Job ID = 12265939 SRX = SRX7281029 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: 00:07:44 26663778 reads; of these: 26663778 (100.00%) were unpaired; of these: 17709917 (66.42%) aligned 0 times 7254452 (27.21%) aligned exactly 1 time 1699409 (6.37%) aligned >1 times 33.58% overall alignment rate Time searching: 00:07:44 Overall time: 00:07:44 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] 4317148 / 8953861 = 0.4822 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 08:49:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7281029/SRX7281029.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7281029/SRX7281029.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7281029/SRX7281029.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7281029/SRX7281029.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 08:49:32: #1 read tag files... INFO @ Sat, 03 Apr 2021 08:49:32: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 08:49:41: 1000000 INFO @ Sat, 03 Apr 2021 08:49:50: 2000000 INFO @ Sat, 03 Apr 2021 08:49:58: 3000000 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 08:50:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7281029/SRX7281029.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7281029/SRX7281029.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7281029/SRX7281029.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7281029/SRX7281029.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 08:50:02: #1 read tag files... INFO @ Sat, 03 Apr 2021 08:50:02: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 08:50:07: 4000000 INFO @ Sat, 03 Apr 2021 08:50:10: 1000000 INFO @ Sat, 03 Apr 2021 08:50:13: #1 tag size is determined as 74 bps INFO @ Sat, 03 Apr 2021 08:50:13: #1 tag size = 74 INFO @ Sat, 03 Apr 2021 08:50:13: #1 total tags in treatment: 4636713 INFO @ Sat, 03 Apr 2021 08:50:13: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 08:50:13: #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 08:50:13: #1 tags after filtering in treatment: 4636589 INFO @ Sat, 03 Apr 2021 08:50:13: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 08:50:13: #1 finished! INFO @ Sat, 03 Apr 2021 08:50:13: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 08:50:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 08:50:14: #2 number of paired peaks: 3711 INFO @ Sat, 03 Apr 2021 08:50:14: start model_add_line... INFO @ Sat, 03 Apr 2021 08:50:14: start X-correlation... INFO @ Sat, 03 Apr 2021 08:50:14: end of X-cor INFO @ Sat, 03 Apr 2021 08:50:14: #2 finished! INFO @ Sat, 03 Apr 2021 08:50:14: #2 predicted fragment length is 103 bps INFO @ Sat, 03 Apr 2021 08:50:14: #2 alternative fragment length(s) may be 103 bps INFO @ Sat, 03 Apr 2021 08:50:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7281029/SRX7281029.05_model.r WARNING @ Sat, 03 Apr 2021 08:50:14: #2 Since the d (103) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 08:50:14: #2 You may need to consider one of the other alternative d(s): 103 WARNING @ Sat, 03 Apr 2021 08:50:14: #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 08:50:14: #3 Call peaks... INFO @ Sat, 03 Apr 2021 08:50:14: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 08:50:18: 2000000 INFO @ Sat, 03 Apr 2021 08:50:25: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 08:50:26: 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 08:50:31: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7281029/SRX7281029.05_peaks.xls INFO @ Sat, 03 Apr 2021 08:50:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7281029/SRX7281029.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 08:50:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7281029/SRX7281029.05_summits.bed INFO @ Sat, 03 Apr 2021 08:50:31: Done! pass1 - making usageList (227 chroms): 3 millis pass2 - checking and writing primary data (10718 records, 4 fields): 26 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 08:50:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7281029/SRX7281029.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7281029/SRX7281029.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7281029/SRX7281029.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7281029/SRX7281029.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 08:50:32: #1 read tag files... INFO @ Sat, 03 Apr 2021 08:50:32: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 08:50:35: 4000000 INFO @ Sat, 03 Apr 2021 08:50:40: 1000000 INFO @ Sat, 03 Apr 2021 08:50:40: #1 tag size is determined as 74 bps INFO @ Sat, 03 Apr 2021 08:50:40: #1 tag size = 74 INFO @ Sat, 03 Apr 2021 08:50:40: #1 total tags in treatment: 4636713 INFO @ Sat, 03 Apr 2021 08:50:40: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 08:50:40: #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 08:50:41: #1 tags after filtering in treatment: 4636589 INFO @ Sat, 03 Apr 2021 08:50:41: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 08:50:41: #1 finished! INFO @ Sat, 03 Apr 2021 08:50:41: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 08:50:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 08:50:41: #2 number of paired peaks: 3711 INFO @ Sat, 03 Apr 2021 08:50:41: start model_add_line... INFO @ Sat, 03 Apr 2021 08:50:42: start X-correlation... INFO @ Sat, 03 Apr 2021 08:50:42: end of X-cor INFO @ Sat, 03 Apr 2021 08:50:42: #2 finished! INFO @ Sat, 03 Apr 2021 08:50:42: #2 predicted fragment length is 103 bps INFO @ Sat, 03 Apr 2021 08:50:42: #2 alternative fragment length(s) may be 103 bps INFO @ Sat, 03 Apr 2021 08:50:42: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7281029/SRX7281029.10_model.r WARNING @ Sat, 03 Apr 2021 08:50:42: #2 Since the d (103) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 08:50:42: #2 You may need to consider one of the other alternative d(s): 103 WARNING @ Sat, 03 Apr 2021 08:50:42: #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 08:50:42: #3 Call peaks... INFO @ Sat, 03 Apr 2021 08:50:42: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 08:50:48: 2000000 INFO @ Sat, 03 Apr 2021 08:50:53: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 08:50:56: 3000000 INFO @ Sat, 03 Apr 2021 08:50:58: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7281029/SRX7281029.10_peaks.xls INFO @ Sat, 03 Apr 2021 08:50:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7281029/SRX7281029.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 08:50:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7281029/SRX7281029.10_summits.bed INFO @ Sat, 03 Apr 2021 08:50:59: Done! pass1 - making usageList (150 chroms): 2 millis pass2 - checking and writing primary data (6152 records, 4 fields): 17 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 08:51:04: 4000000 INFO @ Sat, 03 Apr 2021 08:51:09: #1 tag size is determined as 74 bps INFO @ Sat, 03 Apr 2021 08:51:09: #1 tag size = 74 INFO @ Sat, 03 Apr 2021 08:51:09: #1 total tags in treatment: 4636713 INFO @ Sat, 03 Apr 2021 08:51:09: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 08:51:09: #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 08:51:10: #1 tags after filtering in treatment: 4636589 INFO @ Sat, 03 Apr 2021 08:51:10: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 08:51:10: #1 finished! INFO @ Sat, 03 Apr 2021 08:51:10: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 08:51:10: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 08:51:10: #2 number of paired peaks: 3711 INFO @ Sat, 03 Apr 2021 08:51:10: start model_add_line... INFO @ Sat, 03 Apr 2021 08:51:10: start X-correlation... INFO @ Sat, 03 Apr 2021 08:51:10: end of X-cor INFO @ Sat, 03 Apr 2021 08:51:10: #2 finished! INFO @ Sat, 03 Apr 2021 08:51:10: #2 predicted fragment length is 103 bps INFO @ Sat, 03 Apr 2021 08:51:10: #2 alternative fragment length(s) may be 103 bps INFO @ Sat, 03 Apr 2021 08:51:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7281029/SRX7281029.20_model.r WARNING @ Sat, 03 Apr 2021 08:51:10: #2 Since the d (103) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 08:51:10: #2 You may need to consider one of the other alternative d(s): 103 WARNING @ Sat, 03 Apr 2021 08:51:10: #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 08:51:10: #3 Call peaks... INFO @ Sat, 03 Apr 2021 08:51:10: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 08:51:21: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 08:51:27: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7281029/SRX7281029.20_peaks.xls INFO @ Sat, 03 Apr 2021 08:51:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7281029/SRX7281029.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 08:51:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7281029/SRX7281029.20_summits.bed INFO @ Sat, 03 Apr 2021 08:51:27: Done! pass1 - making usageList (98 chroms): 2 millis pass2 - checking and writing primary data (2468 records, 4 fields): 10 millis CompletedMACS2peakCalling