Job ID = 10165898 SRX = SRX6799183 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: 00:08:37 36690704 reads; of these: 36690704 (100.00%) were unpaired; of these: 1384842 (3.77%) aligned 0 times 28070663 (76.51%) aligned exactly 1 time 7235199 (19.72%) aligned >1 times 96.23% overall alignment rate Time searching: 00:08:37 Overall time: 00:08:37 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] 10358738 / 35305862 = 0.2934 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 20:23:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX6799183/SRX6799183.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX6799183/SRX6799183.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX6799183/SRX6799183.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX6799183/SRX6799183.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 20:23:00: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:23:00: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:23:05: 1000000 INFO @ Thu, 08 Oct 2020 20:23:10: 2000000 INFO @ Thu, 08 Oct 2020 20:23:16: 3000000 INFO @ Thu, 08 Oct 2020 20:23:21: 4000000 INFO @ Thu, 08 Oct 2020 20:23:26: 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 20:23:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX6799183/SRX6799183.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX6799183/SRX6799183.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX6799183/SRX6799183.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX6799183/SRX6799183.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 20:23:30: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:23:30: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:23:32: 6000000 INFO @ Thu, 08 Oct 2020 20:23:36: 1000000 INFO @ Thu, 08 Oct 2020 20:23:38: 7000000 INFO @ Thu, 08 Oct 2020 20:23:42: 2000000 INFO @ Thu, 08 Oct 2020 20:23:44: 8000000 INFO @ Thu, 08 Oct 2020 20:23:48: 3000000 INFO @ Thu, 08 Oct 2020 20:23:50: 9000000 INFO @ Thu, 08 Oct 2020 20:23:54: 4000000 INFO @ Thu, 08 Oct 2020 20:23:56: 10000000 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 20:24:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX6799183/SRX6799183.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX6799183/SRX6799183.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX6799183/SRX6799183.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX6799183/SRX6799183.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 20:24:00: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:24:00: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:24:00: 5000000 INFO @ Thu, 08 Oct 2020 20:24:02: 11000000 INFO @ Thu, 08 Oct 2020 20:24:06: 1000000 INFO @ Thu, 08 Oct 2020 20:24:06: 6000000 INFO @ Thu, 08 Oct 2020 20:24:07: 12000000 INFO @ Thu, 08 Oct 2020 20:24:12: 2000000 INFO @ Thu, 08 Oct 2020 20:24:12: 7000000 INFO @ Thu, 08 Oct 2020 20:24:13: 13000000 INFO @ Thu, 08 Oct 2020 20:24:18: 3000000 INFO @ Thu, 08 Oct 2020 20:24:18: 8000000 INFO @ Thu, 08 Oct 2020 20:24:19: 14000000 INFO @ Thu, 08 Oct 2020 20:24:24: 4000000 INFO @ Thu, 08 Oct 2020 20:24:24: 9000000 INFO @ Thu, 08 Oct 2020 20:24:25: 15000000 INFO @ Thu, 08 Oct 2020 20:24:29: 5000000 INFO @ Thu, 08 Oct 2020 20:24:30: 10000000 INFO @ Thu, 08 Oct 2020 20:24:31: 16000000 INFO @ Thu, 08 Oct 2020 20:24:35: 6000000 INFO @ Thu, 08 Oct 2020 20:24:36: 11000000 INFO @ Thu, 08 Oct 2020 20:24:37: 17000000 INFO @ Thu, 08 Oct 2020 20:24:41: 7000000 INFO @ Thu, 08 Oct 2020 20:24:42: 12000000 INFO @ Thu, 08 Oct 2020 20:24:43: 18000000 INFO @ Thu, 08 Oct 2020 20:24:47: 8000000 INFO @ Thu, 08 Oct 2020 20:24:48: 13000000 INFO @ Thu, 08 Oct 2020 20:24:49: 19000000 INFO @ Thu, 08 Oct 2020 20:24:53: 9000000 INFO @ Thu, 08 Oct 2020 20:24:54: 14000000 INFO @ Thu, 08 Oct 2020 20:24:55: 20000000 INFO @ Thu, 08 Oct 2020 20:25:00: 10000000 INFO @ Thu, 08 Oct 2020 20:25:01: 15000000 INFO @ Thu, 08 Oct 2020 20:25:02: 21000000 INFO @ Thu, 08 Oct 2020 20:25:06: 11000000 INFO @ Thu, 08 Oct 2020 20:25:07: 16000000 INFO @ Thu, 08 Oct 2020 20:25:08: 22000000 INFO @ Thu, 08 Oct 2020 20:25:12: 12000000 INFO @ Thu, 08 Oct 2020 20:25:13: 17000000 INFO @ Thu, 08 Oct 2020 20:25:15: 23000000 INFO @ Thu, 08 Oct 2020 20:25:18: 13000000 INFO @ Thu, 08 Oct 2020 20:25:20: 18000000 INFO @ Thu, 08 Oct 2020 20:25:21: 24000000 INFO @ Thu, 08 Oct 2020 20:25:25: 14000000 INFO @ Thu, 08 Oct 2020 20:25:26: 19000000 INFO @ Thu, 08 Oct 2020 20:25:27: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:25:27: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:25:27: #1 total tags in treatment: 24947124 INFO @ Thu, 08 Oct 2020 20:25:27: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:25:27: #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 20:25:27: #1 tags after filtering in treatment: 24947124 INFO @ Thu, 08 Oct 2020 20:25:27: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:25:27: #1 finished! INFO @ Thu, 08 Oct 2020 20:25:27: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:25:27: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:25:29: #2 number of paired peaks: 144 WARNING @ Thu, 08 Oct 2020 20:25:29: Fewer paired peaks (144) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 144 pairs to build model! INFO @ Thu, 08 Oct 2020 20:25:29: start model_add_line... INFO @ Thu, 08 Oct 2020 20:25:29: start X-correlation... INFO @ Thu, 08 Oct 2020 20:25:29: end of X-cor INFO @ Thu, 08 Oct 2020 20:25:29: #2 finished! INFO @ Thu, 08 Oct 2020 20:25:29: #2 predicted fragment length is 187 bps INFO @ Thu, 08 Oct 2020 20:25:29: #2 alternative fragment length(s) may be 3,139,187,205,226 bps INFO @ Thu, 08 Oct 2020 20:25:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX6799183/SRX6799183.05_model.r INFO @ Thu, 08 Oct 2020 20:25:29: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:25:29: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:25:31: 15000000 INFO @ Thu, 08 Oct 2020 20:25:32: 20000000 INFO @ Thu, 08 Oct 2020 20:25:37: 16000000 INFO @ Thu, 08 Oct 2020 20:25:38: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 20:25:43: 17000000 INFO @ Thu, 08 Oct 2020 20:25:44: 22000000 INFO @ Thu, 08 Oct 2020 20:25:49: 18000000 INFO @ Thu, 08 Oct 2020 20:25:50: 23000000 INFO @ Thu, 08 Oct 2020 20:25:55: 19000000 INFO @ Thu, 08 Oct 2020 20:25:56: 24000000 INFO @ Thu, 08 Oct 2020 20:26:01: 20000000 INFO @ Thu, 08 Oct 2020 20:26:02: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:26:02: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:26:02: #1 total tags in treatment: 24947124 INFO @ Thu, 08 Oct 2020 20:26:02: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:26:02: #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 20:26:03: #1 tags after filtering in treatment: 24947124 INFO @ Thu, 08 Oct 2020 20:26:03: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:26:03: #1 finished! INFO @ Thu, 08 Oct 2020 20:26:03: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:26:03: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:26:04: #2 number of paired peaks: 144 WARNING @ Thu, 08 Oct 2020 20:26:04: Fewer paired peaks (144) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 144 pairs to build model! INFO @ Thu, 08 Oct 2020 20:26:04: start model_add_line... INFO @ Thu, 08 Oct 2020 20:26:04: start X-correlation... INFO @ Thu, 08 Oct 2020 20:26:04: end of X-cor INFO @ Thu, 08 Oct 2020 20:26:04: #2 finished! INFO @ Thu, 08 Oct 2020 20:26:04: #2 predicted fragment length is 187 bps INFO @ Thu, 08 Oct 2020 20:26:04: #2 alternative fragment length(s) may be 3,139,187,205,226 bps INFO @ Thu, 08 Oct 2020 20:26:04: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX6799183/SRX6799183.10_model.r INFO @ Thu, 08 Oct 2020 20:26:04: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:26:04: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:26:07: 21000000 INFO @ Thu, 08 Oct 2020 20:26:13: 22000000 INFO @ Thu, 08 Oct 2020 20:26:19: 23000000 INFO @ Thu, 08 Oct 2020 20:26:20: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:26:24: 24000000 BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 20:26:30: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:26:30: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:26:30: #1 total tags in treatment: 24947124 INFO @ Thu, 08 Oct 2020 20:26:30: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:26:30: #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 20:26:30: #1 tags after filtering in treatment: 24947124 INFO @ Thu, 08 Oct 2020 20:26:30: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:26:30: #1 finished! INFO @ Thu, 08 Oct 2020 20:26:30: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:26:30: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:26:32: #2 number of paired peaks: 144 WARNING @ Thu, 08 Oct 2020 20:26:32: Fewer paired peaks (144) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 144 pairs to build model! INFO @ Thu, 08 Oct 2020 20:26:32: start model_add_line... INFO @ Thu, 08 Oct 2020 20:26:32: start X-correlation... INFO @ Thu, 08 Oct 2020 20:26:32: end of X-cor INFO @ Thu, 08 Oct 2020 20:26:32: #2 finished! INFO @ Thu, 08 Oct 2020 20:26:32: #2 predicted fragment length is 187 bps INFO @ Thu, 08 Oct 2020 20:26:32: #2 alternative fragment length(s) may be 3,139,187,205,226 bps INFO @ Thu, 08 Oct 2020 20:26:32: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX6799183/SRX6799183.20_model.r INFO @ Thu, 08 Oct 2020 20:26:32: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:26:32: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:26:43: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX6799183/SRX6799183.05_peaks.xls INFO @ Thu, 08 Oct 2020 20:26:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX6799183/SRX6799183.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:26:43: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX6799183/SRX6799183.05_summits.bed INFO @ Thu, 08 Oct 2020 20:26:43: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (14204 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 20:26:55: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:27:19: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX6799183/SRX6799183.10_peaks.xls INFO @ Thu, 08 Oct 2020 20:27:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX6799183/SRX6799183.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:27:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX6799183/SRX6799183.10_summits.bed INFO @ Thu, 08 Oct 2020 20:27:19: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (9230 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 20:27:22: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:27:45: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX6799183/SRX6799183.20_peaks.xls INFO @ Thu, 08 Oct 2020 20:27:46: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX6799183/SRX6799183.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:27:46: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX6799183/SRX6799183.20_summits.bed INFO @ Thu, 08 Oct 2020 20:27:46: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (3898 records, 4 fields): 5 millis CompletedMACS2peakCalling