Job ID = 14160376 SRX = SRX8832080 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: 00:02:38 13036679 reads; of these: 13036679 (100.00%) were unpaired; of these: 1364282 (10.46%) aligned 0 times 9619095 (73.78%) aligned exactly 1 time 2053302 (15.75%) aligned >1 times 89.54% overall alignment rate Time searching: 00:02:38 Overall time: 00:02:38 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 8 files... [bam_rmdupse_core] 2774354 / 11672397 = 0.2377 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 02:02:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832080/SRX8832080.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832080/SRX8832080.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832080/SRX8832080.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832080/SRX8832080.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 02:02:40: #1 read tag files... INFO @ Thu, 09 Dec 2021 02:02:40: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 02:02:45: 1000000 INFO @ Thu, 09 Dec 2021 02:02:51: 2000000 INFO @ Thu, 09 Dec 2021 02:02:56: 3000000 INFO @ Thu, 09 Dec 2021 02:03:02: 4000000 INFO @ Thu, 09 Dec 2021 02:03:07: 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 02:03:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832080/SRX8832080.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832080/SRX8832080.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832080/SRX8832080.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832080/SRX8832080.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 02:03:10: #1 read tag files... INFO @ Thu, 09 Dec 2021 02:03:10: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 02:03:13: 6000000 INFO @ Thu, 09 Dec 2021 02:03:16: 1000000 INFO @ Thu, 09 Dec 2021 02:03:20: 7000000 INFO @ Thu, 09 Dec 2021 02:03:23: 2000000 INFO @ Thu, 09 Dec 2021 02:03:26: 8000000 INFO @ Thu, 09 Dec 2021 02:03:29: 3000000 INFO @ Thu, 09 Dec 2021 02:03:32: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 02:03:32: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 02:03:32: #1 total tags in treatment: 8898043 INFO @ Thu, 09 Dec 2021 02:03:32: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 02:03:32: #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 02:03:32: #1 tags after filtering in treatment: 8898043 INFO @ Thu, 09 Dec 2021 02:03:32: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 02:03:32: #1 finished! INFO @ Thu, 09 Dec 2021 02:03:32: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 02:03:32: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 02:03:33: #2 number of paired peaks: 2403 INFO @ Thu, 09 Dec 2021 02:03:33: start model_add_line... INFO @ Thu, 09 Dec 2021 02:03:33: start X-correlation... INFO @ Thu, 09 Dec 2021 02:03:33: end of X-cor INFO @ Thu, 09 Dec 2021 02:03:33: #2 finished! INFO @ Thu, 09 Dec 2021 02:03:33: #2 predicted fragment length is 148 bps INFO @ Thu, 09 Dec 2021 02:03:33: #2 alternative fragment length(s) may be 148 bps INFO @ Thu, 09 Dec 2021 02:03:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832080/SRX8832080.05_model.r INFO @ Thu, 09 Dec 2021 02:03:33: #3 Call peaks... INFO @ Thu, 09 Dec 2021 02:03:33: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 02:03:35: 4000000 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 02:03:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832080/SRX8832080.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832080/SRX8832080.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832080/SRX8832080.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832080/SRX8832080.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 02:03:40: #1 read tag files... INFO @ Thu, 09 Dec 2021 02:03:40: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 02:03:41: 5000000 INFO @ Thu, 09 Dec 2021 02:03:46: 1000000 INFO @ Thu, 09 Dec 2021 02:03:48: 6000000 INFO @ Thu, 09 Dec 2021 02:03:52: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 02:03:53: 2000000 INFO @ Thu, 09 Dec 2021 02:03:54: 7000000 INFO @ Thu, 09 Dec 2021 02:03:59: 3000000 INFO @ Thu, 09 Dec 2021 02:04:01: 8000000 INFO @ Thu, 09 Dec 2021 02:04:02: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832080/SRX8832080.05_peaks.xls INFO @ Thu, 09 Dec 2021 02:04:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832080/SRX8832080.05_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 02:04:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832080/SRX8832080.05_summits.bed INFO @ Thu, 09 Dec 2021 02:04:02: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (7275 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 02:04:06: 4000000 INFO @ Thu, 09 Dec 2021 02:04:07: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 02:04:07: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 02:04:07: #1 total tags in treatment: 8898043 INFO @ Thu, 09 Dec 2021 02:04:07: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 02:04:07: #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 02:04:07: #1 tags after filtering in treatment: 8898043 INFO @ Thu, 09 Dec 2021 02:04:07: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 02:04:07: #1 finished! INFO @ Thu, 09 Dec 2021 02:04:07: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 02:04:07: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 02:04:07: #2 number of paired peaks: 2403 INFO @ Thu, 09 Dec 2021 02:04:07: start model_add_line... INFO @ Thu, 09 Dec 2021 02:04:08: start X-correlation... INFO @ Thu, 09 Dec 2021 02:04:08: end of X-cor INFO @ Thu, 09 Dec 2021 02:04:08: #2 finished! INFO @ Thu, 09 Dec 2021 02:04:08: #2 predicted fragment length is 148 bps INFO @ Thu, 09 Dec 2021 02:04:08: #2 alternative fragment length(s) may be 148 bps INFO @ Thu, 09 Dec 2021 02:04:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832080/SRX8832080.10_model.r INFO @ Thu, 09 Dec 2021 02:04:08: #3 Call peaks... INFO @ Thu, 09 Dec 2021 02:04:08: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 02:04:11: 5000000 INFO @ Thu, 09 Dec 2021 02:04:17: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 09 Dec 2021 02:04:22: 7000000 INFO @ Thu, 09 Dec 2021 02:04:27: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 02:04:28: 8000000 INFO @ Thu, 09 Dec 2021 02:04:33: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 02:04:33: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 02:04:33: #1 total tags in treatment: 8898043 INFO @ Thu, 09 Dec 2021 02:04:33: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 02:04:33: #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 02:04:33: #1 tags after filtering in treatment: 8898043 INFO @ Thu, 09 Dec 2021 02:04:33: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 02:04:33: #1 finished! INFO @ Thu, 09 Dec 2021 02:04:33: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 02:04:33: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 02:04:34: #2 number of paired peaks: 2403 INFO @ Thu, 09 Dec 2021 02:04:34: start model_add_line... INFO @ Thu, 09 Dec 2021 02:04:34: start X-correlation... INFO @ Thu, 09 Dec 2021 02:04:34: end of X-cor INFO @ Thu, 09 Dec 2021 02:04:34: #2 finished! INFO @ Thu, 09 Dec 2021 02:04:34: #2 predicted fragment length is 148 bps INFO @ Thu, 09 Dec 2021 02:04:34: #2 alternative fragment length(s) may be 148 bps INFO @ Thu, 09 Dec 2021 02:04:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832080/SRX8832080.20_model.r INFO @ Thu, 09 Dec 2021 02:04:34: #3 Call peaks... INFO @ Thu, 09 Dec 2021 02:04:34: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 02:04:36: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832080/SRX8832080.10_peaks.xls INFO @ Thu, 09 Dec 2021 02:04:36: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832080/SRX8832080.10_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 02:04:36: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832080/SRX8832080.10_summits.bed INFO @ Thu, 09 Dec 2021 02:04:36: Done! BigWig に変換しました。 pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (5746 records, 4 fields): 6 millis CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 02:04:54: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 02:05:03: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832080/SRX8832080.20_peaks.xls INFO @ Thu, 09 Dec 2021 02:05:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832080/SRX8832080.20_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 02:05:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832080/SRX8832080.20_summits.bed INFO @ Thu, 09 Dec 2021 02:05:03: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (4268 records, 4 fields): 6 millis CompletedMACS2peakCalling