Job ID = 14160389 SRX = SRX8151888 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 22302645 spots for SRR11584266/SRR11584266.sra Written 22302645 spots for SRR11584266/SRR11584266.sra fastq に変換しました。 bowtie でマッピング中... Your job 14160518 ("srTce11") 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: 00:04:12 22302645 reads; of these: 22302645 (100.00%) were unpaired; of these: 1672906 (7.50%) aligned 0 times 17208383 (77.16%) aligned exactly 1 time 3421356 (15.34%) aligned >1 times 92.50% overall alignment rate Time searching: 00:04:12 Overall time: 00:04:12 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] 1965140 / 20629739 = 0.0953 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 02:13:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8151888/SRX8151888.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8151888/SRX8151888.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8151888/SRX8151888.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8151888/SRX8151888.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 02:13:08: #1 read tag files... INFO @ Thu, 09 Dec 2021 02:13:08: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 02:13:13: 1000000 INFO @ Thu, 09 Dec 2021 02:13:18: 2000000 INFO @ Thu, 09 Dec 2021 02:13:23: 3000000 INFO @ Thu, 09 Dec 2021 02:13:28: 4000000 INFO @ Thu, 09 Dec 2021 02:13:33: 5000000 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 02:13:38: 6000000 INFO @ Thu, 09 Dec 2021 02:13:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8151888/SRX8151888.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8151888/SRX8151888.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8151888/SRX8151888.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8151888/SRX8151888.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 02:13:38: #1 read tag files... INFO @ Thu, 09 Dec 2021 02:13:38: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 02:13:44: 7000000 INFO @ Thu, 09 Dec 2021 02:13:45: 1000000 INFO @ Thu, 09 Dec 2021 02:13:49: 8000000 INFO @ Thu, 09 Dec 2021 02:13:51: 2000000 INFO @ Thu, 09 Dec 2021 02:13:54: 9000000 INFO @ Thu, 09 Dec 2021 02:13:57: 3000000 INFO @ Thu, 09 Dec 2021 02:14:00: 10000000 INFO @ Thu, 09 Dec 2021 02:14:03: 4000000 INFO @ Thu, 09 Dec 2021 02:14:05: 11000000 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 02:14:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8151888/SRX8151888.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8151888/SRX8151888.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8151888/SRX8151888.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8151888/SRX8151888.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 02:14:08: #1 read tag files... INFO @ Thu, 09 Dec 2021 02:14:08: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 02:14:09: 5000000 INFO @ Thu, 09 Dec 2021 02:14:10: 12000000 INFO @ Thu, 09 Dec 2021 02:14:14: 1000000 INFO @ Thu, 09 Dec 2021 02:14:15: 6000000 INFO @ Thu, 09 Dec 2021 02:14:16: 13000000 INFO @ Thu, 09 Dec 2021 02:14:19: 2000000 INFO @ Thu, 09 Dec 2021 02:14:21: 7000000 INFO @ Thu, 09 Dec 2021 02:14:21: 14000000 INFO @ Thu, 09 Dec 2021 02:14:25: 3000000 INFO @ Thu, 09 Dec 2021 02:14:27: 15000000 INFO @ Thu, 09 Dec 2021 02:14:27: 8000000 INFO @ Thu, 09 Dec 2021 02:14:30: 4000000 INFO @ Thu, 09 Dec 2021 02:14:32: 16000000 INFO @ Thu, 09 Dec 2021 02:14:33: 9000000 INFO @ Thu, 09 Dec 2021 02:14:36: 5000000 INFO @ Thu, 09 Dec 2021 02:14:38: 17000000 INFO @ Thu, 09 Dec 2021 02:14:39: 10000000 INFO @ Thu, 09 Dec 2021 02:14:41: 6000000 INFO @ Thu, 09 Dec 2021 02:14:43: 18000000 INFO @ Thu, 09 Dec 2021 02:14:45: 11000000 INFO @ Thu, 09 Dec 2021 02:14:47: 7000000 INFO @ Thu, 09 Dec 2021 02:14:47: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 02:14:47: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 02:14:47: #1 total tags in treatment: 18664599 INFO @ Thu, 09 Dec 2021 02:14:47: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 02:14:47: #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 02:14:47: #1 tags after filtering in treatment: 18664599 INFO @ Thu, 09 Dec 2021 02:14:47: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 02:14:47: #1 finished! INFO @ Thu, 09 Dec 2021 02:14:47: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 02:14:47: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 02:14:49: #2 number of paired peaks: 198 WARNING @ Thu, 09 Dec 2021 02:14:49: Fewer paired peaks (198) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 198 pairs to build model! INFO @ Thu, 09 Dec 2021 02:14:49: start model_add_line... INFO @ Thu, 09 Dec 2021 02:14:49: start X-correlation... INFO @ Thu, 09 Dec 2021 02:14:49: end of X-cor INFO @ Thu, 09 Dec 2021 02:14:49: #2 finished! INFO @ Thu, 09 Dec 2021 02:14:49: #2 predicted fragment length is 1 bps INFO @ Thu, 09 Dec 2021 02:14:49: #2 alternative fragment length(s) may be 1,39,570,594 bps INFO @ Thu, 09 Dec 2021 02:14:49: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8151888/SRX8151888.05_model.r WARNING @ Thu, 09 Dec 2021 02:14:49: #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 02:14:49: #2 You may need to consider one of the other alternative d(s): 1,39,570,594 WARNING @ Thu, 09 Dec 2021 02:14:49: #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 02:14:49: #3 Call peaks... INFO @ Thu, 09 Dec 2021 02:14:49: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 02:14:51: 12000000 INFO @ Thu, 09 Dec 2021 02:14:52: 8000000 INFO @ Thu, 09 Dec 2021 02:14:57: 13000000 INFO @ Thu, 09 Dec 2021 02:14:58: 9000000 INFO @ Thu, 09 Dec 2021 02:15:03: 10000000 INFO @ Thu, 09 Dec 2021 02:15:03: 14000000 INFO @ Thu, 09 Dec 2021 02:15:08: 11000000 INFO @ Thu, 09 Dec 2021 02:15:10: 15000000 INFO @ Thu, 09 Dec 2021 02:15:14: 12000000 INFO @ Thu, 09 Dec 2021 02:15:16: 16000000 INFO @ Thu, 09 Dec 2021 02:15:17: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 02:15:19: 13000000 INFO @ Thu, 09 Dec 2021 02:15:23: 17000000 INFO @ Thu, 09 Dec 2021 02:15:25: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 09 Dec 2021 02:15:29: 18000000 INFO @ Thu, 09 Dec 2021 02:15:30: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8151888/SRX8151888.05_peaks.xls INFO @ Thu, 09 Dec 2021 02:15:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8151888/SRX8151888.05_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 02:15:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8151888/SRX8151888.05_summits.bed INFO @ Thu, 09 Dec 2021 02:15:30: Done! INFO @ Thu, 09 Dec 2021 02:15:30: 15000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 02:15:33: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 02:15:33: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 02:15:33: #1 total tags in treatment: 18664599 INFO @ Thu, 09 Dec 2021 02:15:33: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 02:15:33: #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 02:15:33: #1 tags after filtering in treatment: 18664599 INFO @ Thu, 09 Dec 2021 02:15:33: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 02:15:33: #1 finished! INFO @ Thu, 09 Dec 2021 02:15:33: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 02:15:33: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 02:15:34: #2 number of paired peaks: 198 WARNING @ Thu, 09 Dec 2021 02:15:34: Fewer paired peaks (198) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 198 pairs to build model! INFO @ Thu, 09 Dec 2021 02:15:34: start model_add_line... INFO @ Thu, 09 Dec 2021 02:15:35: start X-correlation... INFO @ Thu, 09 Dec 2021 02:15:35: end of X-cor INFO @ Thu, 09 Dec 2021 02:15:35: #2 finished! INFO @ Thu, 09 Dec 2021 02:15:35: #2 predicted fragment length is 1 bps INFO @ Thu, 09 Dec 2021 02:15:35: #2 alternative fragment length(s) may be 1,39,570,594 bps INFO @ Thu, 09 Dec 2021 02:15:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8151888/SRX8151888.10_model.r WARNING @ Thu, 09 Dec 2021 02:15:35: #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 02:15:35: #2 You may need to consider one of the other alternative d(s): 1,39,570,594 WARNING @ Thu, 09 Dec 2021 02:15:35: #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 02:15:35: #3 Call peaks... INFO @ Thu, 09 Dec 2021 02:15:35: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 02:15:36: 16000000 INFO @ Thu, 09 Dec 2021 02:15:41: 17000000 INFO @ Thu, 09 Dec 2021 02:15:46: 18000000 INFO @ Thu, 09 Dec 2021 02:15:49: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 02:15:49: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 02:15:49: #1 total tags in treatment: 18664599 INFO @ Thu, 09 Dec 2021 02:15:49: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 02:15:49: #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 02:15:49: #1 tags after filtering in treatment: 18664599 INFO @ Thu, 09 Dec 2021 02:15:49: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 02:15:49: #1 finished! INFO @ Thu, 09 Dec 2021 02:15:49: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 02:15:49: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 02:15:50: #2 number of paired peaks: 198 WARNING @ Thu, 09 Dec 2021 02:15:50: Fewer paired peaks (198) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 198 pairs to build model! INFO @ Thu, 09 Dec 2021 02:15:50: start model_add_line... INFO @ Thu, 09 Dec 2021 02:15:50: start X-correlation... INFO @ Thu, 09 Dec 2021 02:15:50: end of X-cor INFO @ Thu, 09 Dec 2021 02:15:50: #2 finished! INFO @ Thu, 09 Dec 2021 02:15:50: #2 predicted fragment length is 1 bps INFO @ Thu, 09 Dec 2021 02:15:50: #2 alternative fragment length(s) may be 1,39,570,594 bps INFO @ Thu, 09 Dec 2021 02:15:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8151888/SRX8151888.20_model.r WARNING @ Thu, 09 Dec 2021 02:15:50: #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 02:15:50: #2 You may need to consider one of the other alternative d(s): 1,39,570,594 WARNING @ Thu, 09 Dec 2021 02:15:50: #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 02:15:50: #3 Call peaks... INFO @ Thu, 09 Dec 2021 02:15:50: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 02:16:02: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Thu, 09 Dec 2021 02:16:15: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8151888/SRX8151888.10_peaks.xls INFO @ Thu, 09 Dec 2021 02:16:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8151888/SRX8151888.10_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 02:16:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8151888/SRX8151888.10_summits.bed INFO @ Thu, 09 Dec 2021 02:16:15: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 02:16:20: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 02:16:33: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8151888/SRX8151888.20_peaks.xls INFO @ Thu, 09 Dec 2021 02:16:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8151888/SRX8151888.20_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 02:16:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8151888/SRX8151888.20_summits.bed INFO @ Thu, 09 Dec 2021 02:16:33: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling