Job ID = 14160531 SRX = SRX8582554 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: 00:06:21 26159097 reads; of these: 26159097 (100.00%) were unpaired; of these: 527574 (2.02%) aligned 0 times 21219181 (81.12%) aligned exactly 1 time 4412342 (16.87%) aligned >1 times 97.98% overall alignment rate Time searching: 00:06:21 Overall time: 00:06:21 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] 5141486 / 25631523 = 0.2006 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 03:12:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8582554/SRX8582554.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8582554/SRX8582554.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8582554/SRX8582554.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8582554/SRX8582554.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 03:12:23: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:12:23: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:12:28: 1000000 INFO @ Thu, 09 Dec 2021 03:12:33: 2000000 INFO @ Thu, 09 Dec 2021 03:12:38: 3000000 INFO @ Thu, 09 Dec 2021 03:12:42: 4000000 INFO @ Thu, 09 Dec 2021 03:12:47: 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 03:12:52: 6000000 INFO @ Thu, 09 Dec 2021 03:12:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8582554/SRX8582554.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8582554/SRX8582554.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8582554/SRX8582554.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8582554/SRX8582554.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 03:12:53: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:12:53: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:12:57: 7000000 INFO @ Thu, 09 Dec 2021 03:12:59: 1000000 INFO @ Thu, 09 Dec 2021 03:13:02: 8000000 INFO @ Thu, 09 Dec 2021 03:13:04: 2000000 INFO @ Thu, 09 Dec 2021 03:13:07: 9000000 INFO @ Thu, 09 Dec 2021 03:13:09: 3000000 INFO @ Thu, 09 Dec 2021 03:13:12: 10000000 INFO @ Thu, 09 Dec 2021 03:13:14: 4000000 INFO @ Thu, 09 Dec 2021 03:13:17: 11000000 INFO @ Thu, 09 Dec 2021 03:13:19: 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 03:13:22: 12000000 INFO @ Thu, 09 Dec 2021 03:13:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8582554/SRX8582554.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8582554/SRX8582554.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8582554/SRX8582554.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8582554/SRX8582554.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 03:13:23: #1 read tag files... INFO @ Thu, 09 Dec 2021 03:13:23: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 03:13:24: 6000000 INFO @ Thu, 09 Dec 2021 03:13:28: 13000000 INFO @ Thu, 09 Dec 2021 03:13:29: 1000000 INFO @ Thu, 09 Dec 2021 03:13:30: 7000000 INFO @ Thu, 09 Dec 2021 03:13:33: 14000000 INFO @ Thu, 09 Dec 2021 03:13:35: 8000000 INFO @ Thu, 09 Dec 2021 03:13:36: 2000000 INFO @ Thu, 09 Dec 2021 03:13:39: 15000000 INFO @ Thu, 09 Dec 2021 03:13:41: 9000000 INFO @ Thu, 09 Dec 2021 03:13:42: 3000000 INFO @ Thu, 09 Dec 2021 03:13:44: 16000000 INFO @ Thu, 09 Dec 2021 03:13:46: 10000000 INFO @ Thu, 09 Dec 2021 03:13:48: 4000000 INFO @ Thu, 09 Dec 2021 03:13:49: 17000000 INFO @ Thu, 09 Dec 2021 03:13:52: 11000000 INFO @ Thu, 09 Dec 2021 03:13:54: 5000000 INFO @ Thu, 09 Dec 2021 03:13:54: 18000000 INFO @ Thu, 09 Dec 2021 03:13:57: 12000000 INFO @ Thu, 09 Dec 2021 03:13:59: 6000000 INFO @ Thu, 09 Dec 2021 03:14:00: 19000000 INFO @ Thu, 09 Dec 2021 03:14:02: 13000000 INFO @ Thu, 09 Dec 2021 03:14:05: 20000000 INFO @ Thu, 09 Dec 2021 03:14:05: 7000000 INFO @ Thu, 09 Dec 2021 03:14:08: #1 tag size is determined as 51 bps INFO @ Thu, 09 Dec 2021 03:14:08: #1 tag size = 51 INFO @ Thu, 09 Dec 2021 03:14:08: #1 total tags in treatment: 20490037 INFO @ Thu, 09 Dec 2021 03:14:08: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:14:08: #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 03:14:08: 14000000 INFO @ Thu, 09 Dec 2021 03:14:08: #1 tags after filtering in treatment: 20490037 INFO @ Thu, 09 Dec 2021 03:14:08: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:14:08: #1 finished! INFO @ Thu, 09 Dec 2021 03:14:08: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:14:08: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:14:09: #2 number of paired peaks: 256 WARNING @ Thu, 09 Dec 2021 03:14:09: Fewer paired peaks (256) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 256 pairs to build model! INFO @ Thu, 09 Dec 2021 03:14:09: start model_add_line... INFO @ Thu, 09 Dec 2021 03:14:09: start X-correlation... INFO @ Thu, 09 Dec 2021 03:14:09: end of X-cor INFO @ Thu, 09 Dec 2021 03:14:09: #2 finished! INFO @ Thu, 09 Dec 2021 03:14:09: #2 predicted fragment length is 1 bps INFO @ Thu, 09 Dec 2021 03:14:09: #2 alternative fragment length(s) may be 1,44,532 bps INFO @ Thu, 09 Dec 2021 03:14:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8582554/SRX8582554.05_model.r WARNING @ Thu, 09 Dec 2021 03:14:09: #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 03:14:09: #2 You may need to consider one of the other alternative d(s): 1,44,532 WARNING @ Thu, 09 Dec 2021 03:14:09: #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 03:14:09: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:14:09: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 03:14:11: 8000000 INFO @ Thu, 09 Dec 2021 03:14:13: 15000000 INFO @ Thu, 09 Dec 2021 03:14:17: 9000000 INFO @ Thu, 09 Dec 2021 03:14:19: 16000000 INFO @ Thu, 09 Dec 2021 03:14:23: 10000000 INFO @ Thu, 09 Dec 2021 03:14:24: 17000000 INFO @ Thu, 09 Dec 2021 03:14:29: 11000000 INFO @ Thu, 09 Dec 2021 03:14:29: 18000000 INFO @ Thu, 09 Dec 2021 03:14:35: 19000000 INFO @ Thu, 09 Dec 2021 03:14:35: 12000000 INFO @ Thu, 09 Dec 2021 03:14:39: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 03:14:40: 20000000 INFO @ Thu, 09 Dec 2021 03:14:41: 13000000 INFO @ Thu, 09 Dec 2021 03:14:43: #1 tag size is determined as 51 bps INFO @ Thu, 09 Dec 2021 03:14:43: #1 tag size = 51 INFO @ Thu, 09 Dec 2021 03:14:43: #1 total tags in treatment: 20490037 INFO @ Thu, 09 Dec 2021 03:14:43: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:14:43: #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 03:14:43: #1 tags after filtering in treatment: 20490037 INFO @ Thu, 09 Dec 2021 03:14:43: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:14:43: #1 finished! INFO @ Thu, 09 Dec 2021 03:14:43: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:14:43: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:14:44: #2 number of paired peaks: 256 WARNING @ Thu, 09 Dec 2021 03:14:44: Fewer paired peaks (256) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 256 pairs to build model! INFO @ Thu, 09 Dec 2021 03:14:44: start model_add_line... INFO @ Thu, 09 Dec 2021 03:14:44: start X-correlation... INFO @ Thu, 09 Dec 2021 03:14:44: end of X-cor INFO @ Thu, 09 Dec 2021 03:14:44: #2 finished! INFO @ Thu, 09 Dec 2021 03:14:44: #2 predicted fragment length is 1 bps INFO @ Thu, 09 Dec 2021 03:14:44: #2 alternative fragment length(s) may be 1,44,532 bps INFO @ Thu, 09 Dec 2021 03:14:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8582554/SRX8582554.10_model.r WARNING @ Thu, 09 Dec 2021 03:14:44: #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 03:14:44: #2 You may need to consider one of the other alternative d(s): 1,44,532 WARNING @ Thu, 09 Dec 2021 03:14:44: #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 03:14:44: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:14:44: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 03:14:47: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 09 Dec 2021 03:14:53: 15000000 INFO @ Thu, 09 Dec 2021 03:14:53: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8582554/SRX8582554.05_peaks.xls INFO @ Thu, 09 Dec 2021 03:14:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8582554/SRX8582554.05_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 03:14:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8582554/SRX8582554.05_summits.bed INFO @ Thu, 09 Dec 2021 03:14:53: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 03:14:58: 16000000 INFO @ Thu, 09 Dec 2021 03:15:04: 17000000 INFO @ Thu, 09 Dec 2021 03:15:09: 18000000 INFO @ Thu, 09 Dec 2021 03:15:15: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 03:15:15: 19000000 INFO @ Thu, 09 Dec 2021 03:15:21: 20000000 INFO @ Thu, 09 Dec 2021 03:15:24: #1 tag size is determined as 51 bps INFO @ Thu, 09 Dec 2021 03:15:24: #1 tag size = 51 INFO @ Thu, 09 Dec 2021 03:15:24: #1 total tags in treatment: 20490037 INFO @ Thu, 09 Dec 2021 03:15:24: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 03:15:24: #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 03:15:24: #1 tags after filtering in treatment: 20490037 INFO @ Thu, 09 Dec 2021 03:15:24: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 03:15:24: #1 finished! INFO @ Thu, 09 Dec 2021 03:15:24: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 03:15:24: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 03:15:25: #2 number of paired peaks: 256 WARNING @ Thu, 09 Dec 2021 03:15:25: Fewer paired peaks (256) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 256 pairs to build model! INFO @ Thu, 09 Dec 2021 03:15:25: start model_add_line... INFO @ Thu, 09 Dec 2021 03:15:25: start X-correlation... INFO @ Thu, 09 Dec 2021 03:15:25: end of X-cor INFO @ Thu, 09 Dec 2021 03:15:25: #2 finished! INFO @ Thu, 09 Dec 2021 03:15:25: #2 predicted fragment length is 1 bps INFO @ Thu, 09 Dec 2021 03:15:25: #2 alternative fragment length(s) may be 1,44,532 bps INFO @ Thu, 09 Dec 2021 03:15:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8582554/SRX8582554.20_model.r WARNING @ Thu, 09 Dec 2021 03:15:25: #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 03:15:25: #2 You may need to consider one of the other alternative d(s): 1,44,532 WARNING @ Thu, 09 Dec 2021 03:15:25: #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 03:15:25: #3 Call peaks... INFO @ Thu, 09 Dec 2021 03:15:25: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 03:15:29: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8582554/SRX8582554.10_peaks.xls INFO @ Thu, 09 Dec 2021 03:15:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8582554/SRX8582554.10_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 03:15:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8582554/SRX8582554.10_summits.bed INFO @ Thu, 09 Dec 2021 03:15:29: 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 03:15:57: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 03:16:11: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8582554/SRX8582554.20_peaks.xls INFO @ Thu, 09 Dec 2021 03:16:11: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8582554/SRX8582554.20_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 03:16:11: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8582554/SRX8582554.20_summits.bed INFO @ Thu, 09 Dec 2021 03:16:11: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling