Job ID = 14170865 SRX = SRX8689033 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: 00:01:35 4777338 reads; of these: 4777338 (100.00%) were unpaired; of these: 387918 (8.12%) aligned 0 times 2661220 (55.71%) aligned exactly 1 time 1728200 (36.17%) aligned >1 times 91.88% overall alignment rate Time searching: 00:01:35 Overall time: 00:01:35 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] 460007 / 4389420 = 0.1048 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 08:56:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX8689033/SRX8689033.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX8689033/SRX8689033.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX8689033/SRX8689033.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX8689033/SRX8689033.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 08:56:15: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:56:15: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:56:21: 1000000 INFO @ Sat, 11 Dec 2021 08:56:27: 2000000 INFO @ Sat, 11 Dec 2021 08:56:33: 3000000 INFO @ Sat, 11 Dec 2021 08:56:39: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 08:56:39: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 08:56:39: #1 total tags in treatment: 3929413 INFO @ Sat, 11 Dec 2021 08:56:39: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:56:39: #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 08:56:39: #1 tags after filtering in treatment: 3929212 INFO @ Sat, 11 Dec 2021 08:56:39: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 08:56:39: #1 finished! INFO @ Sat, 11 Dec 2021 08:56:39: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:56:39: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 08:56:39: #2 number of paired peaks: 1473 INFO @ Sat, 11 Dec 2021 08:56:39: start model_add_line... INFO @ Sat, 11 Dec 2021 08:56:40: start X-correlation... INFO @ Sat, 11 Dec 2021 08:56:40: end of X-cor INFO @ Sat, 11 Dec 2021 08:56:40: #2 finished! INFO @ Sat, 11 Dec 2021 08:56:40: #2 predicted fragment length is 69 bps INFO @ Sat, 11 Dec 2021 08:56:40: #2 alternative fragment length(s) may be 69 bps INFO @ Sat, 11 Dec 2021 08:56:40: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX8689033/SRX8689033.05_model.r WARNING @ Sat, 11 Dec 2021 08:56:40: #2 Since the d (69) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 08:56:40: #2 You may need to consider one of the other alternative d(s): 69 WARNING @ Sat, 11 Dec 2021 08:56:40: #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 08:56:40: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:56:40: #3 Pre-compute pvalue-qvalue table... 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 08:56:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX8689033/SRX8689033.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX8689033/SRX8689033.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX8689033/SRX8689033.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX8689033/SRX8689033.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 08:56:45: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:56:45: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:56:49: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 08:56:51: 1000000 INFO @ Sat, 11 Dec 2021 08:56:53: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX8689033/SRX8689033.05_peaks.xls INFO @ Sat, 11 Dec 2021 08:56:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX8689033/SRX8689033.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:56:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX8689033/SRX8689033.05_summits.bed INFO @ Sat, 11 Dec 2021 08:56:54: Done! pass1 - making usageList (586 chroms): 2 millis pass2 - checking and writing primary data (1848 records, 4 fields): 75 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 08:56:58: 2000000 INFO @ Sat, 11 Dec 2021 08:57:05: 3000000 INFO @ Sat, 11 Dec 2021 08:57:11: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 08:57:11: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 08:57:11: #1 total tags in treatment: 3929413 INFO @ Sat, 11 Dec 2021 08:57:11: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:57:11: #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 08:57:12: #1 tags after filtering in treatment: 3929212 INFO @ Sat, 11 Dec 2021 08:57:12: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 08:57:12: #1 finished! INFO @ Sat, 11 Dec 2021 08:57:12: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:57:12: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 08:57:12: #2 number of paired peaks: 1473 INFO @ Sat, 11 Dec 2021 08:57:12: start model_add_line... INFO @ Sat, 11 Dec 2021 08:57:12: start X-correlation... INFO @ Sat, 11 Dec 2021 08:57:12: end of X-cor INFO @ Sat, 11 Dec 2021 08:57:12: #2 finished! INFO @ Sat, 11 Dec 2021 08:57:12: #2 predicted fragment length is 69 bps INFO @ Sat, 11 Dec 2021 08:57:12: #2 alternative fragment length(s) may be 69 bps INFO @ Sat, 11 Dec 2021 08:57:12: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX8689033/SRX8689033.10_model.r WARNING @ Sat, 11 Dec 2021 08:57:12: #2 Since the d (69) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 08:57:12: #2 You may need to consider one of the other alternative d(s): 69 WARNING @ Sat, 11 Dec 2021 08:57:12: #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 08:57:12: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:57:12: #3 Pre-compute pvalue-qvalue table... 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 08:57:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX8689033/SRX8689033.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX8689033/SRX8689033.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX8689033/SRX8689033.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX8689033/SRX8689033.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 08:57:15: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:57:15: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:57:22: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 08:57:23: 1000000 INFO @ Sat, 11 Dec 2021 08:57:26: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX8689033/SRX8689033.10_peaks.xls INFO @ Sat, 11 Dec 2021 08:57:26: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX8689033/SRX8689033.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:57:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX8689033/SRX8689033.10_summits.bed INFO @ Sat, 11 Dec 2021 08:57:26: Done! pass1 - making usageList (330 chroms): 1 millis pass2 - checking and writing primary data (894 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 08:57:30: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 08:57:38: 3000000 BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 08:57:45: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 08:57:45: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 08:57:45: #1 total tags in treatment: 3929413 INFO @ Sat, 11 Dec 2021 08:57:45: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:57:45: #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 08:57:46: #1 tags after filtering in treatment: 3929212 INFO @ Sat, 11 Dec 2021 08:57:46: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 08:57:46: #1 finished! INFO @ Sat, 11 Dec 2021 08:57:46: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:57:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 08:57:46: #2 number of paired peaks: 1473 INFO @ Sat, 11 Dec 2021 08:57:46: start model_add_line... INFO @ Sat, 11 Dec 2021 08:57:46: start X-correlation... INFO @ Sat, 11 Dec 2021 08:57:46: end of X-cor INFO @ Sat, 11 Dec 2021 08:57:46: #2 finished! INFO @ Sat, 11 Dec 2021 08:57:46: #2 predicted fragment length is 69 bps INFO @ Sat, 11 Dec 2021 08:57:46: #2 alternative fragment length(s) may be 69 bps INFO @ Sat, 11 Dec 2021 08:57:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX8689033/SRX8689033.20_model.r WARNING @ Sat, 11 Dec 2021 08:57:46: #2 Since the d (69) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 08:57:46: #2 You may need to consider one of the other alternative d(s): 69 WARNING @ Sat, 11 Dec 2021 08:57:46: #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 08:57:46: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:57:46: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 08:57:55: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 08:57:59: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX8689033/SRX8689033.20_peaks.xls INFO @ Sat, 11 Dec 2021 08:57:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX8689033/SRX8689033.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:57:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX8689033/SRX8689033.20_summits.bed INFO @ Sat, 11 Dec 2021 08:57:59: Done! pass1 - making usageList (203 chroms): 0 millis pass2 - checking and writing primary data (427 records, 4 fields): 13 millis CompletedMACS2peakCalling