Job ID = 12265684 SRX = SRX7281008 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 25764831 spots for SRR10601383/SRR10601383.sra Written 25764831 spots for SRR10601383/SRR10601383.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265853 ("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: 00:11:50 25764831 reads; of these: 25764831 (100.00%) were unpaired; of these: 11734636 (45.55%) aligned 0 times 10169848 (39.47%) aligned exactly 1 time 3860347 (14.98%) aligned >1 times 54.45% overall alignment rate Time searching: 00:11:50 Overall time: 00:11:50 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] 7427694 / 14030195 = 0.5294 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 08:26:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7281008/SRX7281008.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7281008/SRX7281008.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7281008/SRX7281008.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7281008/SRX7281008.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 08:26:20: #1 read tag files... INFO @ Sat, 03 Apr 2021 08:26:20: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 08:26:28: 1000000 INFO @ Sat, 03 Apr 2021 08:26:36: 2000000 INFO @ Sat, 03 Apr 2021 08:26:44: 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 08:26:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7281008/SRX7281008.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7281008/SRX7281008.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7281008/SRX7281008.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7281008/SRX7281008.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 08:26:50: #1 read tag files... INFO @ Sat, 03 Apr 2021 08:26:50: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 08:26:53: 4000000 INFO @ Sat, 03 Apr 2021 08:27:00: 1000000 INFO @ Sat, 03 Apr 2021 08:27:02: 5000000 INFO @ Sat, 03 Apr 2021 08:27:10: 2000000 INFO @ Sat, 03 Apr 2021 08:27:12: 6000000 INFO @ Sat, 03 Apr 2021 08:27:17: #1 tag size is determined as 74 bps INFO @ Sat, 03 Apr 2021 08:27:17: #1 tag size = 74 INFO @ Sat, 03 Apr 2021 08:27:17: #1 total tags in treatment: 6602501 INFO @ Sat, 03 Apr 2021 08:27:17: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 08:27:17: #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 08:27:17: #1 tags after filtering in treatment: 6602501 INFO @ Sat, 03 Apr 2021 08:27:17: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 08:27:17: #1 finished! INFO @ Sat, 03 Apr 2021 08:27:17: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 08:27:17: #2 looking for paired plus/minus strand peaks... 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 08:27:18: #2 number of paired peaks: 3241 INFO @ Sat, 03 Apr 2021 08:27:18: start model_add_line... INFO @ Sat, 03 Apr 2021 08:27:18: start X-correlation... INFO @ Sat, 03 Apr 2021 08:27:18: end of X-cor INFO @ Sat, 03 Apr 2021 08:27:18: #2 finished! INFO @ Sat, 03 Apr 2021 08:27:18: #2 predicted fragment length is 93 bps INFO @ Sat, 03 Apr 2021 08:27:18: #2 alternative fragment length(s) may be 93 bps INFO @ Sat, 03 Apr 2021 08:27:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7281008/SRX7281008.05_model.r WARNING @ Sat, 03 Apr 2021 08:27:18: #2 Since the d (93) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 08:27:18: #2 You may need to consider one of the other alternative d(s): 93 WARNING @ Sat, 03 Apr 2021 08:27:18: #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 08:27:18: #3 Call peaks... INFO @ Sat, 03 Apr 2021 08:27:18: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 08:27:19: 3000000 INFO @ Sat, 03 Apr 2021 08:27:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7281008/SRX7281008.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7281008/SRX7281008.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7281008/SRX7281008.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7281008/SRX7281008.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 08:27:21: #1 read tag files... INFO @ Sat, 03 Apr 2021 08:27:21: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 08:27:30: 4000000 INFO @ Sat, 03 Apr 2021 08:27:34: 1000000 INFO @ Sat, 03 Apr 2021 08:27:35: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 08:27:40: 5000000 INFO @ Sat, 03 Apr 2021 08:27:44: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7281008/SRX7281008.05_peaks.xls INFO @ Sat, 03 Apr 2021 08:27:44: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7281008/SRX7281008.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 08:27:44: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7281008/SRX7281008.05_summits.bed INFO @ Sat, 03 Apr 2021 08:27:44: Done! pass1 - making usageList (15 chroms): 8 millis INFO @ Sat, 03 Apr 2021 08:27:45: 2000000 pass2 - checking and writing primary data (16556 records, 4 fields): 110 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 08:27:50: 6000000 INFO @ Sat, 03 Apr 2021 08:27:56: 3000000 INFO @ Sat, 03 Apr 2021 08:27:56: #1 tag size is determined as 74 bps INFO @ Sat, 03 Apr 2021 08:27:56: #1 tag size = 74 INFO @ Sat, 03 Apr 2021 08:27:56: #1 total tags in treatment: 6602501 INFO @ Sat, 03 Apr 2021 08:27:56: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 08:27:56: #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 08:27:56: #1 tags after filtering in treatment: 6602501 INFO @ Sat, 03 Apr 2021 08:27:56: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 08:27:56: #1 finished! INFO @ Sat, 03 Apr 2021 08:27:56: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 08:27:56: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 08:27:57: #2 number of paired peaks: 3241 INFO @ Sat, 03 Apr 2021 08:27:57: start model_add_line... INFO @ Sat, 03 Apr 2021 08:27:57: start X-correlation... INFO @ Sat, 03 Apr 2021 08:27:57: end of X-cor INFO @ Sat, 03 Apr 2021 08:27:57: #2 finished! INFO @ Sat, 03 Apr 2021 08:27:57: #2 predicted fragment length is 93 bps INFO @ Sat, 03 Apr 2021 08:27:57: #2 alternative fragment length(s) may be 93 bps INFO @ Sat, 03 Apr 2021 08:27:57: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7281008/SRX7281008.10_model.r WARNING @ Sat, 03 Apr 2021 08:27:57: #2 Since the d (93) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 08:27:57: #2 You may need to consider one of the other alternative d(s): 93 WARNING @ Sat, 03 Apr 2021 08:27:57: #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 08:27:57: #3 Call peaks... INFO @ Sat, 03 Apr 2021 08:27:57: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 08:28:05: 4000000 INFO @ Sat, 03 Apr 2021 08:28:13: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 08:28:15: 5000000 INFO @ Sat, 03 Apr 2021 08:28:23: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7281008/SRX7281008.10_peaks.xls INFO @ Sat, 03 Apr 2021 08:28:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7281008/SRX7281008.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 08:28:23: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7281008/SRX7281008.10_summits.bed INFO @ Sat, 03 Apr 2021 08:28:23: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (9734 records, 4 fields): 17 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 08:28:25: 6000000 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: 6602501 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: 6602501 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 08:28:31: #2 number of paired peaks: 3241 INFO @ Sat, 03 Apr 2021 08:28:31: 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 93 bps INFO @ Sat, 03 Apr 2021 08:28:31: #2 alternative fragment length(s) may be 93 bps INFO @ Sat, 03 Apr 2021 08:28:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7281008/SRX7281008.20_model.r WARNING @ Sat, 03 Apr 2021 08:28:31: #2 Since the d (93) 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): 93 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... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 08:28:46: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 08:28:53: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7281008/SRX7281008.20_peaks.xls INFO @ Sat, 03 Apr 2021 08:28:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7281008/SRX7281008.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 08:28:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7281008/SRX7281008.20_summits.bed INFO @ Sat, 03 Apr 2021 08:28:53: Done! pass1 - making usageList (13 chroms): 8 millis pass2 - checking and writing primary data (3948 records, 4 fields): 11 millis CompletedMACS2peakCalling BigWig に変換しました。