Job ID = 14160519 SRX = SRX8151887 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: 00:05:27 23442574 reads; of these: 23442574 (100.00%) were unpaired; of these: 1519904 (6.48%) aligned 0 times 18256139 (77.88%) aligned exactly 1 time 3666531 (15.64%) aligned >1 times 93.52% overall alignment rate Time searching: 00:05:27 Overall time: 00:05:27 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 12 files... [bam_rmdupse_core] 2170678 / 21922670 = 0.0990 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 09 Dec 2021 03:07:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8151887/SRX8151887.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8151887/SRX8151887.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8151887/SRX8151887.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8151887/SRX8151887.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 @ Thu, 09 Dec 2021 03:07:23: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:07:23: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:07:32: 1000000 INFO @ Thu, 09 Dec 2021 03:07:41: 2000000 INFO @ Thu, 09 Dec 2021 03:07:49: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 09 Dec 2021 03:07:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8151887/SRX8151887.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8151887/SRX8151887.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8151887/SRX8151887.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8151887/SRX8151887.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 @ Thu, 09 Dec 2021 03:07:53: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:07:53: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:07:58: 4000000 INFO @ Thu, 09 Dec 2021 03:08:03: 1000000 INFO @ Thu, 09 Dec 2021 03:08:07: 5000000 INFO @ Thu, 09 Dec 2021 03:08:11: 2000000 INFO @ Thu, 09 Dec 2021 03:08:16: 6000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 09 Dec 2021 03:08:20: 3000000 INFO @ Thu, 09 Dec 2021 03:08:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8151887/SRX8151887.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8151887/SRX8151887.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8151887/SRX8151887.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8151887/SRX8151887.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 @ Thu, 09 Dec 2021 03:08:23: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:08:23: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:08:24: 7000000 INFO @ Thu, 09 Dec 2021 03:08:29: 4000000 INFO @ Thu, 09 Dec 2021 03:08:32: 1000000 INFO @ Thu, 09 Dec 2021 03:08:33: 8000000 INFO @ Thu, 09 Dec 2021 03:08:38: 5000000 INFO @ Thu, 09 Dec 2021 03:08:41: 2000000 INFO @ Thu, 09 Dec 2021 03:08:42: 9000000 INFO @ Thu, 09 Dec 2021 03:08:47: 6000000 INFO @ Thu, 09 Dec 2021 03:08:50: 3000000 INFO @ Thu, 09 Dec 2021 03:08:51: 10000000 INFO @ Thu, 09 Dec 2021 03:08:55: 7000000 INFO @ Thu, 09 Dec 2021 03:08:59: 4000000 INFO @ Thu, 09 Dec 2021 03:09:00: 11000000 INFO @ Thu, 09 Dec 2021 03:09:04: 8000000 INFO @ Thu, 09 Dec 2021 03:09:07: 5000000 INFO @ Thu, 09 Dec 2021 03:09:09: 12000000 INFO @ Thu, 09 Dec 2021 03:09:13: 9000000 INFO @ Thu, 09 Dec 2021 03:09:16: 6000000 INFO @ Thu, 09 Dec 2021 03:09:18: 13000000 INFO @ Thu, 09 Dec 2021 03:09:22: 10000000 INFO @ Thu, 09 Dec 2021 03:09:24: 7000000 INFO @ Thu, 09 Dec 2021 03:09:27: 14000000 INFO @ Thu, 09 Dec 2021 03:09:30: 11000000 INFO @ Thu, 09 Dec 2021 03:09:33: 8000000 INFO @ Thu, 09 Dec 2021 03:09:36: 15000000 INFO @ Thu, 09 Dec 2021 03:09:39: 12000000 INFO @ Thu, 09 Dec 2021 03:09:42: 9000000 INFO @ Thu, 09 Dec 2021 03:09:45: 16000000 INFO @ Thu, 09 Dec 2021 03:09:47: 13000000 INFO @ Thu, 09 Dec 2021 03:09:51: 10000000 INFO @ Thu, 09 Dec 2021 03:09:54: 17000000 INFO @ Thu, 09 Dec 2021 03:09:56: 14000000 INFO @ Thu, 09 Dec 2021 03:09:59: 11000000 INFO @ Thu, 09 Dec 2021 03:10:03: 18000000 INFO @ Thu, 09 Dec 2021 03:10:05: 15000000 INFO @ Thu, 09 Dec 2021 03:10:08: 12000000 INFO @ Thu, 09 Dec 2021 03:10:12: 19000000 INFO @ Thu, 09 Dec 2021 03:10:13: 16000000 INFO @ Thu, 09 Dec 2021 03:10:17: 13000000 INFO @ Thu, 09 Dec 2021 03:10:18: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 03:10:18: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 03:10:18: #1 total tags in treatment: 19751992 INFO @ Thu, 09 Dec 2021 03:10:18: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:10:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 03:10:19: #1 tags after filtering in treatment: 19751992 INFO @ Thu, 09 Dec 2021 03:10:19: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:10:19: #1 finished! INFO @ Thu, 09 Dec 2021 03:10:19: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:10:19: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:10:20: #2 number of paired peaks: 185 WARNING @ Thu, 09 Dec 2021 03:10:20: Fewer paired peaks (185) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 185 pairs to build model! INFO @ Thu, 09 Dec 2021 03:10:20: start model_add_line... INFO @ Thu, 09 Dec 2021 03:10:21: start X-correlation... INFO @ Thu, 09 Dec 2021 03:10:21: end of X-cor INFO @ Thu, 09 Dec 2021 03:10:21: #2 finished! INFO @ Thu, 09 Dec 2021 03:10:21: #2 predicted fragment length is 1 bps INFO @ Thu, 09 Dec 2021 03:10:21: #2 alternative fragment length(s) may be 1,10,45,575 bps INFO @ Thu, 09 Dec 2021 03:10:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8151887/SRX8151887.05_model.r WARNING @ Thu, 09 Dec 2021 03:10:21: #2 Since the d (1) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 09 Dec 2021 03:10:21: #2 You may need to consider one of the other alternative d(s): 1,10,45,575 WARNING @ Thu, 09 Dec 2021 03:10:21: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 09 Dec 2021 03:10:21: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:10:21: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 03:10:23: 17000000 INFO @ Thu, 09 Dec 2021 03:10:25: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 09 Dec 2021 03:10:31: 18000000 INFO @ Thu, 09 Dec 2021 03:10:34: 15000000 INFO @ Thu, 09 Dec 2021 03:10:40: 19000000 INFO @ Thu, 09 Dec 2021 03:10:43: 16000000 INFO @ Thu, 09 Dec 2021 03:10:47: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 03:10:47: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 03:10:47: #1 total tags in treatment: 19751992 INFO @ Thu, 09 Dec 2021 03:10:47: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:10:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 03:10:47: #1 tags after filtering in treatment: 19751992 INFO @ Thu, 09 Dec 2021 03:10:47: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:10:47: #1 finished! INFO @ Thu, 09 Dec 2021 03:10:47: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:10:47: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:10:49: #2 number of paired peaks: 185 WARNING @ Thu, 09 Dec 2021 03:10:49: Fewer paired peaks (185) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 185 pairs to build model! INFO @ Thu, 09 Dec 2021 03:10:49: start model_add_line... INFO @ Thu, 09 Dec 2021 03:10:49: start X-correlation... INFO @ Thu, 09 Dec 2021 03:10:49: end of X-cor INFO @ Thu, 09 Dec 2021 03:10:49: #2 finished! INFO @ Thu, 09 Dec 2021 03:10:49: #2 predicted fragment length is 1 bps INFO @ Thu, 09 Dec 2021 03:10:49: #2 alternative fragment length(s) may be 1,10,45,575 bps INFO @ Thu, 09 Dec 2021 03:10:49: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8151887/SRX8151887.10_model.r WARNING @ Thu, 09 Dec 2021 03:10:49: #2 Since the d (1) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 09 Dec 2021 03:10:49: #2 You may need to consider one of the other alternative d(s): 1,10,45,575 WARNING @ Thu, 09 Dec 2021 03:10:49: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 09 Dec 2021 03:10:49: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:10:49: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 03:10:51: 17000000 INFO @ Thu, 09 Dec 2021 03:10:59: 18000000 INFO @ Thu, 09 Dec 2021 03:11:04: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 03:11:08: 19000000 INFO @ Thu, 09 Dec 2021 03:11:14: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 03:11:14: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 03:11:14: #1 total tags in treatment: 19751992 INFO @ Thu, 09 Dec 2021 03:11:14: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:11:14: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 09 Dec 2021 03:11:15: #1 tags after filtering in treatment: 19751992 INFO @ Thu, 09 Dec 2021 03:11:15: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:11:15: #1 finished! INFO @ Thu, 09 Dec 2021 03:11:15: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:11:15: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:11:16: #2 number of paired peaks: 185 WARNING @ Thu, 09 Dec 2021 03:11:16: Fewer paired peaks (185) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 185 pairs to build model! INFO @ Thu, 09 Dec 2021 03:11:16: start model_add_line... INFO @ Thu, 09 Dec 2021 03:11:17: start X-correlation... INFO @ Thu, 09 Dec 2021 03:11:17: end of X-cor INFO @ Thu, 09 Dec 2021 03:11:17: #2 finished! INFO @ Thu, 09 Dec 2021 03:11:17: #2 predicted fragment length is 1 bps INFO @ Thu, 09 Dec 2021 03:11:17: #2 alternative fragment length(s) may be 1,10,45,575 bps INFO @ Thu, 09 Dec 2021 03:11:17: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8151887/SRX8151887.20_model.r WARNING @ Thu, 09 Dec 2021 03:11:17: #2 Since the d (1) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 09 Dec 2021 03:11:17: #2 You may need to consider one of the other alternative d(s): 1,10,45,575 WARNING @ Thu, 09 Dec 2021 03:11:17: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 09 Dec 2021 03:11:17: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:11:17: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 03:11:23: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8151887/SRX8151887.05_peaks.xls INFO @ Thu, 09 Dec 2021 03:11:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8151887/SRX8151887.05_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 03:11:23: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8151887/SRX8151887.05_summits.bed INFO @ Thu, 09 Dec 2021 03:11:23: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Thu, 09 Dec 2021 03:11:32: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 03:11:52: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8151887/SRX8151887.10_peaks.xls INFO @ Thu, 09 Dec 2021 03:11:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8151887/SRX8151887.10_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 03:11:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8151887/SRX8151887.10_summits.bed INFO @ Thu, 09 Dec 2021 03:11:52: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 03:12:00: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 03:12:19: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8151887/SRX8151887.20_peaks.xls INFO @ Thu, 09 Dec 2021 03:12:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8151887/SRX8151887.20_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 03:12:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8151887/SRX8151887.20_summits.bed INFO @ Thu, 09 Dec 2021 03:12:19: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling