Job ID = 12265314 SRX = SRX5010773 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 13589247 spots for SRR8191198/SRR8191198.sra Written 13589247 spots for SRR8191198/SRR8191198.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265462 ("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: 00:04:26 13589247 reads; of these: 13589247 (100.00%) were unpaired; of these: 583723 (4.30%) aligned 0 times 6167846 (45.39%) aligned exactly 1 time 6837678 (50.32%) aligned >1 times 95.70% overall alignment rate Time searching: 00:04:26 Overall time: 00:04:26 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] 8036813 / 13005524 = 0.6180 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 06:43:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010773/SRX5010773.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010773/SRX5010773.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010773/SRX5010773.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010773/SRX5010773.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 06:43:31: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:43:31: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:43:40: 1000000 INFO @ Sat, 03 Apr 2021 06:43:48: 2000000 INFO @ Sat, 03 Apr 2021 06:43:57: 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 06:44:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010773/SRX5010773.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010773/SRX5010773.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010773/SRX5010773.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010773/SRX5010773.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 06:44:01: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:44:01: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:44:06: 4000000 INFO @ Sat, 03 Apr 2021 06:44:10: 1000000 INFO @ Sat, 03 Apr 2021 06:44:14: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:44:14: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:44:14: #1 total tags in treatment: 4968711 INFO @ Sat, 03 Apr 2021 06:44:14: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:44:14: #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 06:44:14: #1 tags after filtering in treatment: 4968711 INFO @ Sat, 03 Apr 2021 06:44:14: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:44:14: #1 finished! INFO @ Sat, 03 Apr 2021 06:44:14: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:44:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:44:15: #2 number of paired peaks: 3131 INFO @ Sat, 03 Apr 2021 06:44:15: start model_add_line... INFO @ Sat, 03 Apr 2021 06:44:15: start X-correlation... INFO @ Sat, 03 Apr 2021 06:44:15: end of X-cor INFO @ Sat, 03 Apr 2021 06:44:15: #2 finished! INFO @ Sat, 03 Apr 2021 06:44:15: #2 predicted fragment length is 77 bps INFO @ Sat, 03 Apr 2021 06:44:15: #2 alternative fragment length(s) may be 77 bps INFO @ Sat, 03 Apr 2021 06:44:15: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010773/SRX5010773.05_model.r WARNING @ Sat, 03 Apr 2021 06:44:15: #2 Since the d (77) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:44:15: #2 You may need to consider one of the other alternative d(s): 77 WARNING @ Sat, 03 Apr 2021 06:44:15: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:44:15: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:44:15: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:44:19: 2000000 INFO @ Sat, 03 Apr 2021 06:44:27: 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 06:44:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5010773/SRX5010773.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5010773/SRX5010773.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5010773/SRX5010773.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5010773/SRX5010773.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 06:44:31: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:44:31: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:44:31: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:44:36: 4000000 INFO @ Sat, 03 Apr 2021 06:44:41: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010773/SRX5010773.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:44:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010773/SRX5010773.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:44:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010773/SRX5010773.05_summits.bed INFO @ Sat, 03 Apr 2021 06:44:41: Done! pass1 - making usageList (15 chroms): 4 millis pass2 - checking and writing primary data (7179 records, 4 fields): 27 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:44:42: 1000000 INFO @ Sat, 03 Apr 2021 06:44:45: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:44:45: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:44:45: #1 total tags in treatment: 4968711 INFO @ Sat, 03 Apr 2021 06:44:45: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:44:45: #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 06:44:45: #1 tags after filtering in treatment: 4968711 INFO @ Sat, 03 Apr 2021 06:44:45: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:44:45: #1 finished! INFO @ Sat, 03 Apr 2021 06:44:45: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:44:45: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:44:46: #2 number of paired peaks: 3131 INFO @ Sat, 03 Apr 2021 06:44:46: start model_add_line... INFO @ Sat, 03 Apr 2021 06:44:46: start X-correlation... INFO @ Sat, 03 Apr 2021 06:44:46: end of X-cor INFO @ Sat, 03 Apr 2021 06:44:46: #2 finished! INFO @ Sat, 03 Apr 2021 06:44:46: #2 predicted fragment length is 77 bps INFO @ Sat, 03 Apr 2021 06:44:46: #2 alternative fragment length(s) may be 77 bps INFO @ Sat, 03 Apr 2021 06:44:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010773/SRX5010773.10_model.r WARNING @ Sat, 03 Apr 2021 06:44:46: #2 Since the d (77) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:44:46: #2 You may need to consider one of the other alternative d(s): 77 WARNING @ Sat, 03 Apr 2021 06:44:46: #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 06:44:46: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:44:46: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:44:52: 2000000 INFO @ Sat, 03 Apr 2021 06:45:02: 3000000 INFO @ Sat, 03 Apr 2021 06:45:04: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:45:12: 4000000 INFO @ Sat, 03 Apr 2021 06:45:13: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010773/SRX5010773.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:45:13: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010773/SRX5010773.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:45:13: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010773/SRX5010773.10_summits.bed INFO @ Sat, 03 Apr 2021 06:45:13: Done! BedGraph に変換しました。 BigWig に変換中... pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (3973 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:45:22: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:45:22: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:45:22: #1 total tags in treatment: 4968711 INFO @ Sat, 03 Apr 2021 06:45:22: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:45:22: #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 06:45:22: #1 tags after filtering in treatment: 4968711 INFO @ Sat, 03 Apr 2021 06:45:22: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:45:22: #1 finished! INFO @ Sat, 03 Apr 2021 06:45:22: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:45:22: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:45:22: #2 number of paired peaks: 3131 INFO @ Sat, 03 Apr 2021 06:45:22: start model_add_line... INFO @ Sat, 03 Apr 2021 06:45:22: start X-correlation... INFO @ Sat, 03 Apr 2021 06:45:22: end of X-cor INFO @ Sat, 03 Apr 2021 06:45:22: #2 finished! INFO @ Sat, 03 Apr 2021 06:45:22: #2 predicted fragment length is 77 bps INFO @ Sat, 03 Apr 2021 06:45:22: #2 alternative fragment length(s) may be 77 bps INFO @ Sat, 03 Apr 2021 06:45:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5010773/SRX5010773.20_model.r WARNING @ Sat, 03 Apr 2021 06:45:22: #2 Since the d (77) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:45:22: #2 You may need to consider one of the other alternative d(s): 77 WARNING @ Sat, 03 Apr 2021 06:45:22: #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 06:45:22: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:45:23: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:45:40: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:45:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5010773/SRX5010773.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:45:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5010773/SRX5010773.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:45:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5010773/SRX5010773.20_summits.bed INFO @ Sat, 03 Apr 2021 06:45:49: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (1528 records, 4 fields): 7 millis CompletedMACS2peakCalling