Job ID = 12265283 SRX = SRX5010742 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 12643646 spots for SRR8191167/SRR8191167.sra Written 12643646 spots for SRR8191167/SRR8191167.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265407 ("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: 00:04:17 12643646 reads; of these: 12643646 (100.00%) were unpaired; of these: 497080 (3.93%) aligned 0 times 7230616 (57.19%) aligned exactly 1 time 4915950 (38.88%) aligned >1 times 96.07% overall alignment rate Time searching: 00:04:17 Overall time: 00:04:17 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] 6113642 / 12146566 = 0.5033 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 06:32:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010742/SRX5010742.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010742/SRX5010742.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010742/SRX5010742.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010742/SRX5010742.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 06:32:28: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:32:28: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:32:38: 1000000 INFO @ Sat, 03 Apr 2021 06:32:49: 2000000 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 06:32:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010742/SRX5010742.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010742/SRX5010742.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010742/SRX5010742.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010742/SRX5010742.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 06:32:58: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:32:58: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:32:59: 3000000 INFO @ Sat, 03 Apr 2021 06:33:07: 1000000 INFO @ Sat, 03 Apr 2021 06:33:09: 4000000 INFO @ Sat, 03 Apr 2021 06:33:15: 2000000 INFO @ Sat, 03 Apr 2021 06:33:18: 5000000 INFO @ Sat, 03 Apr 2021 06:33:24: 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 06:33:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010742/SRX5010742.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010742/SRX5010742.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010742/SRX5010742.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010742/SRX5010742.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 06:33:28: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:33:28: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:33:28: 6000000 INFO @ Sat, 03 Apr 2021 06:33:28: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:33:28: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:33:28: #1 total tags in treatment: 6032924 INFO @ Sat, 03 Apr 2021 06:33:28: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:33:28: #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 06:33:28: #1 tags after filtering in treatment: 6032924 INFO @ Sat, 03 Apr 2021 06:33:28: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:33:28: #1 finished! INFO @ Sat, 03 Apr 2021 06:33:28: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:33:28: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:33:29: #2 number of paired peaks: 2853 INFO @ Sat, 03 Apr 2021 06:33:29: start model_add_line... INFO @ Sat, 03 Apr 2021 06:33:29: start X-correlation... INFO @ Sat, 03 Apr 2021 06:33:29: end of X-cor INFO @ Sat, 03 Apr 2021 06:33:29: #2 finished! INFO @ Sat, 03 Apr 2021 06:33:29: #2 predicted fragment length is 88 bps INFO @ Sat, 03 Apr 2021 06:33:29: #2 alternative fragment length(s) may be 88 bps INFO @ Sat, 03 Apr 2021 06:33:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010742/SRX5010742.05_model.r WARNING @ Sat, 03 Apr 2021 06:33:29: #2 Since the d (88) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:33:29: #2 You may need to consider one of the other alternative d(s): 88 WARNING @ Sat, 03 Apr 2021 06:33:29: #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 06:33:29: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:33:29: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:33:32: 4000000 INFO @ Sat, 03 Apr 2021 06:33:35: 1000000 INFO @ Sat, 03 Apr 2021 06:33:40: 5000000 INFO @ Sat, 03 Apr 2021 06:33:43: 2000000 INFO @ Sat, 03 Apr 2021 06:33:48: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:33:48: 6000000 INFO @ Sat, 03 Apr 2021 06:33:49: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:33:49: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:33:49: #1 total tags in treatment: 6032924 INFO @ Sat, 03 Apr 2021 06:33:49: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:33:49: #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 06:33:49: #1 tags after filtering in treatment: 6032924 INFO @ Sat, 03 Apr 2021 06:33:49: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:33:49: #1 finished! INFO @ Sat, 03 Apr 2021 06:33:49: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:33:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:33:49: #2 number of paired peaks: 2853 INFO @ Sat, 03 Apr 2021 06:33:49: start model_add_line... INFO @ Sat, 03 Apr 2021 06:33:50: start X-correlation... INFO @ Sat, 03 Apr 2021 06:33:50: end of X-cor INFO @ Sat, 03 Apr 2021 06:33:50: #2 finished! INFO @ Sat, 03 Apr 2021 06:33:50: #2 predicted fragment length is 88 bps INFO @ Sat, 03 Apr 2021 06:33:50: #2 alternative fragment length(s) may be 88 bps INFO @ Sat, 03 Apr 2021 06:33:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010742/SRX5010742.10_model.r WARNING @ Sat, 03 Apr 2021 06:33:50: #2 Since the d (88) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:33:50: #2 You may need to consider one of the other alternative d(s): 88 WARNING @ Sat, 03 Apr 2021 06:33:50: #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 06:33:50: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:33:50: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:33:50: 3000000 INFO @ Sat, 03 Apr 2021 06:33:57: 4000000 INFO @ Sat, 03 Apr 2021 06:33:58: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010742/SRX5010742.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:33:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010742/SRX5010742.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:33:58: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010742/SRX5010742.05_summits.bed INFO @ Sat, 03 Apr 2021 06:33:58: Done! pass1 - making usageList (15 chroms): 5 millis pass2 - checking and writing primary data (9219 records, 4 fields): 14 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:34:04: 5000000 INFO @ Sat, 03 Apr 2021 06:34:08: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:34:11: 6000000 INFO @ Sat, 03 Apr 2021 06:34:11: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:34:11: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:34:11: #1 total tags in treatment: 6032924 INFO @ Sat, 03 Apr 2021 06:34:11: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:34:11: #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 06:34:11: #1 tags after filtering in treatment: 6032924 INFO @ Sat, 03 Apr 2021 06:34:11: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:34:11: #1 finished! INFO @ Sat, 03 Apr 2021 06:34:11: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:34:11: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:34:12: #2 number of paired peaks: 2853 INFO @ Sat, 03 Apr 2021 06:34:12: start model_add_line... INFO @ Sat, 03 Apr 2021 06:34:12: start X-correlation... INFO @ Sat, 03 Apr 2021 06:34:12: end of X-cor INFO @ Sat, 03 Apr 2021 06:34:12: #2 finished! INFO @ Sat, 03 Apr 2021 06:34:12: #2 predicted fragment length is 88 bps INFO @ Sat, 03 Apr 2021 06:34:12: #2 alternative fragment length(s) may be 88 bps INFO @ Sat, 03 Apr 2021 06:34:12: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010742/SRX5010742.20_model.r WARNING @ Sat, 03 Apr 2021 06:34:12: #2 Since the d (88) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:34:12: #2 You may need to consider one of the other alternative d(s): 88 WARNING @ Sat, 03 Apr 2021 06:34:12: #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 06:34:12: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:34:12: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:34:19: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010742/SRX5010742.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:34:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010742/SRX5010742.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:34:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010742/SRX5010742.10_summits.bed INFO @ Sat, 03 Apr 2021 06:34:19: Done! pass1 - making usageList (15 chroms): 4 millis pass2 - checking and writing primary data (5386 records, 4 fields): 11 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:34:30: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:34:40: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010742/SRX5010742.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:34:40: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010742/SRX5010742.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:34:40: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010742/SRX5010742.20_summits.bed INFO @ Sat, 03 Apr 2021 06:34:40: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (2218 records, 4 fields): 9 millis CompletedMACS2peakCalling