Job ID = 12265273 SRX = SRX5010733 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 20580779 spots for SRR8191158/SRR8191158.sra Written 20580779 spots for SRR8191158/SRR8191158.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265406 ("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: 00:06:34 20580779 reads; of these: 20580779 (100.00%) were unpaired; of these: 681999 (3.31%) aligned 0 times 11629378 (56.51%) aligned exactly 1 time 8269402 (40.18%) aligned >1 times 96.69% overall alignment rate Time searching: 00:06:34 Overall time: 00:06:34 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] 11161983 / 19898780 = 0.5609 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 06:33:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010733/SRX5010733.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010733/SRX5010733.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010733/SRX5010733.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010733/SRX5010733.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 06:33:54: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:33:54: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:34:02: 1000000 INFO @ Sat, 03 Apr 2021 06:34:10: 2000000 INFO @ Sat, 03 Apr 2021 06:34:17: 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 06:34:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010733/SRX5010733.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010733/SRX5010733.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010733/SRX5010733.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010733/SRX5010733.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 06:34:23: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:34:23: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:34:25: 4000000 INFO @ Sat, 03 Apr 2021 06:34:31: 1000000 INFO @ Sat, 03 Apr 2021 06:34:32: 5000000 INFO @ Sat, 03 Apr 2021 06:34:39: 6000000 INFO @ Sat, 03 Apr 2021 06:34:40: 2000000 INFO @ Sat, 03 Apr 2021 06:34:46: 7000000 BedGraph に変換中... INFO @ Sat, 03 Apr 2021 06:34:50: 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 06:34:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010733/SRX5010733.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010733/SRX5010733.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010733/SRX5010733.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010733/SRX5010733.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 06:34:53: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:34:53: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:34:53: 8000000 INFO @ Sat, 03 Apr 2021 06:34:58: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:34:58: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:34:58: #1 total tags in treatment: 8736797 INFO @ Sat, 03 Apr 2021 06:34:58: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:34:58: #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 06:34:58: #1 tags after filtering in treatment: 8736797 INFO @ Sat, 03 Apr 2021 06:34:58: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:34:58: #1 finished! INFO @ Sat, 03 Apr 2021 06:34:58: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:34:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:34:59: 4000000 INFO @ Sat, 03 Apr 2021 06:34:59: #2 number of paired peaks: 2711 INFO @ Sat, 03 Apr 2021 06:34:59: start model_add_line... INFO @ Sat, 03 Apr 2021 06:35:00: start X-correlation... INFO @ Sat, 03 Apr 2021 06:35:00: end of X-cor INFO @ Sat, 03 Apr 2021 06:35:00: #2 finished! INFO @ Sat, 03 Apr 2021 06:35:00: #2 predicted fragment length is 87 bps INFO @ Sat, 03 Apr 2021 06:35:00: #2 alternative fragment length(s) may be 87 bps INFO @ Sat, 03 Apr 2021 06:35:00: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010733/SRX5010733.05_model.r WARNING @ Sat, 03 Apr 2021 06:35:00: #2 Since the d (87) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:35:00: #2 You may need to consider one of the other alternative d(s): 87 WARNING @ Sat, 03 Apr 2021 06:35:00: #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 06:35:00: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:35:00: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:35:01: 1000000 INFO @ Sat, 03 Apr 2021 06:35:08: 5000000 INFO @ Sat, 03 Apr 2021 06:35:09: 2000000 INFO @ Sat, 03 Apr 2021 06:35:16: 6000000 INFO @ Sat, 03 Apr 2021 06:35:17: 3000000 INFO @ Sat, 03 Apr 2021 06:35:25: 7000000 INFO @ Sat, 03 Apr 2021 06:35:25: 4000000 INFO @ Sat, 03 Apr 2021 06:35:28: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:35:33: 5000000 INFO @ Sat, 03 Apr 2021 06:35:33: 8000000 INFO @ Sat, 03 Apr 2021 06:35:39: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:35:39: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:35:39: #1 total tags in treatment: 8736797 INFO @ Sat, 03 Apr 2021 06:35:39: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:35:39: #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 06:35:39: #1 tags after filtering in treatment: 8736797 INFO @ Sat, 03 Apr 2021 06:35:39: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:35:39: #1 finished! INFO @ Sat, 03 Apr 2021 06:35:39: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:35:39: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:35:40: #2 number of paired peaks: 2711 INFO @ Sat, 03 Apr 2021 06:35:40: start model_add_line... INFO @ Sat, 03 Apr 2021 06:35:41: 6000000 INFO @ Sat, 03 Apr 2021 06:35:41: start X-correlation... INFO @ Sat, 03 Apr 2021 06:35:41: end of X-cor INFO @ Sat, 03 Apr 2021 06:35:41: #2 finished! INFO @ Sat, 03 Apr 2021 06:35:41: #2 predicted fragment length is 87 bps INFO @ Sat, 03 Apr 2021 06:35:41: #2 alternative fragment length(s) may be 87 bps INFO @ Sat, 03 Apr 2021 06:35:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010733/SRX5010733.10_model.r WARNING @ Sat, 03 Apr 2021 06:35:41: #2 Since the d (87) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:35:41: #2 You may need to consider one of the other alternative d(s): 87 WARNING @ Sat, 03 Apr 2021 06:35:41: #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 06:35:41: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:35:41: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:35:43: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010733/SRX5010733.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:35:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010733/SRX5010733.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:35:43: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010733/SRX5010733.05_summits.bed INFO @ Sat, 03 Apr 2021 06:35:43: Done! pass1 - making usageList (15 chroms): 6 millis pass2 - checking and writing primary data (11926 records, 4 fields): 22 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:35:48: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:35:56: 8000000 INFO @ Sat, 03 Apr 2021 06:36:02: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:36:02: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:36:02: #1 total tags in treatment: 8736797 INFO @ Sat, 03 Apr 2021 06:36:02: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:36:02: #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 06:36:02: #1 tags after filtering in treatment: 8736797 INFO @ Sat, 03 Apr 2021 06:36:02: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:36:02: #1 finished! INFO @ Sat, 03 Apr 2021 06:36:02: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:36:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:36:03: #2 number of paired peaks: 2711 INFO @ Sat, 03 Apr 2021 06:36:03: start model_add_line... INFO @ Sat, 03 Apr 2021 06:36:03: start X-correlation... INFO @ Sat, 03 Apr 2021 06:36:03: end of X-cor INFO @ Sat, 03 Apr 2021 06:36:03: #2 finished! INFO @ Sat, 03 Apr 2021 06:36:03: #2 predicted fragment length is 87 bps INFO @ Sat, 03 Apr 2021 06:36:03: #2 alternative fragment length(s) may be 87 bps INFO @ Sat, 03 Apr 2021 06:36:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010733/SRX5010733.20_model.r WARNING @ Sat, 03 Apr 2021 06:36:03: #2 Since the d (87) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:36:03: #2 You may need to consider one of the other alternative d(s): 87 WARNING @ Sat, 03 Apr 2021 06:36:03: #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 06:36:03: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:36:03: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:36:09: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:36:24: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010733/SRX5010733.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:36:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010733/SRX5010733.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:36:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010733/SRX5010733.10_summits.bed INFO @ Sat, 03 Apr 2021 06:36:25: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (7245 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:36:31: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:36:45: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010733/SRX5010733.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:36:45: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010733/SRX5010733.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:36:46: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010733/SRX5010733.20_summits.bed INFO @ Sat, 03 Apr 2021 06:36:46: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (3204 records, 4 fields): 11 millis CompletedMACS2peakCalling