Job ID = 12265849 SRX = SRX7281019 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: 00:03:06 11486369 reads; of these: 11486369 (100.00%) were unpaired; of these: 7207917 (62.75%) aligned 0 times 3816107 (33.22%) aligned exactly 1 time 462345 (4.03%) aligned >1 times 37.25% overall alignment rate Time searching: 00:03:06 Overall time: 00:03:06 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_rmdupse_core] 1175575 / 4278452 = 0.2748 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 08:37:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7281019/SRX7281019.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7281019/SRX7281019.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7281019/SRX7281019.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7281019/SRX7281019.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 08:37:12: #1 read tag files... INFO @ Sat, 03 Apr 2021 08:37:12: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 08:37:22: 1000000 INFO @ Sat, 03 Apr 2021 08:37:31: 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 08:37:42: 3000000 INFO @ Sat, 03 Apr 2021 08:37:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7281019/SRX7281019.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7281019/SRX7281019.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7281019/SRX7281019.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7281019/SRX7281019.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 08:37:42: #1 read tag files... INFO @ Sat, 03 Apr 2021 08:37:42: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 08:37:44: #1 tag size is determined as 74 bps INFO @ Sat, 03 Apr 2021 08:37:44: #1 tag size = 74 INFO @ Sat, 03 Apr 2021 08:37:44: #1 total tags in treatment: 3102877 INFO @ Sat, 03 Apr 2021 08:37:44: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 08:37:44: #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 08:37:44: #1 tags after filtering in treatment: 3102650 INFO @ Sat, 03 Apr 2021 08:37:44: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 08:37:44: #1 finished! INFO @ Sat, 03 Apr 2021 08:37:44: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 08:37:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 08:37:45: #2 number of paired peaks: 4634 INFO @ Sat, 03 Apr 2021 08:37:45: start model_add_line... INFO @ Sat, 03 Apr 2021 08:37:45: start X-correlation... INFO @ Sat, 03 Apr 2021 08:37:45: end of X-cor INFO @ Sat, 03 Apr 2021 08:37:45: #2 finished! INFO @ Sat, 03 Apr 2021 08:37:45: #2 predicted fragment length is 96 bps INFO @ Sat, 03 Apr 2021 08:37:45: #2 alternative fragment length(s) may be 96 bps INFO @ Sat, 03 Apr 2021 08:37:45: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7281019/SRX7281019.05_model.r WARNING @ Sat, 03 Apr 2021 08:37:45: #2 Since the d (96) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 08:37:45: #2 You may need to consider one of the other alternative d(s): 96 WARNING @ Sat, 03 Apr 2021 08:37:45: #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 08:37:45: #3 Call peaks... INFO @ Sat, 03 Apr 2021 08:37:45: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 08:37:51: 1000000 INFO @ Sat, 03 Apr 2021 08:37:52: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 08:37:56: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7281019/SRX7281019.05_peaks.xls INFO @ Sat, 03 Apr 2021 08:37:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7281019/SRX7281019.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 08:37:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7281019/SRX7281019.05_summits.bed INFO @ Sat, 03 Apr 2021 08:37:56: Done! pass1 - making usageList (130 chroms): 2 millis pass2 - checking and writing primary data (10701 records, 4 fields): 21 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 08:37:59: 2000000 INFO @ Sat, 03 Apr 2021 08:38:08: 3000000 INFO @ Sat, 03 Apr 2021 08:38:09: #1 tag size is determined as 74 bps INFO @ Sat, 03 Apr 2021 08:38:09: #1 tag size = 74 INFO @ Sat, 03 Apr 2021 08:38:09: #1 total tags in treatment: 3102877 INFO @ Sat, 03 Apr 2021 08:38:09: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 08:38:09: #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 08:38:10: #1 tags after filtering in treatment: 3102650 INFO @ Sat, 03 Apr 2021 08:38:10: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 08:38:10: #1 finished! INFO @ Sat, 03 Apr 2021 08:38:10: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 08:38:10: #2 looking for paired plus/minus strand peaks... 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 08:38:10: #2 number of paired peaks: 4634 INFO @ Sat, 03 Apr 2021 08:38:10: start model_add_line... INFO @ Sat, 03 Apr 2021 08:38:10: start X-correlation... INFO @ Sat, 03 Apr 2021 08:38:10: end of X-cor INFO @ Sat, 03 Apr 2021 08:38:10: #2 finished! INFO @ Sat, 03 Apr 2021 08:38:10: #2 predicted fragment length is 96 bps INFO @ Sat, 03 Apr 2021 08:38:10: #2 alternative fragment length(s) may be 96 bps INFO @ Sat, 03 Apr 2021 08:38:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7281019/SRX7281019.10_model.r WARNING @ Sat, 03 Apr 2021 08:38:10: #2 Since the d (96) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 08:38:10: #2 You may need to consider one of the other alternative d(s): 96 WARNING @ Sat, 03 Apr 2021 08:38:10: #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 08:38:10: #3 Call peaks... INFO @ Sat, 03 Apr 2021 08:38:10: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 08:38:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7281019/SRX7281019.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7281019/SRX7281019.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7281019/SRX7281019.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7281019/SRX7281019.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 08:38:12: #1 read tag files... INFO @ Sat, 03 Apr 2021 08:38:12: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 08:38:17: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 08:38:21: 1000000 INFO @ Sat, 03 Apr 2021 08:38:21: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7281019/SRX7281019.10_peaks.xls INFO @ Sat, 03 Apr 2021 08:38:21: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7281019/SRX7281019.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 08:38:21: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7281019/SRX7281019.10_summits.bed INFO @ Sat, 03 Apr 2021 08:38:21: Done! pass1 - making usageList (87 chroms): 2 millis pass2 - checking and writing primary data (5942 records, 4 fields): 14 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 08:38:29: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 08:38:39: 3000000 INFO @ Sat, 03 Apr 2021 08:38:40: #1 tag size is determined as 74 bps INFO @ Sat, 03 Apr 2021 08:38:40: #1 tag size = 74 INFO @ Sat, 03 Apr 2021 08:38:40: #1 total tags in treatment: 3102877 INFO @ Sat, 03 Apr 2021 08:38:40: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 08:38:40: #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 08:38:40: #1 tags after filtering in treatment: 3102650 INFO @ Sat, 03 Apr 2021 08:38:40: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 08:38:40: #1 finished! INFO @ Sat, 03 Apr 2021 08:38:40: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 08:38:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 08:38:41: #2 number of paired peaks: 4634 INFO @ Sat, 03 Apr 2021 08:38:41: start model_add_line... INFO @ Sat, 03 Apr 2021 08:38:41: start X-correlation... INFO @ Sat, 03 Apr 2021 08:38:41: end of X-cor INFO @ Sat, 03 Apr 2021 08:38:41: #2 finished! INFO @ Sat, 03 Apr 2021 08:38:41: #2 predicted fragment length is 96 bps INFO @ Sat, 03 Apr 2021 08:38:41: #2 alternative fragment length(s) may be 96 bps INFO @ Sat, 03 Apr 2021 08:38:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7281019/SRX7281019.20_model.r WARNING @ Sat, 03 Apr 2021 08:38:41: #2 Since the d (96) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 08:38:41: #2 You may need to consider one of the other alternative d(s): 96 WARNING @ Sat, 03 Apr 2021 08:38:41: #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 08:38:41: #3 Call peaks... INFO @ Sat, 03 Apr 2021 08:38:41: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 08:38:48: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 08:38:51: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7281019/SRX7281019.20_peaks.xls INFO @ Sat, 03 Apr 2021 08:38:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7281019/SRX7281019.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 08:38:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7281019/SRX7281019.20_summits.bed INFO @ Sat, 03 Apr 2021 08:38:51: Done! pass1 - making usageList (54 chroms): 2 millis pass2 - checking and writing primary data (2079 records, 4 fields): 7 millis CompletedMACS2peakCalling