Job ID = 12265101 SRX = SRX2661682 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: 00:06:01 24528274 reads; of these: 24528274 (100.00%) were unpaired; of these: 1536515 (6.26%) aligned 0 times 21128674 (86.14%) aligned exactly 1 time 1863085 (7.60%) aligned >1 times 93.74% overall alignment rate Time searching: 00:06:01 Overall time: 00:06:01 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] 10398387 / 22991759 = 0.4523 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 06:19:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2661682/SRX2661682.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2661682/SRX2661682.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2661682/SRX2661682.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2661682/SRX2661682.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 06:19:40: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:19:40: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:19:51: 1000000 INFO @ Sat, 03 Apr 2021 06:20:02: 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 06:20:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2661682/SRX2661682.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2661682/SRX2661682.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2661682/SRX2661682.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2661682/SRX2661682.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 06:20:10: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:20:10: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:20:12: 3000000 INFO @ Sat, 03 Apr 2021 06:20:19: 1000000 INFO @ Sat, 03 Apr 2021 06:20:22: 4000000 INFO @ Sat, 03 Apr 2021 06:20:27: 2000000 INFO @ Sat, 03 Apr 2021 06:20:32: 5000000 INFO @ Sat, 03 Apr 2021 06:20:35: 3000000 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 06:20:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2661682/SRX2661682.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2661682/SRX2661682.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2661682/SRX2661682.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2661682/SRX2661682.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 06:20:40: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:20:40: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:20:42: 6000000 INFO @ Sat, 03 Apr 2021 06:20:44: 4000000 INFO @ Sat, 03 Apr 2021 06:20:50: 1000000 INFO @ Sat, 03 Apr 2021 06:20:51: 7000000 INFO @ Sat, 03 Apr 2021 06:20:52: 5000000 INFO @ Sat, 03 Apr 2021 06:21:00: 2000000 INFO @ Sat, 03 Apr 2021 06:21:01: 6000000 INFO @ Sat, 03 Apr 2021 06:21:01: 8000000 INFO @ Sat, 03 Apr 2021 06:21:09: 7000000 INFO @ Sat, 03 Apr 2021 06:21:10: 3000000 INFO @ Sat, 03 Apr 2021 06:21:11: 9000000 INFO @ Sat, 03 Apr 2021 06:21:17: 8000000 INFO @ Sat, 03 Apr 2021 06:21:20: 4000000 INFO @ Sat, 03 Apr 2021 06:21:20: 10000000 INFO @ Sat, 03 Apr 2021 06:21:26: 9000000 INFO @ Sat, 03 Apr 2021 06:21:30: 5000000 INFO @ Sat, 03 Apr 2021 06:21:30: 11000000 INFO @ Sat, 03 Apr 2021 06:21:34: 10000000 INFO @ Sat, 03 Apr 2021 06:21:40: 12000000 INFO @ Sat, 03 Apr 2021 06:21:40: 6000000 INFO @ Sat, 03 Apr 2021 06:21:43: 11000000 INFO @ Sat, 03 Apr 2021 06:21:46: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:21:46: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:21:46: #1 total tags in treatment: 12593372 INFO @ Sat, 03 Apr 2021 06:21:46: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:21:46: #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 06:21:46: #1 tags after filtering in treatment: 12593326 INFO @ Sat, 03 Apr 2021 06:21:46: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:21:46: #1 finished! INFO @ Sat, 03 Apr 2021 06:21:46: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:21:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:21:48: #2 number of paired peaks: 2088 INFO @ Sat, 03 Apr 2021 06:21:48: start model_add_line... INFO @ Sat, 03 Apr 2021 06:21:48: start X-correlation... INFO @ Sat, 03 Apr 2021 06:21:48: end of X-cor INFO @ Sat, 03 Apr 2021 06:21:48: #2 finished! INFO @ Sat, 03 Apr 2021 06:21:48: #2 predicted fragment length is 72 bps INFO @ Sat, 03 Apr 2021 06:21:48: #2 alternative fragment length(s) may be 72 bps INFO @ Sat, 03 Apr 2021 06:21:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2661682/SRX2661682.05_model.r WARNING @ Sat, 03 Apr 2021 06:21:48: #2 Since the d (72) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:21:48: #2 You may need to consider one of the other alternative d(s): 72 WARNING @ Sat, 03 Apr 2021 06:21:48: #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 06:21:48: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:21:48: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:21:50: 7000000 INFO @ Sat, 03 Apr 2021 06:21:51: 12000000 INFO @ Sat, 03 Apr 2021 06:21:57: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:21:57: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:21:57: #1 total tags in treatment: 12593372 INFO @ Sat, 03 Apr 2021 06:21:57: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:21:57: #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 06:21:57: #1 tags after filtering in treatment: 12593326 INFO @ Sat, 03 Apr 2021 06:21:57: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:21:57: #1 finished! INFO @ Sat, 03 Apr 2021 06:21:57: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:21:57: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:21:59: #2 number of paired peaks: 2088 INFO @ Sat, 03 Apr 2021 06:21:59: start model_add_line... INFO @ Sat, 03 Apr 2021 06:21:59: start X-correlation... INFO @ Sat, 03 Apr 2021 06:21:59: end of X-cor INFO @ Sat, 03 Apr 2021 06:21:59: #2 finished! INFO @ Sat, 03 Apr 2021 06:21:59: #2 predicted fragment length is 72 bps INFO @ Sat, 03 Apr 2021 06:21:59: #2 alternative fragment length(s) may be 72 bps INFO @ Sat, 03 Apr 2021 06:21:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2661682/SRX2661682.10_model.r WARNING @ Sat, 03 Apr 2021 06:21:59: #2 Since the d (72) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:21:59: #2 You may need to consider one of the other alternative d(s): 72 WARNING @ Sat, 03 Apr 2021 06:21:59: #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 06:21:59: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:21:59: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:22:00: 8000000 INFO @ Sat, 03 Apr 2021 06:22:09: 9000000 INFO @ Sat, 03 Apr 2021 06:22:19: 10000000 INFO @ Sat, 03 Apr 2021 06:22:25: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:22:29: 11000000 BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:22:35: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:22:39: 12000000 INFO @ Sat, 03 Apr 2021 06:22:44: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2661682/SRX2661682.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:22:44: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2661682/SRX2661682.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:22:44: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2661682/SRX2661682.05_summits.bed INFO @ Sat, 03 Apr 2021 06:22:44: Done! pass1 - making usageList (148 chroms): 9 millis pass2 - checking and writing primary data (20209 records, 4 fields): 33 millis INFO @ Sat, 03 Apr 2021 06:22:45: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:22:45: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:22:45: #1 total tags in treatment: 12593372 INFO @ Sat, 03 Apr 2021 06:22:45: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:22:45: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:22:45: #1 tags after filtering in treatment: 12593326 INFO @ Sat, 03 Apr 2021 06:22:45: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:22:45: #1 finished! INFO @ Sat, 03 Apr 2021 06:22:45: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:22:45: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:22:47: #2 number of paired peaks: 2088 INFO @ Sat, 03 Apr 2021 06:22:47: start model_add_line... INFO @ Sat, 03 Apr 2021 06:22:47: start X-correlation... INFO @ Sat, 03 Apr 2021 06:22:47: end of X-cor INFO @ Sat, 03 Apr 2021 06:22:47: #2 finished! INFO @ Sat, 03 Apr 2021 06:22:47: #2 predicted fragment length is 72 bps INFO @ Sat, 03 Apr 2021 06:22:47: #2 alternative fragment length(s) may be 72 bps INFO @ Sat, 03 Apr 2021 06:22:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2661682/SRX2661682.20_model.r WARNING @ Sat, 03 Apr 2021 06:22:47: #2 Since the d (72) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:22:47: #2 You may need to consider one of the other alternative d(s): 72 WARNING @ Sat, 03 Apr 2021 06:22:47: #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 06:22:47: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:22:47: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:22:53: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2661682/SRX2661682.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:22:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2661682/SRX2661682.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:22:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2661682/SRX2661682.10_summits.bed INFO @ Sat, 03 Apr 2021 06:22:53: Done! pass1 - making usageList (114 chroms): 5 millis pass2 - checking and writing primary data (12495 records, 4 fields): 38 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:23:24: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:23:43: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2661682/SRX2661682.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:23:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2661682/SRX2661682.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:23:43: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2661682/SRX2661682.20_summits.bed INFO @ Sat, 03 Apr 2021 06:23:43: Done! pass1 - making usageList (66 chroms): 3 millis pass2 - checking and writing primary data (4658 records, 4 fields): 13 millis CompletedMACS2peakCalling