Job ID = 12265311 SRX = SRX5010770 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 34868300 spots for SRR8191195/SRR8191195.sra Written 34868300 spots for SRR8191195/SRR8191195.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265484 ("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: 00:10:22 34868300 reads; of these: 34868300 (100.00%) were unpaired; of these: 1286682 (3.69%) aligned 0 times 14320254 (41.07%) aligned exactly 1 time 19261364 (55.24%) aligned >1 times 96.31% overall alignment rate Time searching: 00:10:22 Overall time: 00:10:22 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_sort_core] merging from 16 files... [bam_rmdupse_core] 22620889 / 33581618 = 0.6736 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 06:51:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010770/SRX5010770.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010770/SRX5010770.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010770/SRX5010770.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010770/SRX5010770.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 06:51:43: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:51:43: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:51:50: 1000000 INFO @ Sat, 03 Apr 2021 06:51:57: 2000000 INFO @ Sat, 03 Apr 2021 06:52:04: 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 06:52:11: 4000000 INFO @ Sat, 03 Apr 2021 06:52:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010770/SRX5010770.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010770/SRX5010770.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010770/SRX5010770.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010770/SRX5010770.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 06:52:13: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:52:13: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:52:18: 5000000 INFO @ Sat, 03 Apr 2021 06:52:20: 1000000 INFO @ Sat, 03 Apr 2021 06:52:26: 6000000 INFO @ Sat, 03 Apr 2021 06:52:27: 2000000 INFO @ Sat, 03 Apr 2021 06:52:32: 7000000 INFO @ Sat, 03 Apr 2021 06:52:34: 3000000 INFO @ Sat, 03 Apr 2021 06:52:39: 8000000 BedGraph に変換中... INFO @ Sat, 03 Apr 2021 06:52:40: 4000000 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 06:52:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010770/SRX5010770.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010770/SRX5010770.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010770/SRX5010770.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010770/SRX5010770.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 06:52:43: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:52:43: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:52:46: 9000000 INFO @ Sat, 03 Apr 2021 06:52:47: 5000000 INFO @ Sat, 03 Apr 2021 06:52:50: 1000000 INFO @ Sat, 03 Apr 2021 06:52:53: 10000000 INFO @ Sat, 03 Apr 2021 06:52:55: 6000000 INFO @ Sat, 03 Apr 2021 06:52:57: 2000000 INFO @ Sat, 03 Apr 2021 06:53:00: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:53:00: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:53:00: #1 total tags in treatment: 10960729 INFO @ Sat, 03 Apr 2021 06:53:00: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:53:00: #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 06:53:00: #1 tags after filtering in treatment: 10960729 INFO @ Sat, 03 Apr 2021 06:53:00: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:53:00: #1 finished! INFO @ Sat, 03 Apr 2021 06:53:00: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:53:00: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:53:01: #2 number of paired peaks: 1331 INFO @ Sat, 03 Apr 2021 06:53:01: start model_add_line... INFO @ Sat, 03 Apr 2021 06:53:01: start X-correlation... INFO @ Sat, 03 Apr 2021 06:53:01: end of X-cor INFO @ Sat, 03 Apr 2021 06:53:01: #2 finished! INFO @ Sat, 03 Apr 2021 06:53:01: #2 predicted fragment length is 67 bps INFO @ Sat, 03 Apr 2021 06:53:01: #2 alternative fragment length(s) may be 67 bps INFO @ Sat, 03 Apr 2021 06:53:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010770/SRX5010770.05_model.r WARNING @ Sat, 03 Apr 2021 06:53:01: #2 Since the d (67) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:53:01: #2 You may need to consider one of the other alternative d(s): 67 WARNING @ Sat, 03 Apr 2021 06:53:01: #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 06:53:01: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:53:01: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:53:02: 7000000 INFO @ Sat, 03 Apr 2021 06:53:04: 3000000 INFO @ Sat, 03 Apr 2021 06:53:08: 8000000 INFO @ Sat, 03 Apr 2021 06:53:10: 4000000 INFO @ Sat, 03 Apr 2021 06:53:15: 9000000 INFO @ Sat, 03 Apr 2021 06:53:17: 5000000 INFO @ Sat, 03 Apr 2021 06:53:21: 10000000 INFO @ Sat, 03 Apr 2021 06:53:22: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:53:23: 6000000 INFO @ Sat, 03 Apr 2021 06:53:28: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:53:28: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:53:28: #1 total tags in treatment: 10960729 INFO @ Sat, 03 Apr 2021 06:53:28: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:53:28: #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 06:53:28: #1 tags after filtering in treatment: 10960729 INFO @ Sat, 03 Apr 2021 06:53:28: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:53:28: #1 finished! INFO @ Sat, 03 Apr 2021 06:53:28: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:53:28: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:53:29: #2 number of paired peaks: 1331 INFO @ Sat, 03 Apr 2021 06:53:29: start model_add_line... INFO @ Sat, 03 Apr 2021 06:53:29: start X-correlation... INFO @ Sat, 03 Apr 2021 06:53:29: end of X-cor INFO @ Sat, 03 Apr 2021 06:53:29: #2 finished! INFO @ Sat, 03 Apr 2021 06:53:29: #2 predicted fragment length is 67 bps INFO @ Sat, 03 Apr 2021 06:53:29: #2 alternative fragment length(s) may be 67 bps INFO @ Sat, 03 Apr 2021 06:53:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010770/SRX5010770.10_model.r WARNING @ Sat, 03 Apr 2021 06:53:29: #2 Since the d (67) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:53:29: #2 You may need to consider one of the other alternative d(s): 67 WARNING @ Sat, 03 Apr 2021 06:53:29: #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 06:53:29: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:53:29: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:53:29: 7000000 INFO @ Sat, 03 Apr 2021 06:53:34: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010770/SRX5010770.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:53:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010770/SRX5010770.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:53:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010770/SRX5010770.05_summits.bed INFO @ Sat, 03 Apr 2021 06:53:34: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (9631 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:53:35: 8000000 INFO @ Sat, 03 Apr 2021 06:53:42: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:53:47: 10000000 INFO @ Sat, 03 Apr 2021 06:53:50: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:53:53: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:53:53: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:53:53: #1 total tags in treatment: 10960729 INFO @ Sat, 03 Apr 2021 06:53:53: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:53:53: #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 06:53:53: #1 tags after filtering in treatment: 10960729 INFO @ Sat, 03 Apr 2021 06:53:53: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:53:53: #1 finished! INFO @ Sat, 03 Apr 2021 06:53:53: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:53:53: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:53:54: #2 number of paired peaks: 1331 INFO @ Sat, 03 Apr 2021 06:53:54: start model_add_line... INFO @ Sat, 03 Apr 2021 06:53:54: start X-correlation... INFO @ Sat, 03 Apr 2021 06:53:54: end of X-cor INFO @ Sat, 03 Apr 2021 06:53:54: #2 finished! INFO @ Sat, 03 Apr 2021 06:53:54: #2 predicted fragment length is 67 bps INFO @ Sat, 03 Apr 2021 06:53:54: #2 alternative fragment length(s) may be 67 bps INFO @ Sat, 03 Apr 2021 06:53:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010770/SRX5010770.20_model.r WARNING @ Sat, 03 Apr 2021 06:53:54: #2 Since the d (67) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:53:54: #2 You may need to consider one of the other alternative d(s): 67 WARNING @ Sat, 03 Apr 2021 06:53:54: #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 06:53:54: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:53:54: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:54:01: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010770/SRX5010770.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:54:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010770/SRX5010770.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:54:01: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010770/SRX5010770.10_summits.bed INFO @ Sat, 03 Apr 2021 06:54:01: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (5225 records, 4 fields): 7 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:54:15: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:54:26: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010770/SRX5010770.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:54:26: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010770/SRX5010770.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:54:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010770/SRX5010770.20_summits.bed INFO @ Sat, 03 Apr 2021 06:54:26: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (1923 records, 4 fields): 5 millis CompletedMACS2peakCalling