Job ID = 14170093 SRX = SRX5007623 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 7718088 spots for SRR8187838/SRR8187838.sra Written 7718088 spots for SRR8187838/SRR8187838.sra fastq に変換しました。 bowtie でマッピング中... Your job 14170663 ("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: 00:03:07 7718088 reads; of these: 7718088 (100.00%) were unpaired; of these: 5859204 (75.92%) aligned 0 times 1444373 (18.71%) aligned exactly 1 time 414511 (5.37%) aligned >1 times 24.08% overall alignment rate Time searching: 00:03:07 Overall time: 00:03:07 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] 1278718 / 1858884 = 0.6879 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 05:14:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5007623/SRX5007623.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5007623/SRX5007623.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5007623/SRX5007623.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5007623/SRX5007623.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 05:14:11: #1 read tag files... INFO @ Sat, 11 Dec 2021 05:14:11: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 05:14:15: #1 tag size is determined as 151 bps INFO @ Sat, 11 Dec 2021 05:14:15: #1 tag size = 151 INFO @ Sat, 11 Dec 2021 05:14:15: #1 total tags in treatment: 580166 INFO @ Sat, 11 Dec 2021 05:14:15: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 05:14:15: #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 05:14:15: #1 tags after filtering in treatment: 580166 INFO @ Sat, 11 Dec 2021 05:14:15: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 05:14:15: #1 finished! INFO @ Sat, 11 Dec 2021 05:14:15: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 05:14:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 05:14:15: #2 number of paired peaks: 3818 INFO @ Sat, 11 Dec 2021 05:14:15: start model_add_line... INFO @ Sat, 11 Dec 2021 05:14:15: start X-correlation... INFO @ Sat, 11 Dec 2021 05:14:15: end of X-cor INFO @ Sat, 11 Dec 2021 05:14:15: #2 finished! INFO @ Sat, 11 Dec 2021 05:14:15: #2 predicted fragment length is 159 bps INFO @ Sat, 11 Dec 2021 05:14:15: #2 alternative fragment length(s) may be 159 bps INFO @ Sat, 11 Dec 2021 05:14:15: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5007623/SRX5007623.05_model.r WARNING @ Sat, 11 Dec 2021 05:14:15: #2 Since the d (159) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 05:14:15: #2 You may need to consider one of the other alternative d(s): 159 WARNING @ Sat, 11 Dec 2021 05:14:15: #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 05:14:15: #3 Call peaks... INFO @ Sat, 11 Dec 2021 05:14:15: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 05:14:17: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 05:14:17: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5007623/SRX5007623.05_peaks.xls INFO @ Sat, 11 Dec 2021 05:14:17: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5007623/SRX5007623.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 05:14:17: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5007623/SRX5007623.05_summits.bed INFO @ Sat, 11 Dec 2021 05:14:18: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (897 records, 4 fields): 3 millis CompletedMACS2peakCalling 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 05:14:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5007623/SRX5007623.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5007623/SRX5007623.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5007623/SRX5007623.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5007623/SRX5007623.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 05:14:41: #1 read tag files... INFO @ Sat, 11 Dec 2021 05:14:41: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 05:14:45: #1 tag size is determined as 151 bps INFO @ Sat, 11 Dec 2021 05:14:45: #1 tag size = 151 INFO @ Sat, 11 Dec 2021 05:14:45: #1 total tags in treatment: 580166 INFO @ Sat, 11 Dec 2021 05:14:45: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 05:14:45: #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 05:14:45: #1 tags after filtering in treatment: 580166 INFO @ Sat, 11 Dec 2021 05:14:45: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 05:14:45: #1 finished! INFO @ Sat, 11 Dec 2021 05:14:45: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 05:14:45: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 05:14:45: #2 number of paired peaks: 3818 INFO @ Sat, 11 Dec 2021 05:14:45: start model_add_line... INFO @ Sat, 11 Dec 2021 05:14:45: start X-correlation... INFO @ Sat, 11 Dec 2021 05:14:45: end of X-cor INFO @ Sat, 11 Dec 2021 05:14:45: #2 finished! INFO @ Sat, 11 Dec 2021 05:14:45: #2 predicted fragment length is 159 bps INFO @ Sat, 11 Dec 2021 05:14:45: #2 alternative fragment length(s) may be 159 bps INFO @ Sat, 11 Dec 2021 05:14:45: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5007623/SRX5007623.10_model.r WARNING @ Sat, 11 Dec 2021 05:14:45: #2 Since the d (159) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 05:14:45: #2 You may need to consider one of the other alternative d(s): 159 WARNING @ Sat, 11 Dec 2021 05:14:45: #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 05:14:45: #3 Call peaks... INFO @ Sat, 11 Dec 2021 05:14:45: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 05:14:47: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 05:14:47: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5007623/SRX5007623.10_peaks.xls INFO @ Sat, 11 Dec 2021 05:14:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5007623/SRX5007623.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 05:14:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5007623/SRX5007623.10_summits.bed INFO @ Sat, 11 Dec 2021 05:14:47: Done! pass1 - making usageList (11 chroms): 1 millis pass2 - checking and writing primary data (267 records, 4 fields): 1 millis CompletedMACS2peakCalling 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 05:15:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5007623/SRX5007623.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5007623/SRX5007623.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5007623/SRX5007623.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5007623/SRX5007623.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 05:15:11: #1 read tag files... INFO @ Sat, 11 Dec 2021 05:15:11: #1 read treatment tags... BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 05:15:15: #1 tag size is determined as 151 bps INFO @ Sat, 11 Dec 2021 05:15:15: #1 tag size = 151 INFO @ Sat, 11 Dec 2021 05:15:15: #1 total tags in treatment: 580166 INFO @ Sat, 11 Dec 2021 05:15:15: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 05:15:15: #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 05:15:15: #1 tags after filtering in treatment: 580166 INFO @ Sat, 11 Dec 2021 05:15:15: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 05:15:15: #1 finished! INFO @ Sat, 11 Dec 2021 05:15:15: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 05:15:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 05:15:15: #2 number of paired peaks: 3818 INFO @ Sat, 11 Dec 2021 05:15:15: start model_add_line... INFO @ Sat, 11 Dec 2021 05:15:15: start X-correlation... INFO @ Sat, 11 Dec 2021 05:15:15: end of X-cor INFO @ Sat, 11 Dec 2021 05:15:15: #2 finished! INFO @ Sat, 11 Dec 2021 05:15:15: #2 predicted fragment length is 159 bps INFO @ Sat, 11 Dec 2021 05:15:15: #2 alternative fragment length(s) may be 159 bps INFO @ Sat, 11 Dec 2021 05:15:15: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5007623/SRX5007623.20_model.r WARNING @ Sat, 11 Dec 2021 05:15:15: #2 Since the d (159) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 05:15:15: #2 You may need to consider one of the other alternative d(s): 159 WARNING @ Sat, 11 Dec 2021 05:15:15: #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 05:15:15: #3 Call peaks... INFO @ Sat, 11 Dec 2021 05:15:15: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 05:15:17: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 05:15:17: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5007623/SRX5007623.20_peaks.xls INFO @ Sat, 11 Dec 2021 05:15:17: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5007623/SRX5007623.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 05:15:17: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5007623/SRX5007623.20_summits.bed INFO @ Sat, 11 Dec 2021 05:15:17: Done! pass1 - making usageList (9 chroms): 1 millis pass2 - checking and writing primary data (97 records, 4 fields): 1 millis CompletedMACS2peakCalling