Job ID = 14170649 SRX = SRX9434471 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 28071160 spots for SRR12982869/SRR12982869.sra Written 28071160 spots for SRR12982869/SRR12982869.sra fastq に変換しました。 bowtie でマッピング中... Your job 14171128 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:01 Multiseed full-index search: 00:19:25 28071160 reads; of these: 28071160 (100.00%) were unpaired; of these: 565725 (2.02%) aligned 0 times 8183700 (29.15%) aligned exactly 1 time 19321735 (68.83%) aligned >1 times 97.98% overall alignment rate Time searching: 00:19:26 Overall time: 00:19:26 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 12 files... [bam_rmdupse_core] 8769232 / 27505435 = 0.3188 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 08:15:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9434471/SRX9434471.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9434471/SRX9434471.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9434471/SRX9434471.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9434471/SRX9434471.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 08:15:21: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:15:21: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:15:31: 1000000 INFO @ Sat, 11 Dec 2021 08:15:40: 2000000 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 08:15:49: 3000000 INFO @ Sat, 11 Dec 2021 08:15:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9434471/SRX9434471.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9434471/SRX9434471.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9434471/SRX9434471.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9434471/SRX9434471.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 08:15:51: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:15:51: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:15:59: 4000000 INFO @ Sat, 11 Dec 2021 08:16:02: 1000000 INFO @ Sat, 11 Dec 2021 08:16:09: 5000000 INFO @ Sat, 11 Dec 2021 08:16:13: 2000000 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 08:16:19: 6000000 INFO @ Sat, 11 Dec 2021 08:16:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9434471/SRX9434471.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9434471/SRX9434471.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9434471/SRX9434471.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9434471/SRX9434471.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 08:16:21: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:16:21: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:16:25: 3000000 INFO @ Sat, 11 Dec 2021 08:16:29: 7000000 INFO @ Sat, 11 Dec 2021 08:16:32: 1000000 INFO @ Sat, 11 Dec 2021 08:16:37: 4000000 INFO @ Sat, 11 Dec 2021 08:16:41: 8000000 INFO @ Sat, 11 Dec 2021 08:16:43: 2000000 INFO @ Sat, 11 Dec 2021 08:16:48: 5000000 INFO @ Sat, 11 Dec 2021 08:16:52: 9000000 INFO @ Sat, 11 Dec 2021 08:16:54: 3000000 INFO @ Sat, 11 Dec 2021 08:17:00: 6000000 INFO @ Sat, 11 Dec 2021 08:17:02: 10000000 INFO @ Sat, 11 Dec 2021 08:17:05: 4000000 INFO @ Sat, 11 Dec 2021 08:17:11: 7000000 INFO @ Sat, 11 Dec 2021 08:17:13: 11000000 INFO @ Sat, 11 Dec 2021 08:17:17: 5000000 INFO @ Sat, 11 Dec 2021 08:17:22: 8000000 INFO @ Sat, 11 Dec 2021 08:17:24: 12000000 INFO @ Sat, 11 Dec 2021 08:17:28: 6000000 INFO @ Sat, 11 Dec 2021 08:17:33: 9000000 INFO @ Sat, 11 Dec 2021 08:17:34: 13000000 INFO @ Sat, 11 Dec 2021 08:17:39: 7000000 INFO @ Sat, 11 Dec 2021 08:17:44: 10000000 INFO @ Sat, 11 Dec 2021 08:17:44: 14000000 INFO @ Sat, 11 Dec 2021 08:17:49: 8000000 INFO @ Sat, 11 Dec 2021 08:17:54: 15000000 INFO @ Sat, 11 Dec 2021 08:17:55: 11000000 INFO @ Sat, 11 Dec 2021 08:18:00: 9000000 INFO @ Sat, 11 Dec 2021 08:18:05: 16000000 INFO @ Sat, 11 Dec 2021 08:18:06: 12000000 INFO @ Sat, 11 Dec 2021 08:18:10: 10000000 INFO @ Sat, 11 Dec 2021 08:18:15: 17000000 INFO @ Sat, 11 Dec 2021 08:18:17: 13000000 INFO @ Sat, 11 Dec 2021 08:18:20: 11000000 INFO @ Sat, 11 Dec 2021 08:18:25: 18000000 INFO @ Sat, 11 Dec 2021 08:18:28: 14000000 INFO @ Sat, 11 Dec 2021 08:18:31: 12000000 INFO @ Sat, 11 Dec 2021 08:18:32: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 08:18:32: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 08:18:32: #1 total tags in treatment: 18736203 INFO @ Sat, 11 Dec 2021 08:18:32: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:18:32: #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 08:18:32: #1 tags after filtering in treatment: 18736203 INFO @ Sat, 11 Dec 2021 08:18:32: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 08:18:32: #1 finished! INFO @ Sat, 11 Dec 2021 08:18:32: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:18:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 08:18:35: #2 number of paired peaks: 3282 INFO @ Sat, 11 Dec 2021 08:18:35: start model_add_line... INFO @ Sat, 11 Dec 2021 08:18:35: start X-correlation... INFO @ Sat, 11 Dec 2021 08:18:35: end of X-cor INFO @ Sat, 11 Dec 2021 08:18:35: #2 finished! INFO @ Sat, 11 Dec 2021 08:18:35: #2 predicted fragment length is 39 bps INFO @ Sat, 11 Dec 2021 08:18:35: #2 alternative fragment length(s) may be 4,39 bps INFO @ Sat, 11 Dec 2021 08:18:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9434471/SRX9434471.05_model.r WARNING @ Sat, 11 Dec 2021 08:18:35: #2 Since the d (39) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 08:18:35: #2 You may need to consider one of the other alternative d(s): 4,39 WARNING @ Sat, 11 Dec 2021 08:18:35: #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 08:18:35: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:18:35: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 08:18:39: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 08:18:41: 13000000 INFO @ Sat, 11 Dec 2021 08:18:50: 16000000 INFO @ Sat, 11 Dec 2021 08:18:52: 14000000 INFO @ Sat, 11 Dec 2021 08:19:01: 17000000 INFO @ Sat, 11 Dec 2021 08:19:02: 15000000 INFO @ Sat, 11 Dec 2021 08:19:12: 18000000 INFO @ Sat, 11 Dec 2021 08:19:12: 16000000 INFO @ Sat, 11 Dec 2021 08:19:19: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 08:19:19: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 08:19:19: #1 total tags in treatment: 18736203 INFO @ Sat, 11 Dec 2021 08:19:19: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:19:19: #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 08:19:20: #1 tags after filtering in treatment: 18736203 INFO @ Sat, 11 Dec 2021 08:19:20: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 08:19:20: #1 finished! INFO @ Sat, 11 Dec 2021 08:19:20: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:19:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 08:19:22: #2 number of paired peaks: 3282 INFO @ Sat, 11 Dec 2021 08:19:22: start model_add_line... INFO @ Sat, 11 Dec 2021 08:19:22: 17000000 INFO @ Sat, 11 Dec 2021 08:19:22: start X-correlation... INFO @ Sat, 11 Dec 2021 08:19:22: end of X-cor INFO @ Sat, 11 Dec 2021 08:19:22: #2 finished! INFO @ Sat, 11 Dec 2021 08:19:22: #2 predicted fragment length is 39 bps INFO @ Sat, 11 Dec 2021 08:19:22: #2 alternative fragment length(s) may be 4,39 bps INFO @ Sat, 11 Dec 2021 08:19:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9434471/SRX9434471.10_model.r WARNING @ Sat, 11 Dec 2021 08:19:22: #2 Since the d (39) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 08:19:22: #2 You may need to consider one of the other alternative d(s): 4,39 WARNING @ Sat, 11 Dec 2021 08:19:22: #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 08:19:22: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:19:22: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 08:19:29: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 08:19:33: 18000000 INFO @ Sat, 11 Dec 2021 08:19:40: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 08:19:40: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 08:19:40: #1 total tags in treatment: 18736203 INFO @ Sat, 11 Dec 2021 08:19:40: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:19:40: #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 08:19:41: #1 tags after filtering in treatment: 18736203 INFO @ Sat, 11 Dec 2021 08:19:41: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 08:19:41: #1 finished! INFO @ Sat, 11 Dec 2021 08:19:41: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:19:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 08:19:43: #2 number of paired peaks: 3282 INFO @ Sat, 11 Dec 2021 08:19:43: start model_add_line... INFO @ Sat, 11 Dec 2021 08:19:43: start X-correlation... INFO @ Sat, 11 Dec 2021 08:19:43: end of X-cor INFO @ Sat, 11 Dec 2021 08:19:43: #2 finished! INFO @ Sat, 11 Dec 2021 08:19:43: #2 predicted fragment length is 39 bps INFO @ Sat, 11 Dec 2021 08:19:43: #2 alternative fragment length(s) may be 4,39 bps INFO @ Sat, 11 Dec 2021 08:19:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9434471/SRX9434471.20_model.r WARNING @ Sat, 11 Dec 2021 08:19:43: #2 Since the d (39) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 08:19:43: #2 You may need to consider one of the other alternative d(s): 4,39 WARNING @ Sat, 11 Dec 2021 08:19:43: #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 08:19:43: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:19:43: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 08:19:56: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9434471/SRX9434471.05_peaks.xls INFO @ Sat, 11 Dec 2021 08:19:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9434471/SRX9434471.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:19:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9434471/SRX9434471.05_summits.bed INFO @ Sat, 11 Dec 2021 08:19:57: Done! pass1 - making usageList (14 chroms): 13 millis pass2 - checking and writing primary data (18420 records, 4 fields): 26 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 08:20:18: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 08:20:36: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 08:20:45: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9434471/SRX9434471.10_peaks.xls INFO @ Sat, 11 Dec 2021 08:20:45: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9434471/SRX9434471.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:20:45: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9434471/SRX9434471.10_summits.bed INFO @ Sat, 11 Dec 2021 08:20:45: Done! pass1 - making usageList (14 chroms): 5 millis pass2 - checking and writing primary data (9047 records, 4 fields): 16 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 08:21:04: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9434471/SRX9434471.20_peaks.xls INFO @ Sat, 11 Dec 2021 08:21:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9434471/SRX9434471.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:21:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9434471/SRX9434471.20_summits.bed INFO @ Sat, 11 Dec 2021 08:21:04: Done! pass1 - making usageList (10 chroms): 2 millis pass2 - checking and writing primary data (2031 records, 4 fields): 6 millis CompletedMACS2peakCalling