Job ID = 14170470 SRX = SRX8689036 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 4668833 spots for SRR12174390/SRR12174390.sra Written 4668833 spots for SRR12174390/SRR12174390.sra fastq に変換しました。 bowtie でマッピング中... Your job 14170871 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:02:30 4668833 reads; of these: 4668833 (100.00%) were unpaired; of these: 337102 (7.22%) aligned 0 times 2379619 (50.97%) aligned exactly 1 time 1952112 (41.81%) aligned >1 times 92.78% overall alignment rate Time searching: 00:02:30 Overall time: 00:02:30 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_rmdupse_core] 304507 / 4331731 = 0.0703 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 06:55:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8689036/SRX8689036.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8689036/SRX8689036.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8689036/SRX8689036.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8689036/SRX8689036.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, 11 Dec 2021 06:55:33: #1 read tag files... INFO @ Sat, 11 Dec 2021 06:55:33: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 06:55:43: 1000000 INFO @ Sat, 11 Dec 2021 06:55:53: 2000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 06:56:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8689036/SRX8689036.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8689036/SRX8689036.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8689036/SRX8689036.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8689036/SRX8689036.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, 11 Dec 2021 06:56:02: #1 read tag files... INFO @ Sat, 11 Dec 2021 06:56:02: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 06:56:02: 3000000 INFO @ Sat, 11 Dec 2021 06:56:11: 1000000 INFO @ Sat, 11 Dec 2021 06:56:12: 4000000 INFO @ Sat, 11 Dec 2021 06:56:12: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 06:56:12: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 06:56:12: #1 total tags in treatment: 4027224 INFO @ Sat, 11 Dec 2021 06:56:12: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 06:56:12: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 06:56:12: #1 tags after filtering in treatment: 4027224 INFO @ Sat, 11 Dec 2021 06:56:12: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 06:56:12: #1 finished! INFO @ Sat, 11 Dec 2021 06:56:12: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 06:56:12: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 06:56:13: #2 number of paired peaks: 1055 INFO @ Sat, 11 Dec 2021 06:56:13: start model_add_line... INFO @ Sat, 11 Dec 2021 06:56:13: start X-correlation... INFO @ Sat, 11 Dec 2021 06:56:13: end of X-cor INFO @ Sat, 11 Dec 2021 06:56:13: #2 finished! INFO @ Sat, 11 Dec 2021 06:56:13: #2 predicted fragment length is 51 bps INFO @ Sat, 11 Dec 2021 06:56:13: #2 alternative fragment length(s) may be 51 bps INFO @ Sat, 11 Dec 2021 06:56:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8689036/SRX8689036.05_model.r WARNING @ Sat, 11 Dec 2021 06:56:13: #2 Since the d (51) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 06:56:13: #2 You may need to consider one of the other alternative d(s): 51 WARNING @ Sat, 11 Dec 2021 06:56:13: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 06:56:13: #3 Call peaks... INFO @ Sat, 11 Dec 2021 06:56:13: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 06:56:19: 2000000 INFO @ Sat, 11 Dec 2021 06:56:25: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 06:56:28: 3000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 06:56:31: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8689036/SRX8689036.05_peaks.xls INFO @ Sat, 11 Dec 2021 06:56:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8689036/SRX8689036.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 06:56:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8689036/SRX8689036.05_summits.bed INFO @ Sat, 11 Dec 2021 06:56:31: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (1633 records, 4 fields): 50 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 06:56:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8689036/SRX8689036.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8689036/SRX8689036.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8689036/SRX8689036.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8689036/SRX8689036.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, 11 Dec 2021 06:56:33: #1 read tag files... INFO @ Sat, 11 Dec 2021 06:56:33: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 06:56:36: 4000000 INFO @ Sat, 11 Dec 2021 06:56:36: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 06:56:36: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 06:56:36: #1 total tags in treatment: 4027224 INFO @ Sat, 11 Dec 2021 06:56:36: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 06:56:36: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 06:56:36: #1 tags after filtering in treatment: 4027224 INFO @ Sat, 11 Dec 2021 06:56:36: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 06:56:36: #1 finished! INFO @ Sat, 11 Dec 2021 06:56:36: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 06:56:36: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 06:56:37: #2 number of paired peaks: 1055 INFO @ Sat, 11 Dec 2021 06:56:37: start model_add_line... INFO @ Sat, 11 Dec 2021 06:56:37: start X-correlation... INFO @ Sat, 11 Dec 2021 06:56:37: end of X-cor INFO @ Sat, 11 Dec 2021 06:56:37: #2 finished! INFO @ Sat, 11 Dec 2021 06:56:37: #2 predicted fragment length is 51 bps INFO @ Sat, 11 Dec 2021 06:56:37: #2 alternative fragment length(s) may be 51 bps INFO @ Sat, 11 Dec 2021 06:56:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8689036/SRX8689036.10_model.r WARNING @ Sat, 11 Dec 2021 06:56:37: #2 Since the d (51) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 06:56:37: #2 You may need to consider one of the other alternative d(s): 51 WARNING @ Sat, 11 Dec 2021 06:56:37: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 06:56:37: #3 Call peaks... INFO @ Sat, 11 Dec 2021 06:56:37: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 06:56:41: 1000000 INFO @ Sat, 11 Dec 2021 06:56:49: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 06:56:49: 2000000 INFO @ Sat, 11 Dec 2021 06:56:55: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8689036/SRX8689036.10_peaks.xls INFO @ Sat, 11 Dec 2021 06:56:55: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8689036/SRX8689036.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 06:56:55: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8689036/SRX8689036.10_summits.bed INFO @ Sat, 11 Dec 2021 06:56:55: Done! pass1 - making usageList (8 chroms): 1 millis pass2 - checking and writing primary data (1174 records, 4 fields): 23 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 06:56:58: 3000000 INFO @ Sat, 11 Dec 2021 06:57:06: 4000000 INFO @ Sat, 11 Dec 2021 06:57:06: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 06:57:06: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 06:57:06: #1 total tags in treatment: 4027224 INFO @ Sat, 11 Dec 2021 06:57:06: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 06:57:06: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 06:57:06: #1 tags after filtering in treatment: 4027224 INFO @ Sat, 11 Dec 2021 06:57:06: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 06:57:06: #1 finished! INFO @ Sat, 11 Dec 2021 06:57:06: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 06:57:06: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 06:57:06: #2 number of paired peaks: 1055 INFO @ Sat, 11 Dec 2021 06:57:06: start model_add_line... INFO @ Sat, 11 Dec 2021 06:57:06: start X-correlation... INFO @ Sat, 11 Dec 2021 06:57:06: end of X-cor INFO @ Sat, 11 Dec 2021 06:57:06: #2 finished! INFO @ Sat, 11 Dec 2021 06:57:06: #2 predicted fragment length is 51 bps INFO @ Sat, 11 Dec 2021 06:57:06: #2 alternative fragment length(s) may be 51 bps INFO @ Sat, 11 Dec 2021 06:57:06: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8689036/SRX8689036.20_model.r WARNING @ Sat, 11 Dec 2021 06:57:06: #2 Since the d (51) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 06:57:06: #2 You may need to consider one of the other alternative d(s): 51 WARNING @ Sat, 11 Dec 2021 06:57:06: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 06:57:06: #3 Call peaks... INFO @ Sat, 11 Dec 2021 06:57:06: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 06:57:19: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 06:57:25: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8689036/SRX8689036.20_peaks.xls INFO @ Sat, 11 Dec 2021 06:57:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8689036/SRX8689036.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 06:57:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8689036/SRX8689036.20_summits.bed INFO @ Sat, 11 Dec 2021 06:57:25: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (908 records, 4 fields): 54 millis CompletedMACS2peakCalling