Job ID = 12264753 SRX = SRX2969571 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 34363329 spots for SRR5772134/SRR5772134.sra Written 34363329 spots for SRR5772134/SRR5772134.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265093 ("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: 00:07:30 34363329 reads; of these: 34363329 (100.00%) were unpaired; of these: 2203622 (6.41%) aligned 0 times 27329240 (79.53%) aligned exactly 1 time 4830467 (14.06%) aligned >1 times 93.59% overall alignment rate Time searching: 00:07:30 Overall time: 00:07:30 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 16 files... [bam_rmdupse_core] 19157584 / 32159707 = 0.5957 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 06:08:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX2969571/SRX2969571.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX2969571/SRX2969571.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX2969571/SRX2969571.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX2969571/SRX2969571.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 06:08:56: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:08:56: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:09:02: 1000000 INFO @ Sat, 03 Apr 2021 06:09:07: 2000000 INFO @ Sat, 03 Apr 2021 06:09:13: 3000000 INFO @ Sat, 03 Apr 2021 06:09:19: 4000000 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 06:09:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX2969571/SRX2969571.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX2969571/SRX2969571.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX2969571/SRX2969571.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX2969571/SRX2969571.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 06:09:25: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:09:25: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:09:26: 5000000 INFO @ Sat, 03 Apr 2021 06:09:31: 1000000 INFO @ Sat, 03 Apr 2021 06:09:32: 6000000 INFO @ Sat, 03 Apr 2021 06:09:38: 2000000 INFO @ Sat, 03 Apr 2021 06:09:38: 7000000 INFO @ Sat, 03 Apr 2021 06:09:44: 3000000 INFO @ Sat, 03 Apr 2021 06:09:44: 8000000 INFO @ Sat, 03 Apr 2021 06:09:51: 4000000 INFO @ Sat, 03 Apr 2021 06:09:51: 9000000 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 06:09:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX2969571/SRX2969571.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX2969571/SRX2969571.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX2969571/SRX2969571.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX2969571/SRX2969571.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 06:09:55: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:09:55: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:09:57: 5000000 INFO @ Sat, 03 Apr 2021 06:09:57: 10000000 INFO @ Sat, 03 Apr 2021 06:10:02: 1000000 INFO @ Sat, 03 Apr 2021 06:10:04: 6000000 INFO @ Sat, 03 Apr 2021 06:10:04: 11000000 INFO @ Sat, 03 Apr 2021 06:10:08: 2000000 INFO @ Sat, 03 Apr 2021 06:10:10: 7000000 INFO @ Sat, 03 Apr 2021 06:10:11: 12000000 INFO @ Sat, 03 Apr 2021 06:10:15: 3000000 INFO @ Sat, 03 Apr 2021 06:10:16: 8000000 INFO @ Sat, 03 Apr 2021 06:10:17: 13000000 INFO @ Sat, 03 Apr 2021 06:10:17: #1 tag size is determined as 51 bps INFO @ Sat, 03 Apr 2021 06:10:17: #1 tag size = 51 INFO @ Sat, 03 Apr 2021 06:10:17: #1 total tags in treatment: 13002123 INFO @ Sat, 03 Apr 2021 06:10:17: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:10:17: #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 06:10:17: #1 tags after filtering in treatment: 13002123 INFO @ Sat, 03 Apr 2021 06:10:17: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:10:17: #1 finished! INFO @ Sat, 03 Apr 2021 06:10:17: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:10:17: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:10:18: #2 number of paired peaks: 195 WARNING @ Sat, 03 Apr 2021 06:10:18: Fewer paired peaks (195) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 195 pairs to build model! INFO @ Sat, 03 Apr 2021 06:10:18: start model_add_line... INFO @ Sat, 03 Apr 2021 06:10:18: start X-correlation... INFO @ Sat, 03 Apr 2021 06:10:18: end of X-cor INFO @ Sat, 03 Apr 2021 06:10:18: #2 finished! INFO @ Sat, 03 Apr 2021 06:10:18: #2 predicted fragment length is 2 bps INFO @ Sat, 03 Apr 2021 06:10:18: #2 alternative fragment length(s) may be 2,12,52 bps INFO @ Sat, 03 Apr 2021 06:10:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX2969571/SRX2969571.05_model.r WARNING @ Sat, 03 Apr 2021 06:10:18: #2 Since the d (2) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:10:18: #2 You may need to consider one of the other alternative d(s): 2,12,52 WARNING @ Sat, 03 Apr 2021 06:10:18: #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 06:10:18: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:10:18: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:10:21: 4000000 INFO @ Sat, 03 Apr 2021 06:10:23: 9000000 INFO @ Sat, 03 Apr 2021 06:10:27: 5000000 INFO @ Sat, 03 Apr 2021 06:10:29: 10000000 INFO @ Sat, 03 Apr 2021 06:10:33: 6000000 INFO @ Sat, 03 Apr 2021 06:10:36: 11000000 INFO @ Sat, 03 Apr 2021 06:10:38: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:10:40: 7000000 INFO @ Sat, 03 Apr 2021 06:10:42: 12000000 INFO @ Sat, 03 Apr 2021 06:10:45: 8000000 INFO @ Sat, 03 Apr 2021 06:10:48: 13000000 INFO @ Sat, 03 Apr 2021 06:10:48: #1 tag size is determined as 51 bps INFO @ Sat, 03 Apr 2021 06:10:48: #1 tag size = 51 INFO @ Sat, 03 Apr 2021 06:10:48: #1 total tags in treatment: 13002123 INFO @ Sat, 03 Apr 2021 06:10:48: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:10:48: #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 06:10:48: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX2969571/SRX2969571.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:10:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX2969571/SRX2969571.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:10:49: #1 tags after filtering in treatment: 13002123 INFO @ Sat, 03 Apr 2021 06:10:49: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:10:49: #1 finished! INFO @ Sat, 03 Apr 2021 06:10:49: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:10:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:10:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX2969571/SRX2969571.05_summits.bed INFO @ Sat, 03 Apr 2021 06:10:49: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:10:49: #2 number of paired peaks: 195 WARNING @ Sat, 03 Apr 2021 06:10:49: Fewer paired peaks (195) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 195 pairs to build model! INFO @ Sat, 03 Apr 2021 06:10:49: start model_add_line... INFO @ Sat, 03 Apr 2021 06:10:50: start X-correlation... INFO @ Sat, 03 Apr 2021 06:10:50: end of X-cor INFO @ Sat, 03 Apr 2021 06:10:50: #2 finished! INFO @ Sat, 03 Apr 2021 06:10:50: #2 predicted fragment length is 2 bps INFO @ Sat, 03 Apr 2021 06:10:50: #2 alternative fragment length(s) may be 2,12,52 bps INFO @ Sat, 03 Apr 2021 06:10:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX2969571/SRX2969571.10_model.r WARNING @ Sat, 03 Apr 2021 06:10:50: #2 Since the d (2) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:10:50: #2 You may need to consider one of the other alternative d(s): 2,12,52 WARNING @ Sat, 03 Apr 2021 06:10:50: #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 06:10:50: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:10:50: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:10:51: 9000000 INFO @ Sat, 03 Apr 2021 06:10:58: 10000000 INFO @ Sat, 03 Apr 2021 06:11:04: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:11:09: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:11:10: 12000000 INFO @ Sat, 03 Apr 2021 06:11:15: 13000000 INFO @ Sat, 03 Apr 2021 06:11:16: #1 tag size is determined as 51 bps INFO @ Sat, 03 Apr 2021 06:11:16: #1 tag size = 51 INFO @ Sat, 03 Apr 2021 06:11:16: #1 total tags in treatment: 13002123 INFO @ Sat, 03 Apr 2021 06:11:16: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:11:16: #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 06:11:16: #1 tags after filtering in treatment: 13002123 INFO @ Sat, 03 Apr 2021 06:11:16: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:11:16: #1 finished! INFO @ Sat, 03 Apr 2021 06:11:16: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:11:16: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:11:17: #2 number of paired peaks: 195 WARNING @ Sat, 03 Apr 2021 06:11:17: Fewer paired peaks (195) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 195 pairs to build model! INFO @ Sat, 03 Apr 2021 06:11:17: start model_add_line... INFO @ Sat, 03 Apr 2021 06:11:17: start X-correlation... INFO @ Sat, 03 Apr 2021 06:11:17: end of X-cor INFO @ Sat, 03 Apr 2021 06:11:17: #2 finished! INFO @ Sat, 03 Apr 2021 06:11:17: #2 predicted fragment length is 2 bps INFO @ Sat, 03 Apr 2021 06:11:17: #2 alternative fragment length(s) may be 2,12,52 bps INFO @ Sat, 03 Apr 2021 06:11:17: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX2969571/SRX2969571.20_model.r WARNING @ Sat, 03 Apr 2021 06:11:17: #2 Since the d (2) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:11:17: #2 You may need to consider one of the other alternative d(s): 2,12,52 WARNING @ Sat, 03 Apr 2021 06:11:17: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:11:17: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:11:17: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:11:20: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX2969571/SRX2969571.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:11:20: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX2969571/SRX2969571.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:11:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX2969571/SRX2969571.10_summits.bed INFO @ Sat, 03 Apr 2021 06:11:20: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:11:37: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:11:47: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX2969571/SRX2969571.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:11:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX2969571/SRX2969571.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:11:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX2969571/SRX2969571.20_summits.bed INFO @ Sat, 03 Apr 2021 06:11:47: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling