Job ID = 12265712 SRX = SRX7281026 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 24363236 spots for SRR10601374/SRR10601374.sra Written 24363236 spots for SRR10601374/SRR10601374.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265903 ("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: 00:06:06 24363236 reads; of these: 24363236 (100.00%) were unpaired; of these: 16272398 (66.79%) aligned 0 times 7142627 (29.32%) aligned exactly 1 time 948211 (3.89%) aligned >1 times 33.21% overall alignment rate Time searching: 00:06:06 Overall time: 00:06:06 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] 2919222 / 8090838 = 0.3608 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 08:27:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7281026/SRX7281026.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7281026/SRX7281026.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7281026/SRX7281026.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7281026/SRX7281026.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 08:27:48: #1 read tag files... INFO @ Sat, 03 Apr 2021 08:27:48: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 08:27:56: 1000000 INFO @ Sat, 03 Apr 2021 08:28:04: 2000000 INFO @ Sat, 03 Apr 2021 08:28:12: 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 08:28:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7281026/SRX7281026.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7281026/SRX7281026.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7281026/SRX7281026.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7281026/SRX7281026.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 08:28:18: #1 read tag files... INFO @ Sat, 03 Apr 2021 08:28:18: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 08:28:20: 4000000 INFO @ Sat, 03 Apr 2021 08:28:27: 1000000 INFO @ Sat, 03 Apr 2021 08:28:28: 5000000 INFO @ Sat, 03 Apr 2021 08:28:30: #1 tag size is determined as 74 bps INFO @ Sat, 03 Apr 2021 08:28:30: #1 tag size = 74 INFO @ Sat, 03 Apr 2021 08:28:30: #1 total tags in treatment: 5171616 INFO @ Sat, 03 Apr 2021 08:28:30: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 08:28:30: #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 08:28:30: #1 tags after filtering in treatment: 5171616 INFO @ Sat, 03 Apr 2021 08:28:30: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 08:28:30: #1 finished! INFO @ Sat, 03 Apr 2021 08:28:30: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 08:28:30: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 08:28:30: #2 number of paired peaks: 5033 INFO @ Sat, 03 Apr 2021 08:28:30: start model_add_line... INFO @ Sat, 03 Apr 2021 08:28:31: start X-correlation... INFO @ Sat, 03 Apr 2021 08:28:31: end of X-cor INFO @ Sat, 03 Apr 2021 08:28:31: #2 finished! INFO @ Sat, 03 Apr 2021 08:28:31: #2 predicted fragment length is 91 bps INFO @ Sat, 03 Apr 2021 08:28:31: #2 alternative fragment length(s) may be 91 bps INFO @ Sat, 03 Apr 2021 08:28:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7281026/SRX7281026.05_model.r WARNING @ Sat, 03 Apr 2021 08:28:31: #2 Since the d (91) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 08:28:31: #2 You may need to consider one of the other alternative d(s): 91 WARNING @ Sat, 03 Apr 2021 08:28:31: #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 08:28:31: #3 Call peaks... INFO @ Sat, 03 Apr 2021 08:28:31: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 08:28:36: 2000000 INFO @ Sat, 03 Apr 2021 08:28:44: 3000000 INFO @ Sat, 03 Apr 2021 08:28:44: #3 Call peaks for each chromosome... 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 08:28:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7281026/SRX7281026.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7281026/SRX7281026.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7281026/SRX7281026.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7281026/SRX7281026.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 08:28:48: #1 read tag files... INFO @ Sat, 03 Apr 2021 08:28:48: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 08:28:51: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7281026/SRX7281026.05_peaks.xls INFO @ Sat, 03 Apr 2021 08:28:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7281026/SRX7281026.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 08:28:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7281026/SRX7281026.05_summits.bed INFO @ Sat, 03 Apr 2021 08:28:52: Done! pass1 - making usageList (15 chroms): 3 millis pass2 - checking and writing primary data (16216 records, 4 fields): 16 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 08:28:52: 4000000 INFO @ Sat, 03 Apr 2021 08:28:57: 1000000 INFO @ Sat, 03 Apr 2021 08:29:01: 5000000 INFO @ Sat, 03 Apr 2021 08:29:02: #1 tag size is determined as 74 bps INFO @ Sat, 03 Apr 2021 08:29:02: #1 tag size = 74 INFO @ Sat, 03 Apr 2021 08:29:02: #1 total tags in treatment: 5171616 INFO @ Sat, 03 Apr 2021 08:29:02: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 08:29:02: #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 08:29:02: #1 tags after filtering in treatment: 5171616 INFO @ Sat, 03 Apr 2021 08:29:02: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 08:29:02: #1 finished! INFO @ Sat, 03 Apr 2021 08:29:02: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 08:29:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 08:29:03: #2 number of paired peaks: 5033 INFO @ Sat, 03 Apr 2021 08:29:03: start model_add_line... INFO @ Sat, 03 Apr 2021 08:29:03: start X-correlation... INFO @ Sat, 03 Apr 2021 08:29:03: end of X-cor INFO @ Sat, 03 Apr 2021 08:29:03: #2 finished! INFO @ Sat, 03 Apr 2021 08:29:03: #2 predicted fragment length is 91 bps INFO @ Sat, 03 Apr 2021 08:29:03: #2 alternative fragment length(s) may be 91 bps INFO @ Sat, 03 Apr 2021 08:29:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7281026/SRX7281026.10_model.r WARNING @ Sat, 03 Apr 2021 08:29:03: #2 Since the d (91) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 08:29:03: #2 You may need to consider one of the other alternative d(s): 91 WARNING @ Sat, 03 Apr 2021 08:29:03: #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 08:29:03: #3 Call peaks... INFO @ Sat, 03 Apr 2021 08:29:03: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 08:29:04: 2000000 INFO @ Sat, 03 Apr 2021 08:29:12: 3000000 INFO @ Sat, 03 Apr 2021 08:29:16: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 08:29:19: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 08:29:24: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7281026/SRX7281026.10_peaks.xls INFO @ Sat, 03 Apr 2021 08:29:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7281026/SRX7281026.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 08:29:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7281026/SRX7281026.10_summits.bed INFO @ Sat, 03 Apr 2021 08:29:24: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (10262 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 08:29:26: 5000000 INFO @ Sat, 03 Apr 2021 08:29:27: #1 tag size is determined as 74 bps INFO @ Sat, 03 Apr 2021 08:29:27: #1 tag size = 74 INFO @ Sat, 03 Apr 2021 08:29:27: #1 total tags in treatment: 5171616 INFO @ Sat, 03 Apr 2021 08:29:27: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 08:29:27: #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 08:29:27: #1 tags after filtering in treatment: 5171616 INFO @ Sat, 03 Apr 2021 08:29:27: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 08:29:27: #1 finished! INFO @ Sat, 03 Apr 2021 08:29:27: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 08:29:27: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 08:29:28: #2 number of paired peaks: 5033 INFO @ Sat, 03 Apr 2021 08:29:28: start model_add_line... INFO @ Sat, 03 Apr 2021 08:29:28: start X-correlation... INFO @ Sat, 03 Apr 2021 08:29:28: end of X-cor INFO @ Sat, 03 Apr 2021 08:29:28: #2 finished! INFO @ Sat, 03 Apr 2021 08:29:28: #2 predicted fragment length is 91 bps INFO @ Sat, 03 Apr 2021 08:29:28: #2 alternative fragment length(s) may be 91 bps INFO @ Sat, 03 Apr 2021 08:29:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7281026/SRX7281026.20_model.r WARNING @ Sat, 03 Apr 2021 08:29:28: #2 Since the d (91) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 08:29:28: #2 You may need to consider one of the other alternative d(s): 91 WARNING @ Sat, 03 Apr 2021 08:29:28: #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 08:29:28: #3 Call peaks... INFO @ Sat, 03 Apr 2021 08:29:28: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 08:29:41: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 08:29:48: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7281026/SRX7281026.20_peaks.xls INFO @ Sat, 03 Apr 2021 08:29:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7281026/SRX7281026.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 08:29:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7281026/SRX7281026.20_summits.bed INFO @ Sat, 03 Apr 2021 08:29:48: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (4446 records, 4 fields): 5 millis CompletedMACS2peakCalling