Job ID = 12264869 SRX = SRX3032268 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 10210583 spots for SRR5863958/SRR5863958.sra Written 10210583 spots for SRR5863958/SRR5863958.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265027 ("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: 00:02:54 10210583 reads; of these: 10210583 (100.00%) were unpaired; of these: 890490 (8.72%) aligned 0 times 8165126 (79.97%) aligned exactly 1 time 1154967 (11.31%) aligned >1 times 91.28% overall alignment rate Time searching: 00:02:54 Overall time: 00:02:54 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] 3434114 / 9320093 = 0.3685 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 06:00:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3032268/SRX3032268.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3032268/SRX3032268.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3032268/SRX3032268.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3032268/SRX3032268.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 06:00:10: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:00:10: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:00:20: 1000000 INFO @ Sat, 03 Apr 2021 06:00:31: 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 06:00:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3032268/SRX3032268.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3032268/SRX3032268.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3032268/SRX3032268.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3032268/SRX3032268.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 06:00:40: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:00:40: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:00:41: 3000000 INFO @ Sat, 03 Apr 2021 06:00:50: 1000000 INFO @ Sat, 03 Apr 2021 06:00:53: 4000000 INFO @ Sat, 03 Apr 2021 06:01:00: 2000000 INFO @ Sat, 03 Apr 2021 06:01:04: 5000000 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 06:01:09: 3000000 INFO @ Sat, 03 Apr 2021 06:01:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3032268/SRX3032268.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3032268/SRX3032268.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3032268/SRX3032268.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3032268/SRX3032268.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 06:01:10: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:01:10: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:01:14: #1 tag size is determined as 51 bps INFO @ Sat, 03 Apr 2021 06:01:14: #1 tag size = 51 INFO @ Sat, 03 Apr 2021 06:01:14: #1 total tags in treatment: 5885979 INFO @ Sat, 03 Apr 2021 06:01:14: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:01:14: #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 06:01:14: #1 tags after filtering in treatment: 5885979 INFO @ Sat, 03 Apr 2021 06:01:14: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:01:14: #1 finished! INFO @ Sat, 03 Apr 2021 06:01:14: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:01:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:01:15: #2 number of paired peaks: 5745 INFO @ Sat, 03 Apr 2021 06:01:15: start model_add_line... INFO @ Sat, 03 Apr 2021 06:01:15: start X-correlation... INFO @ Sat, 03 Apr 2021 06:01:15: end of X-cor INFO @ Sat, 03 Apr 2021 06:01:15: #2 finished! INFO @ Sat, 03 Apr 2021 06:01:15: #2 predicted fragment length is 98 bps INFO @ Sat, 03 Apr 2021 06:01:15: #2 alternative fragment length(s) may be 98 bps INFO @ Sat, 03 Apr 2021 06:01:15: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3032268/SRX3032268.05_model.r WARNING @ Sat, 03 Apr 2021 06:01:15: #2 Since the d (98) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:01:15: #2 You may need to consider one of the other alternative d(s): 98 WARNING @ Sat, 03 Apr 2021 06:01:15: #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 06:01:15: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:01:15: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:01:19: 4000000 INFO @ Sat, 03 Apr 2021 06:01:22: 1000000 INFO @ Sat, 03 Apr 2021 06:01:29: 5000000 INFO @ Sat, 03 Apr 2021 06:01:34: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:01:35: 2000000 INFO @ Sat, 03 Apr 2021 06:01:37: #1 tag size is determined as 51 bps INFO @ Sat, 03 Apr 2021 06:01:37: #1 tag size = 51 INFO @ Sat, 03 Apr 2021 06:01:37: #1 total tags in treatment: 5885979 INFO @ Sat, 03 Apr 2021 06:01:37: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:01:37: #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 06:01:37: #1 tags after filtering in treatment: 5885979 INFO @ Sat, 03 Apr 2021 06:01:37: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:01:37: #1 finished! INFO @ Sat, 03 Apr 2021 06:01:37: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:01:37: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:01:38: #2 number of paired peaks: 5745 INFO @ Sat, 03 Apr 2021 06:01:38: start model_add_line... INFO @ Sat, 03 Apr 2021 06:01:38: start X-correlation... INFO @ Sat, 03 Apr 2021 06:01:38: end of X-cor INFO @ Sat, 03 Apr 2021 06:01:38: #2 finished! INFO @ Sat, 03 Apr 2021 06:01:38: #2 predicted fragment length is 98 bps INFO @ Sat, 03 Apr 2021 06:01:38: #2 alternative fragment length(s) may be 98 bps INFO @ Sat, 03 Apr 2021 06:01:38: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3032268/SRX3032268.10_model.r WARNING @ Sat, 03 Apr 2021 06:01:38: #2 Since the d (98) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:01:39: #2 You may need to consider one of the other alternative d(s): 98 WARNING @ Sat, 03 Apr 2021 06:01:39: #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 06:01:39: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:01:39: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:01:44: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3032268/SRX3032268.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:01:44: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3032268/SRX3032268.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:01:44: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3032268/SRX3032268.05_summits.bed INFO @ Sat, 03 Apr 2021 06:01:45: Done! pass1 - making usageList (15 chroms): 8 millis pass2 - checking and writing primary data (17543 records, 4 fields): 23 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:01:48: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:01:57: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:02:01: 4000000 INFO @ Sat, 03 Apr 2021 06:02:08: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3032268/SRX3032268.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:02:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3032268/SRX3032268.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:02:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3032268/SRX3032268.10_summits.bed INFO @ Sat, 03 Apr 2021 06:02:08: Done! pass1 - making usageList (14 chroms): 6 millis pass2 - checking and writing primary data (11014 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:02:13: 5000000 BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:02:23: #1 tag size is determined as 51 bps INFO @ Sat, 03 Apr 2021 06:02:23: #1 tag size = 51 INFO @ Sat, 03 Apr 2021 06:02:23: #1 total tags in treatment: 5885979 INFO @ Sat, 03 Apr 2021 06:02:23: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:02:23: #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 06:02:23: #1 tags after filtering in treatment: 5885979 INFO @ Sat, 03 Apr 2021 06:02:23: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:02:23: #1 finished! INFO @ Sat, 03 Apr 2021 06:02:23: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:02:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:02:24: #2 number of paired peaks: 5745 INFO @ Sat, 03 Apr 2021 06:02:24: start model_add_line... INFO @ Sat, 03 Apr 2021 06:02:24: start X-correlation... INFO @ Sat, 03 Apr 2021 06:02:24: end of X-cor INFO @ Sat, 03 Apr 2021 06:02:24: #2 finished! INFO @ Sat, 03 Apr 2021 06:02:24: #2 predicted fragment length is 98 bps INFO @ Sat, 03 Apr 2021 06:02:24: #2 alternative fragment length(s) may be 98 bps INFO @ Sat, 03 Apr 2021 06:02:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3032268/SRX3032268.20_model.r WARNING @ Sat, 03 Apr 2021 06:02:24: #2 Since the d (98) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:02:24: #2 You may need to consider one of the other alternative d(s): 98 WARNING @ Sat, 03 Apr 2021 06:02:24: #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 06:02:24: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:02:24: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:02:42: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:02:52: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3032268/SRX3032268.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:02:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3032268/SRX3032268.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:02:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3032268/SRX3032268.20_summits.bed INFO @ Sat, 03 Apr 2021 06:02:52: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (4895 records, 4 fields): 27 millis CompletedMACS2peakCalling