Job ID = 12265433 SRX = SRX5010758 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: 00:04:20 16827993 reads; of these: 16827993 (100.00%) were unpaired; of these: 612124 (3.64%) aligned 0 times 12842488 (76.32%) aligned exactly 1 time 3373381 (20.05%) aligned >1 times 96.36% overall alignment rate Time searching: 00:04:20 Overall time: 00:04:20 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 8 files... [bam_rmdupse_core] 8047457 / 16215869 = 0.4963 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 07:08:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5010758/SRX5010758.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5010758/SRX5010758.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5010758/SRX5010758.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5010758/SRX5010758.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 07:08:36: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:08:36: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:08:41: 1000000 INFO @ Sat, 03 Apr 2021 07:08:46: 2000000 INFO @ Sat, 03 Apr 2021 07:08:52: 3000000 INFO @ Sat, 03 Apr 2021 07:08:57: 4000000 INFO @ Sat, 03 Apr 2021 07:09:02: 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 07:09:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5010758/SRX5010758.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5010758/SRX5010758.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5010758/SRX5010758.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5010758/SRX5010758.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 07:09:06: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:09:06: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:09:08: 6000000 INFO @ Sat, 03 Apr 2021 07:09:12: 1000000 INFO @ Sat, 03 Apr 2021 07:09:14: 7000000 INFO @ Sat, 03 Apr 2021 07:09:18: 2000000 INFO @ Sat, 03 Apr 2021 07:09:20: 8000000 INFO @ Sat, 03 Apr 2021 07:09:21: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:09:21: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:09:21: #1 total tags in treatment: 8168412 INFO @ Sat, 03 Apr 2021 07:09:21: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:09:21: #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 07:09:22: #1 tags after filtering in treatment: 8168284 INFO @ Sat, 03 Apr 2021 07:09:22: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:09:22: #1 finished! INFO @ Sat, 03 Apr 2021 07:09:22: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:09:22: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:09:22: #2 number of paired peaks: 2259 INFO @ Sat, 03 Apr 2021 07:09:22: start model_add_line... INFO @ Sat, 03 Apr 2021 07:09:22: start X-correlation... INFO @ Sat, 03 Apr 2021 07:09:22: end of X-cor INFO @ Sat, 03 Apr 2021 07:09:22: #2 finished! INFO @ Sat, 03 Apr 2021 07:09:22: #2 predicted fragment length is 85 bps INFO @ Sat, 03 Apr 2021 07:09:22: #2 alternative fragment length(s) may be 85 bps INFO @ Sat, 03 Apr 2021 07:09:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5010758/SRX5010758.05_model.r WARNING @ Sat, 03 Apr 2021 07:09:22: #2 Since the d (85) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:09:22: #2 You may need to consider one of the other alternative d(s): 85 WARNING @ Sat, 03 Apr 2021 07:09:22: #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 07:09:22: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:09:22: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:09:23: 3000000 INFO @ Sat, 03 Apr 2021 07:09:29: 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 07:09:35: 5000000 INFO @ Sat, 03 Apr 2021 07:09:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5010758/SRX5010758.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5010758/SRX5010758.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5010758/SRX5010758.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5010758/SRX5010758.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 07:09:36: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:09:36: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:09:39: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:09:41: 6000000 INFO @ Sat, 03 Apr 2021 07:09:42: 1000000 INFO @ Sat, 03 Apr 2021 07:09:47: 7000000 INFO @ Sat, 03 Apr 2021 07:09:48: 2000000 INFO @ Sat, 03 Apr 2021 07:09:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5010758/SRX5010758.05_peaks.xls INFO @ Sat, 03 Apr 2021 07:09:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5010758/SRX5010758.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:09:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5010758/SRX5010758.05_summits.bed INFO @ Sat, 03 Apr 2021 07:09:49: Done! pass1 - making usageList (369 chroms): 2 millis pass2 - checking and writing primary data (9400 records, 4 fields): 20 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 07:09:53: 8000000 INFO @ Sat, 03 Apr 2021 07:09:54: 3000000 INFO @ Sat, 03 Apr 2021 07:09:55: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:09:55: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:09:55: #1 total tags in treatment: 8168412 INFO @ Sat, 03 Apr 2021 07:09:55: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:09:55: #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 07:09:55: #1 tags after filtering in treatment: 8168284 INFO @ Sat, 03 Apr 2021 07:09:55: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:09:55: #1 finished! INFO @ Sat, 03 Apr 2021 07:09:55: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:09:55: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:09:56: #2 number of paired peaks: 2259 INFO @ Sat, 03 Apr 2021 07:09:56: start model_add_line... INFO @ Sat, 03 Apr 2021 07:09:56: start X-correlation... INFO @ Sat, 03 Apr 2021 07:09:56: end of X-cor INFO @ Sat, 03 Apr 2021 07:09:56: #2 finished! INFO @ Sat, 03 Apr 2021 07:09:56: #2 predicted fragment length is 85 bps INFO @ Sat, 03 Apr 2021 07:09:56: #2 alternative fragment length(s) may be 85 bps INFO @ Sat, 03 Apr 2021 07:09:56: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5010758/SRX5010758.10_model.r WARNING @ Sat, 03 Apr 2021 07:09:56: #2 Since the d (85) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:09:56: #2 You may need to consider one of the other alternative d(s): 85 WARNING @ Sat, 03 Apr 2021 07:09:56: #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 07:09:56: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:09:56: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:10:00: 4000000 INFO @ Sat, 03 Apr 2021 07:10:06: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 07:10:11: 6000000 INFO @ Sat, 03 Apr 2021 07:10:14: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:10:17: 7000000 INFO @ Sat, 03 Apr 2021 07:10:23: 8000000 INFO @ Sat, 03 Apr 2021 07:10:24: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:10:24: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:10:24: #1 total tags in treatment: 8168412 INFO @ Sat, 03 Apr 2021 07:10:24: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:10:24: #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 07:10:24: #1 tags after filtering in treatment: 8168284 INFO @ Sat, 03 Apr 2021 07:10:24: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:10:24: #1 finished! INFO @ Sat, 03 Apr 2021 07:10:24: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:10:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:10:24: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5010758/SRX5010758.10_peaks.xls INFO @ Sat, 03 Apr 2021 07:10:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5010758/SRX5010758.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:10:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5010758/SRX5010758.10_summits.bed INFO @ Sat, 03 Apr 2021 07:10:24: Done! pass1 - making usageList (208 chroms): 2 millis pass2 - checking and writing primary data (5353 records, 4 fields): 17 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 07:10:25: #2 number of paired peaks: 2259 INFO @ Sat, 03 Apr 2021 07:10:25: start model_add_line... INFO @ Sat, 03 Apr 2021 07:10:25: start X-correlation... INFO @ Sat, 03 Apr 2021 07:10:25: end of X-cor INFO @ Sat, 03 Apr 2021 07:10:25: #2 finished! INFO @ Sat, 03 Apr 2021 07:10:25: #2 predicted fragment length is 85 bps INFO @ Sat, 03 Apr 2021 07:10:25: #2 alternative fragment length(s) may be 85 bps INFO @ Sat, 03 Apr 2021 07:10:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5010758/SRX5010758.20_model.r WARNING @ Sat, 03 Apr 2021 07:10:25: #2 Since the d (85) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:10:25: #2 You may need to consider one of the other alternative d(s): 85 WARNING @ Sat, 03 Apr 2021 07:10:25: #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 07:10:25: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:10:25: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 07:10:43: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:10:52: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5010758/SRX5010758.20_peaks.xls INFO @ Sat, 03 Apr 2021 07:10:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5010758/SRX5010758.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:10:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5010758/SRX5010758.20_summits.bed INFO @ Sat, 03 Apr 2021 07:10:52: Done! pass1 - making usageList (136 chroms): 1 millis pass2 - checking and writing primary data (2417 records, 4 fields): 8 millis CompletedMACS2peakCalling