Job ID = 12265294 SRX = SRX5010753 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 45517692 spots for SRR8191178/SRR8191178.sra Written 45517692 spots for SRR8191178/SRR8191178.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265467 ("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: 00:13:17 45517692 reads; of these: 45517692 (100.00%) were unpaired; of these: 1641645 (3.61%) aligned 0 times 29459382 (64.72%) aligned exactly 1 time 14416665 (31.67%) aligned >1 times 96.39% overall alignment rate Time searching: 00:13:17 Overall time: 00:13:17 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 20 files... [bam_rmdupse_core] 26536874 / 43876047 = 0.6048 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 06:47:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010753/SRX5010753.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010753/SRX5010753.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010753/SRX5010753.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010753/SRX5010753.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 06:47:54: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:47:54: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:47:59: 1000000 INFO @ Sat, 03 Apr 2021 06:48:04: 2000000 INFO @ Sat, 03 Apr 2021 06:48:10: 3000000 INFO @ Sat, 03 Apr 2021 06:48:15: 4000000 INFO @ Sat, 03 Apr 2021 06:48:21: 5000000 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 06:48:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010753/SRX5010753.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010753/SRX5010753.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010753/SRX5010753.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010753/SRX5010753.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 06:48:24: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:48:24: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:48:26: 6000000 INFO @ Sat, 03 Apr 2021 06:48:29: 1000000 INFO @ Sat, 03 Apr 2021 06:48:32: 7000000 INFO @ Sat, 03 Apr 2021 06:48:34: 2000000 INFO @ Sat, 03 Apr 2021 06:48:38: 8000000 INFO @ Sat, 03 Apr 2021 06:48:39: 3000000 INFO @ Sat, 03 Apr 2021 06:48:43: 9000000 INFO @ Sat, 03 Apr 2021 06:48:44: 4000000 INFO @ Sat, 03 Apr 2021 06:48:49: 5000000 INFO @ Sat, 03 Apr 2021 06:48:49: 10000000 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 06:48:54: 6000000 INFO @ Sat, 03 Apr 2021 06:48:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010753/SRX5010753.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010753/SRX5010753.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010753/SRX5010753.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010753/SRX5010753.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 06:48:54: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:48:54: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:48:54: 11000000 INFO @ Sat, 03 Apr 2021 06:48:59: 7000000 INFO @ Sat, 03 Apr 2021 06:48:59: 1000000 INFO @ Sat, 03 Apr 2021 06:49:00: 12000000 INFO @ Sat, 03 Apr 2021 06:49:04: 8000000 INFO @ Sat, 03 Apr 2021 06:49:05: 2000000 INFO @ Sat, 03 Apr 2021 06:49:06: 13000000 INFO @ Sat, 03 Apr 2021 06:49:08: 9000000 INFO @ Sat, 03 Apr 2021 06:49:11: 3000000 INFO @ Sat, 03 Apr 2021 06:49:12: 14000000 INFO @ Sat, 03 Apr 2021 06:49:13: 10000000 INFO @ Sat, 03 Apr 2021 06:49:16: 4000000 INFO @ Sat, 03 Apr 2021 06:49:18: 15000000 INFO @ Sat, 03 Apr 2021 06:49:18: 11000000 INFO @ Sat, 03 Apr 2021 06:49:22: 5000000 INFO @ Sat, 03 Apr 2021 06:49:23: 12000000 INFO @ Sat, 03 Apr 2021 06:49:24: 16000000 INFO @ Sat, 03 Apr 2021 06:49:28: 6000000 INFO @ Sat, 03 Apr 2021 06:49:28: 13000000 INFO @ Sat, 03 Apr 2021 06:49:30: 17000000 INFO @ Sat, 03 Apr 2021 06:49:32: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:49:32: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:49:32: #1 total tags in treatment: 17339173 INFO @ Sat, 03 Apr 2021 06:49:32: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:49:32: #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 06:49:32: #1 tags after filtering in treatment: 17339173 INFO @ Sat, 03 Apr 2021 06:49:32: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:49:32: #1 finished! INFO @ Sat, 03 Apr 2021 06:49:32: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:49:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:49:33: 14000000 INFO @ Sat, 03 Apr 2021 06:49:34: #2 number of paired peaks: 1154 INFO @ Sat, 03 Apr 2021 06:49:34: start model_add_line... INFO @ Sat, 03 Apr 2021 06:49:34: 7000000 INFO @ Sat, 03 Apr 2021 06:49:34: start X-correlation... INFO @ Sat, 03 Apr 2021 06:49:34: end of X-cor INFO @ Sat, 03 Apr 2021 06:49:34: #2 finished! INFO @ Sat, 03 Apr 2021 06:49:34: #2 predicted fragment length is 74 bps INFO @ Sat, 03 Apr 2021 06:49:34: #2 alternative fragment length(s) may be 74 bps INFO @ Sat, 03 Apr 2021 06:49:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010753/SRX5010753.05_model.r WARNING @ Sat, 03 Apr 2021 06:49:34: #2 Since the d (74) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:49:34: #2 You may need to consider one of the other alternative d(s): 74 WARNING @ Sat, 03 Apr 2021 06:49:34: #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 06:49:34: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:49:34: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:49:38: 15000000 INFO @ Sat, 03 Apr 2021 06:49:39: 8000000 INFO @ Sat, 03 Apr 2021 06:49:43: 16000000 INFO @ Sat, 03 Apr 2021 06:49:45: 9000000 INFO @ Sat, 03 Apr 2021 06:49:48: 17000000 INFO @ Sat, 03 Apr 2021 06:49:50: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:49:50: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:49:50: #1 total tags in treatment: 17339173 INFO @ Sat, 03 Apr 2021 06:49:50: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:49:50: #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 06:49:51: #1 tags after filtering in treatment: 17339173 INFO @ Sat, 03 Apr 2021 06:49:51: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:49:51: #1 finished! INFO @ Sat, 03 Apr 2021 06:49:51: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:49:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:49:51: 10000000 INFO @ Sat, 03 Apr 2021 06:49:52: #2 number of paired peaks: 1154 INFO @ Sat, 03 Apr 2021 06:49:52: start model_add_line... INFO @ Sat, 03 Apr 2021 06:49:52: start X-correlation... INFO @ Sat, 03 Apr 2021 06:49:52: end of X-cor INFO @ Sat, 03 Apr 2021 06:49:52: #2 finished! INFO @ Sat, 03 Apr 2021 06:49:52: #2 predicted fragment length is 74 bps INFO @ Sat, 03 Apr 2021 06:49:52: #2 alternative fragment length(s) may be 74 bps INFO @ Sat, 03 Apr 2021 06:49:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010753/SRX5010753.10_model.r WARNING @ Sat, 03 Apr 2021 06:49:52: #2 Since the d (74) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:49:52: #2 You may need to consider one of the other alternative d(s): 74 WARNING @ Sat, 03 Apr 2021 06:49:52: #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 06:49:52: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:49:52: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:49:56: 11000000 INFO @ Sat, 03 Apr 2021 06:50:02: 12000000 INFO @ Sat, 03 Apr 2021 06:50:08: 13000000 INFO @ Sat, 03 Apr 2021 06:50:12: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:50:14: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:50:19: 15000000 INFO @ Sat, 03 Apr 2021 06:50:25: 16000000 INFO @ Sat, 03 Apr 2021 06:50:31: 17000000 INFO @ Sat, 03 Apr 2021 06:50:32: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:50:33: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:50:33: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:50:33: #1 total tags in treatment: 17339173 INFO @ Sat, 03 Apr 2021 06:50:33: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:50:33: #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 06:50:33: #1 tags after filtering in treatment: 17339173 INFO @ Sat, 03 Apr 2021 06:50:33: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:50:33: #1 finished! INFO @ Sat, 03 Apr 2021 06:50:33: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:50:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:50:34: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010753/SRX5010753.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:50:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010753/SRX5010753.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:50:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010753/SRX5010753.05_summits.bed INFO @ Sat, 03 Apr 2021 06:50:34: Done! INFO @ Sat, 03 Apr 2021 06:50:34: #2 number of paired peaks: 1154 INFO @ Sat, 03 Apr 2021 06:50:34: start model_add_line... INFO @ Sat, 03 Apr 2021 06:50:35: start X-correlation... pass1 - making usageList (15 chroms): 3 millis INFO @ Sat, 03 Apr 2021 06:50:35: end of X-cor INFO @ Sat, 03 Apr 2021 06:50:35: #2 finished! INFO @ Sat, 03 Apr 2021 06:50:35: #2 predicted fragment length is 74 bps INFO @ Sat, 03 Apr 2021 06:50:35: #2 alternative fragment length(s) may be 74 bps INFO @ Sat, 03 Apr 2021 06:50:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010753/SRX5010753.20_model.r WARNING @ Sat, 03 Apr 2021 06:50:35: #2 Since the d (74) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:50:35: #2 You may need to consider one of the other alternative d(s): 74 WARNING @ Sat, 03 Apr 2021 06:50:35: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:50:35: #3 Call peaks... pass2 - checking and writing primary data (14973 records, 4 fields): 17 millis INFO @ Sat, 03 Apr 2021 06:50:35: #3 Pre-compute pvalue-qvalue table... CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:50:53: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010753/SRX5010753.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:50:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010753/SRX5010753.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:50:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010753/SRX5010753.10_summits.bed INFO @ Sat, 03 Apr 2021 06:50:54: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (9100 records, 4 fields): 11 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:51:15: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:51:38: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010753/SRX5010753.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:51:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010753/SRX5010753.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:51:38: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010753/SRX5010753.20_summits.bed INFO @ Sat, 03 Apr 2021 06:51:38: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (3818 records, 4 fields): 5 millis CompletedMACS2peakCalling