 2021 07:27:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5010766/SRX5010766.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:27:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5010766/SRX5010766.20_summits.bed INFO @ Sat, 03 Apr 2021 07:27:22: Done! pass1 - making usageList (149 chroms): 1 millis pass2 - checking and writing primary data (2344 records, 4 fields): 8 millis CompletedMACS2peakCalling