Job ID = 12265204 SRX = SRX4082395 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:11:15 55644509 reads; of these: 55644509 (100.00%) were unpaired; of these: 8372651 (15.05%) aligned 0 times 40665638 (73.08%) aligned exactly 1 time 6606220 (11.87%) aligned >1 times 84.95% overall alignment rate Time searching: 00:11:15 Overall time: 00:11:15 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_sort_core] merging from 20 files... [bam_rmdupse_core] 33007561 / 47271858 = 0.6982 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 06:34:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX4082395/SRX4082395.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX4082395/SRX4082395.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX4082395/SRX4082395.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX4082395/SRX4082395.bam'] # control file = None # effective genome size = 9.00e+07 # 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 06:34:13: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:34:13: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:34:23: 1000000 INFO @ Sat, 03 Apr 2021 06:34:32: 2000000 INFO @ Sat, 03 Apr 2021 06:34:40: 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 06:34:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX4082395/SRX4082395.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX4082395/SRX4082395.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX4082395/SRX4082395.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX4082395/SRX4082395.bam'] # control file = None # effective genome size = 9.00e+07 # 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 06:34:43: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:34:43: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:34:49: 4000000 INFO @ Sat, 03 Apr 2021 06:34:52: 1000000 INFO @ Sat, 03 Apr 2021 06:34:58: 5000000 INFO @ Sat, 03 Apr 2021 06:35:00: 2000000 INFO @ Sat, 03 Apr 2021 06:35:08: 6000000 INFO @ Sat, 03 Apr 2021 06:35:08: 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 06:35:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX4082395/SRX4082395.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX4082395/SRX4082395.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX4082395/SRX4082395.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX4082395/SRX4082395.bam'] # control file = None # effective genome size = 9.00e+07 # 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 06:35:13: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:35:13: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:35:15: 4000000 INFO @ Sat, 03 Apr 2021 06:35:17: 7000000 INFO @ Sat, 03 Apr 2021 06:35:21: 1000000 INFO @ Sat, 03 Apr 2021 06:35:23: 5000000 INFO @ Sat, 03 Apr 2021 06:35:26: 8000000 INFO @ Sat, 03 Apr 2021 06:35:29: 2000000 INFO @ Sat, 03 Apr 2021 06:35:31: 6000000 INFO @ Sat, 03 Apr 2021 06:35:35: 9000000 INFO @ Sat, 03 Apr 2021 06:35:36: 3000000 INFO @ Sat, 03 Apr 2021 06:35:39: 7000000 INFO @ Sat, 03 Apr 2021 06:35:44: 4000000 INFO @ Sat, 03 Apr 2021 06:35:45: 10000000 INFO @ Sat, 03 Apr 2021 06:35:46: 8000000 INFO @ Sat, 03 Apr 2021 06:35:52: 5000000 INFO @ Sat, 03 Apr 2021 06:35:54: 11000000 INFO @ Sat, 03 Apr 2021 06:35:55: 9000000 INFO @ Sat, 03 Apr 2021 06:36:01: 6000000 INFO @ Sat, 03 Apr 2021 06:36:03: 10000000 INFO @ Sat, 03 Apr 2021 06:36:04: 12000000 INFO @ Sat, 03 Apr 2021 06:36:10: 7000000 INFO @ Sat, 03 Apr 2021 06:36:11: 11000000 INFO @ Sat, 03 Apr 2021 06:36:13: 13000000 INFO @ Sat, 03 Apr 2021 06:36:18: 8000000 INFO @ Sat, 03 Apr 2021 06:36:19: 12000000 INFO @ Sat, 03 Apr 2021 06:36:23: 14000000 INFO @ Sat, 03 Apr 2021 06:36:26: #1 tag size is determined as 47 bps INFO @ Sat, 03 Apr 2021 06:36:26: #1 tag size = 47 INFO @ Sat, 03 Apr 2021 06:36:26: #1 total tags in treatment: 14264297 INFO @ Sat, 03 Apr 2021 06:36:26: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:36:26: #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 06:36:26: #1 tags after filtering in treatment: 14264297 INFO @ Sat, 03 Apr 2021 06:36:26: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:36:26: #1 finished! INFO @ Sat, 03 Apr 2021 06:36:26: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:36:26: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:36:27: 13000000 INFO @ Sat, 03 Apr 2021 06:36:27: 9000000 INFO @ Sat, 03 Apr 2021 06:36:27: #2 number of paired peaks: 1278 INFO @ Sat, 03 Apr 2021 06:36:27: start model_add_line... INFO @ Sat, 03 Apr 2021 06:36:27: start X-correlation... INFO @ Sat, 03 Apr 2021 06:36:27: end of X-cor INFO @ Sat, 03 Apr 2021 06:36:27: #2 finished! INFO @ Sat, 03 Apr 2021 06:36:27: #2 predicted fragment length is 77 bps INFO @ Sat, 03 Apr 2021 06:36:27: #2 alternative fragment length(s) may be 77 bps INFO @ Sat, 03 Apr 2021 06:36:27: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX4082395/SRX4082395.05_model.r WARNING @ Sat, 03 Apr 2021 06:36:27: #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 06:36:27: #2 You may need to consider one of the other alternative d(s): 77 WARNING @ Sat, 03 Apr 2021 06:36:27: #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 06:36:27: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:36:27: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:36:35: 14000000 INFO @ Sat, 03 Apr 2021 06:36:35: 10000000 INFO @ Sat, 03 Apr 2021 06:36:37: #1 tag size is determined as 47 bps INFO @ Sat, 03 Apr 2021 06:36:37: #1 tag size = 47 INFO @ Sat, 03 Apr 2021 06:36:37: #1 total tags in treatment: 14264297 INFO @ Sat, 03 Apr 2021 06:36:37: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:36:37: #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 06:36:37: #1 tags after filtering in treatment: 14264297 INFO @ Sat, 03 Apr 2021 06:36:37: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:36:37: #1 finished! INFO @ Sat, 03 Apr 2021 06:36:37: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:36:37: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:36:39: #2 number of paired peaks: 1278 INFO @ Sat, 03 Apr 2021 06:36:39: start model_add_line... INFO @ Sat, 03 Apr 2021 06:36:39: start X-correlation... INFO @ Sat, 03 Apr 2021 06:36:39: end of X-cor INFO @ Sat, 03 Apr 2021 06:36:39: #2 finished! INFO @ Sat, 03 Apr 2021 06:36:39: #2 predicted fragment length is 77 bps INFO @ Sat, 03 Apr 2021 06:36:39: #2 alternative fragment length(s) may be 77 bps INFO @ Sat, 03 Apr 2021 06:36:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX4082395/SRX4082395.10_model.r WARNING @ Sat, 03 Apr 2021 06:36:39: #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 06:36:39: #2 You may need to consider one of the other alternative d(s): 77 WARNING @ Sat, 03 Apr 2021 06:36:39: #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 06:36:39: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:36:39: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:36:44: 11000000 INFO @ Sat, 03 Apr 2021 06:36:52: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:36:59: 13000000 INFO @ Sat, 03 Apr 2021 06:37:06: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:37:07: 14000000 INFO @ Sat, 03 Apr 2021 06:37:09: #1 tag size is determined as 47 bps INFO @ Sat, 03 Apr 2021 06:37:09: #1 tag size = 47 INFO @ Sat, 03 Apr 2021 06:37:09: #1 total tags in treatment: 14264297 INFO @ Sat, 03 Apr 2021 06:37:09: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:37:09: #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 06:37:09: #1 tags after filtering in treatment: 14264297 INFO @ Sat, 03 Apr 2021 06:37:09: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:37:09: #1 finished! INFO @ Sat, 03 Apr 2021 06:37:09: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:37:09: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:37:10: #2 number of paired peaks: 1278 INFO @ Sat, 03 Apr 2021 06:37:10: start model_add_line... INFO @ Sat, 03 Apr 2021 06:37:11: start X-correlation... INFO @ Sat, 03 Apr 2021 06:37:11: end of X-cor INFO @ Sat, 03 Apr 2021 06:37:11: #2 finished! INFO @ Sat, 03 Apr 2021 06:37:11: #2 predicted fragment length is 77 bps INFO @ Sat, 03 Apr 2021 06:37:11: #2 alternative fragment length(s) may be 77 bps INFO @ Sat, 03 Apr 2021 06:37:11: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX4082395/SRX4082395.20_model.r WARNING @ Sat, 03 Apr 2021 06:37:11: #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 06:37:11: #2 You may need to consider one of the other alternative d(s): 77 WARNING @ Sat, 03 Apr 2021 06:37:11: #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 06:37:11: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:37:11: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:37:18: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:37:25: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX4082395/SRX4082395.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:37:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX4082395/SRX4082395.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:37:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX4082395/SRX4082395.05_summits.bed INFO @ Sat, 03 Apr 2021 06:37:25: Done! pass1 - making usageList (7 chroms): 7 millis pass2 - checking and writing primary data (19999 records, 4 fields): 31 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:37:36: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX4082395/SRX4082395.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:37:36: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX4082395/SRX4082395.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:37:37: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX4082395/SRX4082395.10_summits.bed INFO @ Sat, 03 Apr 2021 06:37:37: Done! pass1 - making usageList (7 chroms): 3 millis pass2 - checking and writing primary data (14329 records, 4 fields): 19 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:37:48: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:38:06: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX4082395/SRX4082395.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:38:06: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX4082395/SRX4082395.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:38:07: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX4082395/SRX4082395.20_summits.bed INFO @ Sat, 03 Apr 2021 06:38:07: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (7931 records, 4 fields): 12 millis CompletedMACS2peakCalling