Job ID = 12264844 SRX = SRX2661686 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 24038986 spots for SRR5366417/SRR5366417.sra Written 24038986 spots for SRR5366417/SRR5366417.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265105 ("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: 00:06:45 24038986 reads; of these: 24038986 (100.00%) were unpaired; of these: 1439332 (5.99%) aligned 0 times 17220313 (71.63%) aligned exactly 1 time 5379341 (22.38%) aligned >1 times 94.01% overall alignment rate Time searching: 00:06:45 Overall time: 00:06:45 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] 10564567 / 22599654 = 0.4675 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 06:07:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2661686/SRX2661686.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2661686/SRX2661686.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2661686/SRX2661686.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2661686/SRX2661686.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 06:07:00: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:07:00: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:07:07: 1000000 INFO @ Sat, 03 Apr 2021 06:07:15: 2000000 INFO @ Sat, 03 Apr 2021 06:07:22: 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 06:07:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2661686/SRX2661686.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2661686/SRX2661686.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2661686/SRX2661686.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2661686/SRX2661686.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 06:07:30: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:07:30: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:07:30: 4000000 INFO @ Sat, 03 Apr 2021 06:07:37: 1000000 INFO @ Sat, 03 Apr 2021 06:07:37: 5000000 INFO @ Sat, 03 Apr 2021 06:07:45: 2000000 INFO @ Sat, 03 Apr 2021 06:07:45: 6000000 INFO @ Sat, 03 Apr 2021 06:07:52: 3000000 INFO @ Sat, 03 Apr 2021 06:07:52: 7000000 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 06:07:59: 4000000 INFO @ Sat, 03 Apr 2021 06:08:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2661686/SRX2661686.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2661686/SRX2661686.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2661686/SRX2661686.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2661686/SRX2661686.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 06:08:00: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:08:00: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:08:00: 8000000 INFO @ Sat, 03 Apr 2021 06:08:07: 5000000 INFO @ Sat, 03 Apr 2021 06:08:07: 9000000 INFO @ Sat, 03 Apr 2021 06:08:09: 1000000 INFO @ Sat, 03 Apr 2021 06:08:14: 6000000 INFO @ Sat, 03 Apr 2021 06:08:15: 10000000 INFO @ Sat, 03 Apr 2021 06:08:18: 2000000 INFO @ Sat, 03 Apr 2021 06:08:21: 7000000 INFO @ Sat, 03 Apr 2021 06:08:23: 11000000 INFO @ Sat, 03 Apr 2021 06:08:26: 3000000 INFO @ Sat, 03 Apr 2021 06:08:29: 8000000 INFO @ Sat, 03 Apr 2021 06:08:30: 12000000 INFO @ Sat, 03 Apr 2021 06:08:31: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:08:31: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:08:31: #1 total tags in treatment: 12035087 INFO @ Sat, 03 Apr 2021 06:08:31: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:08:31: #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 06:08:31: #1 tags after filtering in treatment: 12035087 INFO @ Sat, 03 Apr 2021 06:08:31: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:08:31: #1 finished! INFO @ Sat, 03 Apr 2021 06:08:31: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:08:31: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:08:32: #2 number of paired peaks: 1430 INFO @ Sat, 03 Apr 2021 06:08:32: start model_add_line... INFO @ Sat, 03 Apr 2021 06:08:32: start X-correlation... INFO @ Sat, 03 Apr 2021 06:08:32: end of X-cor INFO @ Sat, 03 Apr 2021 06:08:32: #2 finished! INFO @ Sat, 03 Apr 2021 06:08:32: #2 predicted fragment length is 71 bps INFO @ Sat, 03 Apr 2021 06:08:32: #2 alternative fragment length(s) may be 71,596 bps INFO @ Sat, 03 Apr 2021 06:08:32: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX2661686/SRX2661686.05_model.r WARNING @ Sat, 03 Apr 2021 06:08:32: #2 Since the d (71) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:08:32: #2 You may need to consider one of the other alternative d(s): 71,596 WARNING @ Sat, 03 Apr 2021 06:08:32: #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 06:08:32: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:08:32: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:08:33: 4000000 INFO @ Sat, 03 Apr 2021 06:08:36: 9000000 INFO @ Sat, 03 Apr 2021 06:08:41: 5000000 INFO @ Sat, 03 Apr 2021 06:08:43: 10000000 INFO @ Sat, 03 Apr 2021 06:08:48: 6000000 INFO @ Sat, 03 Apr 2021 06:08:51: 11000000 INFO @ Sat, 03 Apr 2021 06:08:56: 7000000 INFO @ Sat, 03 Apr 2021 06:08:58: 12000000 INFO @ Sat, 03 Apr 2021 06:08:58: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:08:58: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:08:58: #1 total tags in treatment: 12035087 INFO @ Sat, 03 Apr 2021 06:08:58: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:08:58: #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 06:08:58: #1 tags after filtering in treatment: 12035087 INFO @ Sat, 03 Apr 2021 06:08:58: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:08:58: #1 finished! INFO @ Sat, 03 Apr 2021 06:08:58: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:08:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:09:00: #2 number of paired peaks: 1430 INFO @ Sat, 03 Apr 2021 06:09:00: start model_add_line... INFO @ Sat, 03 Apr 2021 06:09:00: start X-correlation... INFO @ Sat, 03 Apr 2021 06:09:00: end of X-cor INFO @ Sat, 03 Apr 2021 06:09:00: #2 finished! INFO @ Sat, 03 Apr 2021 06:09:00: #2 predicted fragment length is 71 bps INFO @ Sat, 03 Apr 2021 06:09:00: #2 alternative fragment length(s) may be 71,596 bps INFO @ Sat, 03 Apr 2021 06:09:00: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX2661686/SRX2661686.10_model.r WARNING @ Sat, 03 Apr 2021 06:09:00: #2 Since the d (71) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:09:00: #2 You may need to consider one of the other alternative d(s): 71,596 WARNING @ Sat, 03 Apr 2021 06:09:00: #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 06:09:00: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:09:00: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:09:03: 8000000 INFO @ Sat, 03 Apr 2021 06:09:06: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:09:10: 9000000 INFO @ Sat, 03 Apr 2021 06:09:18: 10000000 INFO @ Sat, 03 Apr 2021 06:09:24: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX2661686/SRX2661686.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:09:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX2661686/SRX2661686.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:09:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX2661686/SRX2661686.05_summits.bed INFO @ Sat, 03 Apr 2021 06:09:24: Done! pass1 - making usageList (15 chroms): 4 millis pass2 - checking and writing primary data (18936 records, 4 fields): 24 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:09:25: 11000000 INFO @ Sat, 03 Apr 2021 06:09:32: 12000000 INFO @ Sat, 03 Apr 2021 06:09:33: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:09:33: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:09:33: #1 total tags in treatment: 12035087 INFO @ Sat, 03 Apr 2021 06:09:33: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:09:33: #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 06:09:33: #1 tags after filtering in treatment: 12035087 INFO @ Sat, 03 Apr 2021 06:09:33: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:09:33: #1 finished! INFO @ Sat, 03 Apr 2021 06:09:33: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:09:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:09:34: #2 number of paired peaks: 1430 INFO @ Sat, 03 Apr 2021 06:09:34: start model_add_line... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:09:34: start X-correlation... INFO @ Sat, 03 Apr 2021 06:09:34: end of X-cor INFO @ Sat, 03 Apr 2021 06:09:34: #2 finished! INFO @ Sat, 03 Apr 2021 06:09:34: #2 predicted fragment length is 71 bps INFO @ Sat, 03 Apr 2021 06:09:34: #2 alternative fragment length(s) may be 71,596 bps INFO @ Sat, 03 Apr 2021 06:09:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX2661686/SRX2661686.20_model.r WARNING @ Sat, 03 Apr 2021 06:09:34: #2 Since the d (71) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:09:34: #2 You may need to consider one of the other alternative d(s): 71,596 WARNING @ Sat, 03 Apr 2021 06:09:34: #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 06:09:34: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:09:34: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:09:36: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:09:55: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX2661686/SRX2661686.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:09:55: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX2661686/SRX2661686.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:09:55: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX2661686/SRX2661686.10_summits.bed INFO @ Sat, 03 Apr 2021 06:09:55: Done! pass1 - making usageList (15 chroms): 5 millis pass2 - checking and writing primary data (11137 records, 4 fields): 38 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:10:08: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:10:26: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX2661686/SRX2661686.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:10:26: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX2661686/SRX2661686.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:10:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX2661686/SRX2661686.20_summits.bed INFO @ Sat, 03 Apr 2021 06:10:26: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (3714 records, 4 fields): 6 millis CompletedMACS2peakCalling