Job ID = 10165843 SRX = SRX6799182 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: 00:06:27 28244193 reads; of these: 28244193 (100.00%) were unpaired; of these: 1684882 (5.97%) aligned 0 times 20337970 (72.01%) aligned exactly 1 time 6221341 (22.03%) aligned >1 times 94.03% overall alignment rate Time searching: 00:06:27 Overall time: 00:06:27 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] 7173181 / 26559311 = 0.2701 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 @ Thu, 08 Oct 2020 20:10:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX6799182/SRX6799182.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX6799182/SRX6799182.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX6799182/SRX6799182.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX6799182/SRX6799182.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, 08 Oct 2020 20:10:05: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:10:05: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:10:10: 1000000 INFO @ Thu, 08 Oct 2020 20:10:15: 2000000 INFO @ Thu, 08 Oct 2020 20:10:20: 3000000 INFO @ Thu, 08 Oct 2020 20:10:25: 4000000 INFO @ Thu, 08 Oct 2020 20:10:30: 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 @ Thu, 08 Oct 2020 20:10:35: 6000000 INFO @ Thu, 08 Oct 2020 20:10:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX6799182/SRX6799182.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX6799182/SRX6799182.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX6799182/SRX6799182.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX6799182/SRX6799182.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, 08 Oct 2020 20:10:35: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:10:35: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:10:40: 7000000 INFO @ Thu, 08 Oct 2020 20:10:40: 1000000 INFO @ Thu, 08 Oct 2020 20:10:46: 8000000 INFO @ Thu, 08 Oct 2020 20:10:46: 2000000 INFO @ Thu, 08 Oct 2020 20:10:51: 9000000 INFO @ Thu, 08 Oct 2020 20:10:51: 3000000 INFO @ Thu, 08 Oct 2020 20:10:56: 10000000 INFO @ Thu, 08 Oct 2020 20:10:57: 4000000 INFO @ Thu, 08 Oct 2020 20:11:02: 11000000 INFO @ Thu, 08 Oct 2020 20:11:02: 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 @ Thu, 08 Oct 2020 20:11:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX6799182/SRX6799182.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX6799182/SRX6799182.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX6799182/SRX6799182.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX6799182/SRX6799182.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, 08 Oct 2020 20:11:05: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:11:05: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:11:07: 12000000 INFO @ Thu, 08 Oct 2020 20:11:08: 6000000 INFO @ Thu, 08 Oct 2020 20:11:11: 1000000 INFO @ Thu, 08 Oct 2020 20:11:13: 13000000 INFO @ Thu, 08 Oct 2020 20:11:14: 7000000 INFO @ Thu, 08 Oct 2020 20:11:17: 2000000 INFO @ Thu, 08 Oct 2020 20:11:19: 14000000 INFO @ Thu, 08 Oct 2020 20:11:19: 8000000 INFO @ Thu, 08 Oct 2020 20:11:23: 3000000 INFO @ Thu, 08 Oct 2020 20:11:24: 15000000 INFO @ Thu, 08 Oct 2020 20:11:25: 9000000 INFO @ Thu, 08 Oct 2020 20:11:29: 4000000 INFO @ Thu, 08 Oct 2020 20:11:30: 16000000 INFO @ Thu, 08 Oct 2020 20:11:31: 10000000 INFO @ Thu, 08 Oct 2020 20:11:35: 17000000 INFO @ Thu, 08 Oct 2020 20:11:35: 5000000 INFO @ Thu, 08 Oct 2020 20:11:36: 11000000 INFO @ Thu, 08 Oct 2020 20:11:41: 18000000 INFO @ Thu, 08 Oct 2020 20:11:41: 6000000 INFO @ Thu, 08 Oct 2020 20:11:42: 12000000 INFO @ Thu, 08 Oct 2020 20:11:47: 19000000 INFO @ Thu, 08 Oct 2020 20:11:47: 7000000 INFO @ Thu, 08 Oct 2020 20:11:48: 13000000 INFO @ Thu, 08 Oct 2020 20:11:49: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:11:49: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:11:49: #1 total tags in treatment: 19386130 INFO @ Thu, 08 Oct 2020 20:11:49: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:11:49: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 20:11:49: #1 tags after filtering in treatment: 19386130 INFO @ Thu, 08 Oct 2020 20:11:49: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:11:49: #1 finished! INFO @ Thu, 08 Oct 2020 20:11:49: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:11:49: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:11:50: #2 number of paired peaks: 419 WARNING @ Thu, 08 Oct 2020 20:11:50: Fewer paired peaks (419) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 419 pairs to build model! INFO @ Thu, 08 Oct 2020 20:11:50: start model_add_line... INFO @ Thu, 08 Oct 2020 20:11:51: start X-correlation... INFO @ Thu, 08 Oct 2020 20:11:51: end of X-cor INFO @ Thu, 08 Oct 2020 20:11:51: #2 finished! INFO @ Thu, 08 Oct 2020 20:11:51: #2 predicted fragment length is 236 bps INFO @ Thu, 08 Oct 2020 20:11:51: #2 alternative fragment length(s) may be 4,236 bps INFO @ Thu, 08 Oct 2020 20:11:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX6799182/SRX6799182.05_model.r INFO @ Thu, 08 Oct 2020 20:11:51: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:11:51: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:11:53: 14000000 INFO @ Thu, 08 Oct 2020 20:11:53: 8000000 INFO @ Thu, 08 Oct 2020 20:11:59: 15000000 INFO @ Thu, 08 Oct 2020 20:11:59: 9000000 INFO @ Thu, 08 Oct 2020 20:12:05: 16000000 INFO @ Thu, 08 Oct 2020 20:12:05: 10000000 INFO @ Thu, 08 Oct 2020 20:12:10: 17000000 INFO @ Thu, 08 Oct 2020 20:12:10: 11000000 INFO @ Thu, 08 Oct 2020 20:12:16: 18000000 INFO @ Thu, 08 Oct 2020 20:12:16: 12000000 INFO @ Thu, 08 Oct 2020 20:12:21: 19000000 INFO @ Thu, 08 Oct 2020 20:12:21: 13000000 INFO @ Thu, 08 Oct 2020 20:12:23: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:12:23: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:12:23: #1 total tags in treatment: 19386130 INFO @ Thu, 08 Oct 2020 20:12:23: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:12:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 20:12:24: #1 tags after filtering in treatment: 19386130 INFO @ Thu, 08 Oct 2020 20:12:24: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:12:24: #1 finished! INFO @ Thu, 08 Oct 2020 20:12:24: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:12:24: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:12:25: #2 number of paired peaks: 419 WARNING @ Thu, 08 Oct 2020 20:12:25: Fewer paired peaks (419) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 419 pairs to build model! INFO @ Thu, 08 Oct 2020 20:12:25: start model_add_line... INFO @ Thu, 08 Oct 2020 20:12:25: start X-correlation... INFO @ Thu, 08 Oct 2020 20:12:25: end of X-cor INFO @ Thu, 08 Oct 2020 20:12:25: #2 finished! INFO @ Thu, 08 Oct 2020 20:12:25: #2 predicted fragment length is 236 bps INFO @ Thu, 08 Oct 2020 20:12:25: #2 alternative fragment length(s) may be 4,236 bps INFO @ Thu, 08 Oct 2020 20:12:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX6799182/SRX6799182.10_model.r INFO @ Thu, 08 Oct 2020 20:12:25: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:12:25: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 20:12:27: 14000000 INFO @ Thu, 08 Oct 2020 20:12:32: 15000000 INFO @ Thu, 08 Oct 2020 20:12:37: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:12:37: 16000000 INFO @ Thu, 08 Oct 2020 20:12:43: 17000000 INFO @ Thu, 08 Oct 2020 20:12:48: 18000000 INFO @ Thu, 08 Oct 2020 20:12:53: 19000000 INFO @ Thu, 08 Oct 2020 20:12:55: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:12:55: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:12:55: #1 total tags in treatment: 19386130 INFO @ Thu, 08 Oct 2020 20:12:55: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:12:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 20:12:55: #1 tags after filtering in treatment: 19386130 INFO @ Thu, 08 Oct 2020 20:12:55: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:12:55: #1 finished! INFO @ Thu, 08 Oct 2020 20:12:55: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:12:55: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:12:56: #2 number of paired peaks: 419 WARNING @ Thu, 08 Oct 2020 20:12:56: Fewer paired peaks (419) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 419 pairs to build model! INFO @ Thu, 08 Oct 2020 20:12:56: start model_add_line... INFO @ Thu, 08 Oct 2020 20:12:57: start X-correlation... INFO @ Thu, 08 Oct 2020 20:12:57: end of X-cor INFO @ Thu, 08 Oct 2020 20:12:57: #2 finished! INFO @ Thu, 08 Oct 2020 20:12:57: #2 predicted fragment length is 236 bps INFO @ Thu, 08 Oct 2020 20:12:57: #2 alternative fragment length(s) may be 4,236 bps INFO @ Thu, 08 Oct 2020 20:12:57: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX6799182/SRX6799182.20_model.r INFO @ Thu, 08 Oct 2020 20:12:57: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:12:57: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:12:58: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX6799182/SRX6799182.05_peaks.xls INFO @ Thu, 08 Oct 2020 20:12:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX6799182/SRX6799182.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:12:58: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX6799182/SRX6799182.05_summits.bed INFO @ Thu, 08 Oct 2020 20:12:58: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (14244 records, 4 fields): 14 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 20:13:11: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:13:31: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX6799182/SRX6799182.10_peaks.xls INFO @ Thu, 08 Oct 2020 20:13:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX6799182/SRX6799182.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:13:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX6799182/SRX6799182.10_summits.bed INFO @ Thu, 08 Oct 2020 20:13:31: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (10172 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 20:13:42: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:14:02: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX6799182/SRX6799182.20_peaks.xls INFO @ Thu, 08 Oct 2020 20:14:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX6799182/SRX6799182.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:14:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX6799182/SRX6799182.20_summits.bed INFO @ Thu, 08 Oct 2020 20:14:02: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (5135 records, 4 fields): 7 millis CompletedMACS2peakCalling