Job ID = 12265195 SRX = SRX3426797 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 5727894 spots for SRR6327148/SRR6327148.sra Written 5727894 spots for SRR6327148/SRR6327148.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265330 ("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: 00:01:44 5727894 reads; of these: 5727894 (100.00%) were unpaired; of these: 858833 (14.99%) aligned 0 times 3910167 (68.27%) aligned exactly 1 time 958894 (16.74%) aligned >1 times 85.01% overall alignment rate Time searching: 00:01:44 Overall time: 00:01:44 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_rmdupse_core] 1404796 / 4869061 = 0.2885 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 06:15:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3426797/SRX3426797.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3426797/SRX3426797.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3426797/SRX3426797.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3426797/SRX3426797.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 06:15:58: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:15:58: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:16:06: 1000000 INFO @ Sat, 03 Apr 2021 06:16:14: 2000000 INFO @ Sat, 03 Apr 2021 06:16:22: 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 06:16:25: #1 tag size is determined as 54 bps INFO @ Sat, 03 Apr 2021 06:16:25: #1 tag size = 54 INFO @ Sat, 03 Apr 2021 06:16:25: #1 total tags in treatment: 3464265 INFO @ Sat, 03 Apr 2021 06:16:25: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:16:25: #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 06:16:26: #1 tags after filtering in treatment: 3464265 INFO @ Sat, 03 Apr 2021 06:16:26: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:16:26: #1 finished! INFO @ Sat, 03 Apr 2021 06:16:26: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:16:26: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:16:26: #2 number of paired peaks: 4587 INFO @ Sat, 03 Apr 2021 06:16:26: start model_add_line... INFO @ Sat, 03 Apr 2021 06:16:26: start X-correlation... INFO @ Sat, 03 Apr 2021 06:16:26: end of X-cor INFO @ Sat, 03 Apr 2021 06:16:26: #2 finished! INFO @ Sat, 03 Apr 2021 06:16:26: #2 predicted fragment length is 97 bps INFO @ Sat, 03 Apr 2021 06:16:26: #2 alternative fragment length(s) may be 97 bps INFO @ Sat, 03 Apr 2021 06:16:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3426797/SRX3426797.05_model.r WARNING @ Sat, 03 Apr 2021 06:16:26: #2 Since the d (97) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:16:26: #2 You may need to consider one of the other alternative d(s): 97 WARNING @ Sat, 03 Apr 2021 06:16:26: #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 06:16:26: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:16:26: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:16:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3426797/SRX3426797.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3426797/SRX3426797.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3426797/SRX3426797.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3426797/SRX3426797.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 06:16:28: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:16:28: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:16:36: 1000000 INFO @ Sat, 03 Apr 2021 06:16:37: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:16:43: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3426797/SRX3426797.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:16:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3426797/SRX3426797.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:16:43: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3426797/SRX3426797.05_summits.bed INFO @ Sat, 03 Apr 2021 06:16:43: Done! pass1 - making usageList (13 chroms): 5 millis pass2 - checking and writing primary data (10431 records, 4 fields): 35 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:16:44: 2000000 INFO @ Sat, 03 Apr 2021 06:16:51: 3000000 INFO @ Sat, 03 Apr 2021 06:16:55: #1 tag size is determined as 54 bps INFO @ Sat, 03 Apr 2021 06:16:55: #1 tag size = 54 INFO @ Sat, 03 Apr 2021 06:16:55: #1 total tags in treatment: 3464265 INFO @ Sat, 03 Apr 2021 06:16:55: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:16:55: #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 06:16:55: #1 tags after filtering in treatment: 3464265 INFO @ Sat, 03 Apr 2021 06:16:55: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:16:55: #1 finished! INFO @ Sat, 03 Apr 2021 06:16:55: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:16:55: #2 looking for paired plus/minus strand peaks... 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 06:16:56: #2 number of paired peaks: 4587 INFO @ Sat, 03 Apr 2021 06:16:56: start model_add_line... INFO @ Sat, 03 Apr 2021 06:16:56: start X-correlation... INFO @ Sat, 03 Apr 2021 06:16:56: end of X-cor INFO @ Sat, 03 Apr 2021 06:16:56: #2 finished! INFO @ Sat, 03 Apr 2021 06:16:56: #2 predicted fragment length is 97 bps INFO @ Sat, 03 Apr 2021 06:16:56: #2 alternative fragment length(s) may be 97 bps INFO @ Sat, 03 Apr 2021 06:16:56: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3426797/SRX3426797.10_model.r WARNING @ Sat, 03 Apr 2021 06:16:56: #2 Since the d (97) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:16:56: #2 You may need to consider one of the other alternative d(s): 97 WARNING @ Sat, 03 Apr 2021 06:16:56: #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 06:16:56: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:16:56: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:16:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3426797/SRX3426797.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3426797/SRX3426797.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3426797/SRX3426797.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3426797/SRX3426797.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 06:16:58: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:16:58: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:17:06: 1000000 INFO @ Sat, 03 Apr 2021 06:17:06: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:17:12: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3426797/SRX3426797.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:17:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3426797/SRX3426797.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:17:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3426797/SRX3426797.10_summits.bed INFO @ Sat, 03 Apr 2021 06:17:12: Done! pass1 - making usageList (13 chroms): 2 millis pass2 - checking and writing primary data (5777 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:17:14: 2000000 INFO @ Sat, 03 Apr 2021 06:17:22: 3000000 INFO @ Sat, 03 Apr 2021 06:17:26: #1 tag size is determined as 54 bps INFO @ Sat, 03 Apr 2021 06:17:26: #1 tag size = 54 INFO @ Sat, 03 Apr 2021 06:17:26: #1 total tags in treatment: 3464265 INFO @ Sat, 03 Apr 2021 06:17:26: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:17:26: #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 06:17:26: #1 tags after filtering in treatment: 3464265 INFO @ Sat, 03 Apr 2021 06:17:26: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:17:26: #1 finished! INFO @ Sat, 03 Apr 2021 06:17:26: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:17:26: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:17:26: #2 number of paired peaks: 4587 INFO @ Sat, 03 Apr 2021 06:17:26: start model_add_line... INFO @ Sat, 03 Apr 2021 06:17:26: start X-correlation... INFO @ Sat, 03 Apr 2021 06:17:26: end of X-cor INFO @ Sat, 03 Apr 2021 06:17:26: #2 finished! INFO @ Sat, 03 Apr 2021 06:17:26: #2 predicted fragment length is 97 bps INFO @ Sat, 03 Apr 2021 06:17:26: #2 alternative fragment length(s) may be 97 bps INFO @ Sat, 03 Apr 2021 06:17:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3426797/SRX3426797.20_model.r WARNING @ Sat, 03 Apr 2021 06:17:26: #2 Since the d (97) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:17:26: #2 You may need to consider one of the other alternative d(s): 97 WARNING @ Sat, 03 Apr 2021 06:17:26: #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 06:17:26: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:17:26: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:17:37: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:17:43: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3426797/SRX3426797.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:17:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3426797/SRX3426797.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:17:43: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3426797/SRX3426797.20_summits.bed INFO @ Sat, 03 Apr 2021 06:17:43: Done! pass1 - making usageList (11 chroms): 1 millis pass2 - checking and writing primary data (2062 records, 4 fields): 8 millis CompletedMACS2peakCalling