Job ID = 12265290 SRX = SRX5010749 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 15355318 spots for SRR8191174/SRR8191174.sra Written 15355318 spots for SRR8191174/SRR8191174.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265420 ("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: 00:05:21 15355318 reads; of these: 15355318 (100.00%) were unpaired; of these: 645471 (4.20%) aligned 0 times 7617431 (49.61%) aligned exactly 1 time 7092416 (46.19%) aligned >1 times 95.80% overall alignment rate Time searching: 00:05:21 Overall time: 00:05:21 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 8 files... [bam_rmdupse_core] 8217366 / 14709847 = 0.5586 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 06:34:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010749/SRX5010749.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010749/SRX5010749.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010749/SRX5010749.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010749/SRX5010749.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 06:34:48: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:34:48: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:34:55: 1000000 INFO @ Sat, 03 Apr 2021 06:35:02: 2000000 INFO @ Sat, 03 Apr 2021 06:35:08: 3000000 INFO @ Sat, 03 Apr 2021 06:35:15: 4000000 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 06:35:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010749/SRX5010749.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010749/SRX5010749.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010749/SRX5010749.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010749/SRX5010749.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 06:35:19: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:35:19: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:35:22: 5000000 INFO @ Sat, 03 Apr 2021 06:35:27: 1000000 INFO @ Sat, 03 Apr 2021 06:35:29: 6000000 INFO @ Sat, 03 Apr 2021 06:35:33: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:35:33: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:35:33: #1 total tags in treatment: 6492481 INFO @ Sat, 03 Apr 2021 06:35:33: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:35:33: #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 06:35:33: #1 tags after filtering in treatment: 6492481 INFO @ Sat, 03 Apr 2021 06:35:33: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:35:33: #1 finished! INFO @ Sat, 03 Apr 2021 06:35:33: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:35:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:35:34: #2 number of paired peaks: 2328 INFO @ Sat, 03 Apr 2021 06:35:34: start model_add_line... INFO @ Sat, 03 Apr 2021 06:35:34: start X-correlation... INFO @ Sat, 03 Apr 2021 06:35:34: end of X-cor INFO @ Sat, 03 Apr 2021 06:35:34: #2 finished! INFO @ Sat, 03 Apr 2021 06:35:34: #2 predicted fragment length is 83 bps INFO @ Sat, 03 Apr 2021 06:35:34: #2 alternative fragment length(s) may be 83 bps INFO @ Sat, 03 Apr 2021 06:35:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010749/SRX5010749.05_model.r WARNING @ Sat, 03 Apr 2021 06:35:34: #2 Since the d (83) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:35:34: #2 You may need to consider one of the other alternative d(s): 83 WARNING @ Sat, 03 Apr 2021 06:35:34: #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 06:35:34: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:35:34: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:35:34: 2000000 INFO @ Sat, 03 Apr 2021 06:35:42: 3000000 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 06:35:49: 4000000 INFO @ Sat, 03 Apr 2021 06:35:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010749/SRX5010749.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010749/SRX5010749.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010749/SRX5010749.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010749/SRX5010749.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 06:35:49: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:35:49: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:35:55: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:35:56: 5000000 INFO @ Sat, 03 Apr 2021 06:35:59: 1000000 INFO @ Sat, 03 Apr 2021 06:36:04: 6000000 INFO @ Sat, 03 Apr 2021 06:36:07: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010749/SRX5010749.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:36:07: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010749/SRX5010749.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:36:07: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010749/SRX5010749.05_summits.bed INFO @ Sat, 03 Apr 2021 06:36:07: Done! pass1 - making usageList (15 chroms): 5 millis pass2 - checking and writing primary data (8648 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:36:07: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:36:07: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:36:07: #1 total tags in treatment: 6492481 INFO @ Sat, 03 Apr 2021 06:36:07: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:36:07: #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 06:36:07: #1 tags after filtering in treatment: 6492481 INFO @ Sat, 03 Apr 2021 06:36:07: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:36:07: #1 finished! INFO @ Sat, 03 Apr 2021 06:36:07: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:36:07: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:36:08: #2 number of paired peaks: 2328 INFO @ Sat, 03 Apr 2021 06:36:08: start model_add_line... INFO @ Sat, 03 Apr 2021 06:36:08: start X-correlation... INFO @ Sat, 03 Apr 2021 06:36:08: end of X-cor INFO @ Sat, 03 Apr 2021 06:36:08: #2 finished! INFO @ Sat, 03 Apr 2021 06:36:08: #2 predicted fragment length is 83 bps INFO @ Sat, 03 Apr 2021 06:36:08: #2 alternative fragment length(s) may be 83 bps INFO @ Sat, 03 Apr 2021 06:36:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010749/SRX5010749.10_model.r WARNING @ Sat, 03 Apr 2021 06:36:08: #2 Since the d (83) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:36:08: #2 You may need to consider one of the other alternative d(s): 83 WARNING @ Sat, 03 Apr 2021 06:36:08: #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 06:36:08: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:36:08: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:36:09: 2000000 INFO @ Sat, 03 Apr 2021 06:36:18: 3000000 INFO @ Sat, 03 Apr 2021 06:36:27: 4000000 INFO @ Sat, 03 Apr 2021 06:36:30: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:36:36: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:36:43: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010749/SRX5010749.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:36:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010749/SRX5010749.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:36:43: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010749/SRX5010749.10_summits.bed INFO @ Sat, 03 Apr 2021 06:36:43: Done! pass1 - making usageList (15 chroms): 4 millis pass2 - checking and writing primary data (4787 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:36:45: 6000000 INFO @ Sat, 03 Apr 2021 06:36:49: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:36:49: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:36:49: #1 total tags in treatment: 6492481 INFO @ Sat, 03 Apr 2021 06:36:49: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:36:49: #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 06:36:49: #1 tags after filtering in treatment: 6492481 INFO @ Sat, 03 Apr 2021 06:36:49: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:36:49: #1 finished! INFO @ Sat, 03 Apr 2021 06:36:49: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:36:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:36:50: #2 number of paired peaks: 2328 INFO @ Sat, 03 Apr 2021 06:36:50: start model_add_line... INFO @ Sat, 03 Apr 2021 06:36:50: start X-correlation... INFO @ Sat, 03 Apr 2021 06:36:50: end of X-cor INFO @ Sat, 03 Apr 2021 06:36:50: #2 finished! INFO @ Sat, 03 Apr 2021 06:36:50: #2 predicted fragment length is 83 bps INFO @ Sat, 03 Apr 2021 06:36:50: #2 alternative fragment length(s) may be 83 bps INFO @ Sat, 03 Apr 2021 06:36:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010749/SRX5010749.20_model.r WARNING @ Sat, 03 Apr 2021 06:36:50: #2 Since the d (83) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:36:50: #2 You may need to consider one of the other alternative d(s): 83 WARNING @ Sat, 03 Apr 2021 06:36:50: #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 06:36:50: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:36:50: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:37:10: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:37:21: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010749/SRX5010749.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:37:21: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010749/SRX5010749.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:37:21: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010749/SRX5010749.20_summits.bed INFO @ Sat, 03 Apr 2021 06:37:21: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (1901 records, 4 fields): 8 millis CompletedMACS2peakCalling