Job ID = 14160388 SRX = SRX8151887 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 23442574 spots for SRR11584265/SRR11584265.sra Written 23442574 spots for SRR11584265/SRR11584265.sra fastq に変換しました。 bowtie でマッピング中... Your job 14160519 ("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: 00:05:09 23442574 reads; of these: 23442574 (100.00%) were unpaired; of these: 1520315 (6.49%) aligned 0 times 18255823 (77.87%) aligned exactly 1 time 3666436 (15.64%) aligned >1 times 93.51% overall alignment rate Time searching: 00:05:09 Overall time: 00:05:09 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] 2170433 / 21922259 = 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 02:13:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8151887/SRX8151887.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8151887/SRX8151887.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8151887/SRX8151887.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/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 02:13:56: #1 read tag files... INFO @ Thu, 09 Dec 2021 02:13:56: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 02:14:01: 1000000 INFO @ Thu, 09 Dec 2021 02:14:05: 2000000 INFO @ Thu, 09 Dec 2021 02:14:10: 3000000 INFO @ Thu, 09 Dec 2021 02:14:15: 4000000 INFO @ Thu, 09 Dec 2021 02:14:20: 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 02:14:25: 6000000 INFO @ Thu, 09 Dec 2021 02:14:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8151887/SRX8151887.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8151887/SRX8151887.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8151887/SRX8151887.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/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 02:14:26: #1 read tag files... INFO @ Thu, 09 Dec 2021 02:14:26: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 02:14:30: 7000000 INFO @ Thu, 09 Dec 2021 02:14:31: 1000000 INFO @ Thu, 09 Dec 2021 02:14:36: 8000000 INFO @ Thu, 09 Dec 2021 02:14:36: 2000000 INFO @ Thu, 09 Dec 2021 02:14:41: 9000000 INFO @ Thu, 09 Dec 2021 02:14:42: 3000000 INFO @ Thu, 09 Dec 2021 02:14:46: 10000000 INFO @ Thu, 09 Dec 2021 02:14:47: 4000000 INFO @ Thu, 09 Dec 2021 02:14:52: 11000000 INFO @ Thu, 09 Dec 2021 02:14:53: 5000000 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 02:14:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8151887/SRX8151887.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8151887/SRX8151887.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8151887/SRX8151887.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/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 02:14:56: #1 read tag files... INFO @ Thu, 09 Dec 2021 02:14:56: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 02:14:57: 12000000 INFO @ Thu, 09 Dec 2021 02:14:58: 6000000 INFO @ Thu, 09 Dec 2021 02:15:02: 1000000 INFO @ Thu, 09 Dec 2021 02:15:03: 13000000 INFO @ Thu, 09 Dec 2021 02:15:04: 7000000 INFO @ Thu, 09 Dec 2021 02:15:09: 2000000 INFO @ Thu, 09 Dec 2021 02:15:09: 14000000 INFO @ Thu, 09 Dec 2021 02:15:10: 8000000 INFO @ Thu, 09 Dec 2021 02:15:14: 15000000 INFO @ Thu, 09 Dec 2021 02:15:15: 3000000 INFO @ Thu, 09 Dec 2021 02:15:16: 9000000 INFO @ Thu, 09 Dec 2021 02:15:20: 16000000 INFO @ Thu, 09 Dec 2021 02:15:21: 10000000 INFO @ Thu, 09 Dec 2021 02:15:21: 4000000 INFO @ Thu, 09 Dec 2021 02:15:26: 17000000 INFO @ Thu, 09 Dec 2021 02:15:27: 11000000 INFO @ Thu, 09 Dec 2021 02:15:28: 5000000 INFO @ Thu, 09 Dec 2021 02:15:32: 18000000 INFO @ Thu, 09 Dec 2021 02:15:33: 12000000 INFO @ Thu, 09 Dec 2021 02:15:34: 6000000 INFO @ Thu, 09 Dec 2021 02:15:38: 19000000 INFO @ Thu, 09 Dec 2021 02:15:39: 13000000 INFO @ Thu, 09 Dec 2021 02:15:41: 7000000 INFO @ Thu, 09 Dec 2021 02:15:42: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 02:15:42: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 02:15:42: #1 total tags in treatment: 19751826 INFO @ Thu, 09 Dec 2021 02:15:42: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 02:15:42: #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 02:15:42: #1 tags after filtering in treatment: 19751826 INFO @ Thu, 09 Dec 2021 02:15:42: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 02:15:42: #1 finished! INFO @ Thu, 09 Dec 2021 02:15:42: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 02:15:42: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 02:15:44: #2 number of paired peaks: 186 WARNING @ Thu, 09 Dec 2021 02:15:44: Fewer paired peaks (186) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 186 pairs to build model! INFO @ Thu, 09 Dec 2021 02:15:44: start model_add_line... INFO @ Thu, 09 Dec 2021 02:15:44: start X-correlation... INFO @ Thu, 09 Dec 2021 02:15:44: end of X-cor INFO @ Thu, 09 Dec 2021 02:15:44: #2 finished! INFO @ Thu, 09 Dec 2021 02:15:44: #2 predicted fragment length is 1 bps INFO @ Thu, 09 Dec 2021 02:15:44: #2 alternative fragment length(s) may be 1,43,575 bps INFO @ Thu, 09 Dec 2021 02:15:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8151887/SRX8151887.05_model.r WARNING @ Thu, 09 Dec 2021 02:15:44: #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 02:15:44: #2 You may need to consider one of the other alternative d(s): 1,43,575 WARNING @ Thu, 09 Dec 2021 02:15:44: #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 02:15:44: #3 Call peaks... INFO @ Thu, 09 Dec 2021 02:15:44: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 02:15:45: 14000000 INFO @ Thu, 09 Dec 2021 02:15:47: 8000000 INFO @ Thu, 09 Dec 2021 02:15:50: 15000000 INFO @ Thu, 09 Dec 2021 02:15:54: 9000000 INFO @ Thu, 09 Dec 2021 02:15:56: 16000000 INFO @ Thu, 09 Dec 2021 02:16:00: 10000000 INFO @ Thu, 09 Dec 2021 02:16:02: 17000000 INFO @ Thu, 09 Dec 2021 02:16:06: 11000000 INFO @ Thu, 09 Dec 2021 02:16:08: 18000000 INFO @ Thu, 09 Dec 2021 02:16:13: 12000000 INFO @ Thu, 09 Dec 2021 02:16:13: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 02:16:14: 19000000 INFO @ Thu, 09 Dec 2021 02:16:18: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 02:16:18: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 02:16:18: #1 total tags in treatment: 19751826 INFO @ Thu, 09 Dec 2021 02:16:18: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 02:16:18: #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 02:16:18: #1 tags after filtering in treatment: 19751826 INFO @ Thu, 09 Dec 2021 02:16:18: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 02:16:18: #1 finished! INFO @ Thu, 09 Dec 2021 02:16:18: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 02:16:18: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 02:16:19: 13000000 INFO @ Thu, 09 Dec 2021 02:16:20: #2 number of paired peaks: 186 WARNING @ Thu, 09 Dec 2021 02:16:20: Fewer paired peaks (186) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 186 pairs to build model! INFO @ Thu, 09 Dec 2021 02:16:20: start model_add_line... INFO @ Thu, 09 Dec 2021 02:16:20: start X-correlation... INFO @ Thu, 09 Dec 2021 02:16:20: end of X-cor INFO @ Thu, 09 Dec 2021 02:16:20: #2 finished! INFO @ Thu, 09 Dec 2021 02:16:20: #2 predicted fragment length is 1 bps INFO @ Thu, 09 Dec 2021 02:16:20: #2 alternative fragment length(s) may be 1,43,575 bps INFO @ Thu, 09 Dec 2021 02:16:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8151887/SRX8151887.10_model.r WARNING @ Thu, 09 Dec 2021 02:16:20: #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 02:16:20: #2 You may need to consider one of the other alternative d(s): 1,43,575 WARNING @ Thu, 09 Dec 2021 02:16:20: #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 02:16:20: #3 Call peaks... INFO @ Thu, 09 Dec 2021 02:16:20: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 09 Dec 2021 02:16:25: 14000000 INFO @ Thu, 09 Dec 2021 02:16:27: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8151887/SRX8151887.05_peaks.xls INFO @ Thu, 09 Dec 2021 02:16:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8151887/SRX8151887.05_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 02:16:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8151887/SRX8151887.05_summits.bed INFO @ Thu, 09 Dec 2021 02:16:27: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 02:16:31: 15000000 INFO @ Thu, 09 Dec 2021 02:16:37: 16000000 INFO @ Thu, 09 Dec 2021 02:16:43: 17000000 INFO @ Thu, 09 Dec 2021 02:16:49: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 02:16:49: 18000000 INFO @ Thu, 09 Dec 2021 02:16:55: 19000000 INFO @ Thu, 09 Dec 2021 02:17:00: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 02:17:00: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 02:17:00: #1 total tags in treatment: 19751826 INFO @ Thu, 09 Dec 2021 02:17:00: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 02:17:00: #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 02:17:00: #1 tags after filtering in treatment: 19751826 INFO @ Thu, 09 Dec 2021 02:17:00: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 02:17:00: #1 finished! INFO @ Thu, 09 Dec 2021 02:17:00: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 02:17:00: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 02:17:01: #2 number of paired peaks: 186 WARNING @ Thu, 09 Dec 2021 02:17:01: Fewer paired peaks (186) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 186 pairs to build model! INFO @ Thu, 09 Dec 2021 02:17:01: start model_add_line... INFO @ Thu, 09 Dec 2021 02:17:01: start X-correlation... INFO @ Thu, 09 Dec 2021 02:17:01: end of X-cor INFO @ Thu, 09 Dec 2021 02:17:01: #2 finished! INFO @ Thu, 09 Dec 2021 02:17:01: #2 predicted fragment length is 1 bps INFO @ Thu, 09 Dec 2021 02:17:01: #2 alternative fragment length(s) may be 1,43,575 bps INFO @ Thu, 09 Dec 2021 02:17:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8151887/SRX8151887.20_model.r WARNING @ Thu, 09 Dec 2021 02:17:02: #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 02:17:02: #2 You may need to consider one of the other alternative d(s): 1,43,575 WARNING @ Thu, 09 Dec 2021 02:17:02: #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 02:17:02: #3 Call peaks... INFO @ Thu, 09 Dec 2021 02:17:02: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 02:17:03: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8151887/SRX8151887.10_peaks.xls INFO @ Thu, 09 Dec 2021 02:17:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8151887/SRX8151887.10_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 02:17:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8151887/SRX8151887.10_summits.bed INFO @ Thu, 09 Dec 2021 02:17:03: Done! pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Thu, 09 Dec 2021 02:17:32: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 02:17:46: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8151887/SRX8151887.20_peaks.xls INFO @ Thu, 09 Dec 2021 02:17:46: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8151887/SRX8151887.20_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 02:17:46: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8151887/SRX8151887.20_summits.bed INFO @ Thu, 09 Dec 2021 02:17:46: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling