Job ID = 6626432 SRX = SRX7630549 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 37184627 spots for SRR10964911/SRR10964911.sra Written 37184627 spots for SRR10964911/SRR10964911.sra fastq に変換しました。 bowtie でマッピング中... Your job 6626607 ("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: 00:06:24 37184627 reads; of these: 37184627 (100.00%) were unpaired; of these: 13337562 (35.87%) aligned 0 times 19830278 (53.33%) aligned exactly 1 time 4016787 (10.80%) aligned >1 times 64.13% overall alignment rate Time searching: 00:06:24 Overall time: 00:06:24 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] 7082040 / 23847065 = 0.2970 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 07:13:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7630549/SRX7630549.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7630549/SRX7630549.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7630549/SRX7630549.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7630549/SRX7630549.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 @ Tue, 14 Jul 2020 07:13:45: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:13:45: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:13:50: 1000000 INFO @ Tue, 14 Jul 2020 07:13:55: 2000000 INFO @ Tue, 14 Jul 2020 07:14:00: 3000000 INFO @ Tue, 14 Jul 2020 07:14:05: 4000000 INFO @ Tue, 14 Jul 2020 07:14:10: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 07:14:15: 6000000 INFO @ Tue, 14 Jul 2020 07:14:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7630549/SRX7630549.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7630549/SRX7630549.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7630549/SRX7630549.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7630549/SRX7630549.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 @ Tue, 14 Jul 2020 07:14:15: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:14:15: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:14:20: 7000000 INFO @ Tue, 14 Jul 2020 07:14:20: 1000000 INFO @ Tue, 14 Jul 2020 07:14:25: 8000000 INFO @ Tue, 14 Jul 2020 07:14:25: 2000000 INFO @ Tue, 14 Jul 2020 07:14:30: 9000000 INFO @ Tue, 14 Jul 2020 07:14:30: 3000000 INFO @ Tue, 14 Jul 2020 07:14:35: 10000000 INFO @ Tue, 14 Jul 2020 07:14:35: 4000000 INFO @ Tue, 14 Jul 2020 07:14:40: 11000000 INFO @ Tue, 14 Jul 2020 07:14:40: 5000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 07:14:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX7630549/SRX7630549.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX7630549/SRX7630549.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX7630549/SRX7630549.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX7630549/SRX7630549.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 @ Tue, 14 Jul 2020 07:14:45: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:14:45: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:14:45: 12000000 INFO @ Tue, 14 Jul 2020 07:14:45: 6000000 INFO @ Tue, 14 Jul 2020 07:14:51: 13000000 INFO @ Tue, 14 Jul 2020 07:14:51: 7000000 INFO @ Tue, 14 Jul 2020 07:14:51: 1000000 INFO @ Tue, 14 Jul 2020 07:14:56: 14000000 INFO @ Tue, 14 Jul 2020 07:14:56: 8000000 INFO @ Tue, 14 Jul 2020 07:14:57: 2000000 INFO @ Tue, 14 Jul 2020 07:15:01: 15000000 INFO @ Tue, 14 Jul 2020 07:15:01: 9000000 INFO @ Tue, 14 Jul 2020 07:15:02: 3000000 INFO @ Tue, 14 Jul 2020 07:15:06: 16000000 INFO @ Tue, 14 Jul 2020 07:15:06: 10000000 INFO @ Tue, 14 Jul 2020 07:15:08: 4000000 INFO @ Tue, 14 Jul 2020 07:15:11: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:15:11: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:15:11: #1 total tags in treatment: 16765025 INFO @ Tue, 14 Jul 2020 07:15:11: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:15:11: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 07:15:11: #1 tags after filtering in treatment: 16765025 INFO @ Tue, 14 Jul 2020 07:15:11: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:15:11: #1 finished! INFO @ Tue, 14 Jul 2020 07:15:11: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:15:11: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:15:11: 11000000 INFO @ Tue, 14 Jul 2020 07:15:12: #2 number of paired peaks: 297 WARNING @ Tue, 14 Jul 2020 07:15:12: Fewer paired peaks (297) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 297 pairs to build model! INFO @ Tue, 14 Jul 2020 07:15:12: start model_add_line... INFO @ Tue, 14 Jul 2020 07:15:12: start X-correlation... INFO @ Tue, 14 Jul 2020 07:15:12: end of X-cor INFO @ Tue, 14 Jul 2020 07:15:12: #2 finished! INFO @ Tue, 14 Jul 2020 07:15:12: #2 predicted fragment length is 1 bps INFO @ Tue, 14 Jul 2020 07:15:12: #2 alternative fragment length(s) may be 1,30,552 bps INFO @ Tue, 14 Jul 2020 07:15:12: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7630549/SRX7630549.05_model.r WARNING @ Tue, 14 Jul 2020 07:15:12: #2 Since the d (1) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 14 Jul 2020 07:15:12: #2 You may need to consider one of the other alternative d(s): 1,30,552 WARNING @ Tue, 14 Jul 2020 07:15:12: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 14 Jul 2020 07:15:12: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:15:12: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:15:14: 5000000 INFO @ Tue, 14 Jul 2020 07:15:16: 12000000 INFO @ Tue, 14 Jul 2020 07:15:20: 6000000 INFO @ Tue, 14 Jul 2020 07:15:21: 13000000 INFO @ Tue, 14 Jul 2020 07:15:25: 7000000 INFO @ Tue, 14 Jul 2020 07:15:27: 14000000 INFO @ Tue, 14 Jul 2020 07:15:31: 8000000 INFO @ Tue, 14 Jul 2020 07:15:32: 15000000 INFO @ Tue, 14 Jul 2020 07:15:37: 9000000 INFO @ Tue, 14 Jul 2020 07:15:37: 16000000 INFO @ Tue, 14 Jul 2020 07:15:41: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:15:41: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:15:41: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:15:41: #1 total tags in treatment: 16765025 INFO @ Tue, 14 Jul 2020 07:15:41: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:15:41: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 07:15:42: #1 tags after filtering in treatment: 16765025 INFO @ Tue, 14 Jul 2020 07:15:42: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:15:42: #1 finished! INFO @ Tue, 14 Jul 2020 07:15:42: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:15:42: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:15:43: 10000000 INFO @ Tue, 14 Jul 2020 07:15:43: #2 number of paired peaks: 297 WARNING @ Tue, 14 Jul 2020 07:15:43: Fewer paired peaks (297) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 297 pairs to build model! INFO @ Tue, 14 Jul 2020 07:15:43: start model_add_line... INFO @ Tue, 14 Jul 2020 07:15:43: start X-correlation... INFO @ Tue, 14 Jul 2020 07:15:43: end of X-cor INFO @ Tue, 14 Jul 2020 07:15:43: #2 finished! INFO @ Tue, 14 Jul 2020 07:15:43: #2 predicted fragment length is 1 bps INFO @ Tue, 14 Jul 2020 07:15:43: #2 alternative fragment length(s) may be 1,30,552 bps INFO @ Tue, 14 Jul 2020 07:15:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7630549/SRX7630549.10_model.r WARNING @ Tue, 14 Jul 2020 07:15:43: #2 Since the d (1) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 14 Jul 2020 07:15:43: #2 You may need to consider one of the other alternative d(s): 1,30,552 WARNING @ Tue, 14 Jul 2020 07:15:43: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 14 Jul 2020 07:15:43: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:15:43: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:15:48: 11000000 INFO @ Tue, 14 Jul 2020 07:15:54: 12000000 INFO @ Tue, 14 Jul 2020 07:15:55: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7630549/SRX7630549.05_peaks.xls INFO @ Tue, 14 Jul 2020 07:15:55: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7630549/SRX7630549.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:15:55: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7630549/SRX7630549.05_summits.bed INFO @ Tue, 14 Jul 2020 07:15:55: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 07:15:59: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 07:16:05: 14000000 INFO @ Tue, 14 Jul 2020 07:16:11: 15000000 INFO @ Tue, 14 Jul 2020 07:16:11: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:16:16: 16000000 INFO @ Tue, 14 Jul 2020 07:16:20: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:16:20: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:16:20: #1 total tags in treatment: 16765025 INFO @ Tue, 14 Jul 2020 07:16:20: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:16:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 07:16:21: #1 tags after filtering in treatment: 16765025 INFO @ Tue, 14 Jul 2020 07:16:21: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:16:21: #1 finished! INFO @ Tue, 14 Jul 2020 07:16:21: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:16:21: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:16:22: #2 number of paired peaks: 297 WARNING @ Tue, 14 Jul 2020 07:16:22: Fewer paired peaks (297) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 297 pairs to build model! INFO @ Tue, 14 Jul 2020 07:16:22: start model_add_line... INFO @ Tue, 14 Jul 2020 07:16:22: start X-correlation... INFO @ Tue, 14 Jul 2020 07:16:22: end of X-cor INFO @ Tue, 14 Jul 2020 07:16:22: #2 finished! INFO @ Tue, 14 Jul 2020 07:16:22: #2 predicted fragment length is 1 bps INFO @ Tue, 14 Jul 2020 07:16:22: #2 alternative fragment length(s) may be 1,30,552 bps INFO @ Tue, 14 Jul 2020 07:16:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX7630549/SRX7630549.20_model.r WARNING @ Tue, 14 Jul 2020 07:16:22: #2 Since the d (1) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 14 Jul 2020 07:16:22: #2 You may need to consider one of the other alternative d(s): 1,30,552 WARNING @ Tue, 14 Jul 2020 07:16:22: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 14 Jul 2020 07:16:22: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:16:22: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:16:24: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7630549/SRX7630549.10_peaks.xls INFO @ Tue, 14 Jul 2020 07:16:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7630549/SRX7630549.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:16:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7630549/SRX7630549.10_summits.bed INFO @ Tue, 14 Jul 2020 07:16:24: 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 @ Tue, 14 Jul 2020 07:16:50: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:17:03: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX7630549/SRX7630549.20_peaks.xls INFO @ Tue, 14 Jul 2020 07:17:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX7630549/SRX7630549.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:17:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX7630549/SRX7630549.20_summits.bed INFO @ Tue, 14 Jul 2020 07:17:03: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling