Job ID = 10165986 SRX = SRX8832097 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: 00:02:23 10019332 reads; of these: 10019332 (100.00%) were unpaired; of these: 816884 (8.15%) aligned 0 times 7903111 (78.88%) aligned exactly 1 time 1299337 (12.97%) aligned >1 times 91.85% overall alignment rate Time searching: 00:02:23 Overall time: 00:02:23 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_rmdupse_core] 3542191 / 9202448 = 0.3849 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 20:26:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832097/SRX8832097.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832097/SRX8832097.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832097/SRX8832097.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832097/SRX8832097.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 20:26:43: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:26:43: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:26:49: 1000000 INFO @ Thu, 08 Oct 2020 20:26:53: 2000000 INFO @ Thu, 08 Oct 2020 20:26:59: 3000000 INFO @ Thu, 08 Oct 2020 20:27:03: 4000000 INFO @ Thu, 08 Oct 2020 20:27:08: 5000000 INFO @ Thu, 08 Oct 2020 20:27:11: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:27:11: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:27:11: #1 total tags in treatment: 5660257 INFO @ Thu, 08 Oct 2020 20:27:11: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:27:11: #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 20:27:11: #1 tags after filtering in treatment: 5660257 INFO @ Thu, 08 Oct 2020 20:27:11: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:27:11: #1 finished! INFO @ Thu, 08 Oct 2020 20:27:11: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:27:11: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:27:12: #2 number of paired peaks: 3049 INFO @ Thu, 08 Oct 2020 20:27:12: start model_add_line... INFO @ Thu, 08 Oct 2020 20:27:12: start X-correlation... INFO @ Thu, 08 Oct 2020 20:27:12: end of X-cor INFO @ Thu, 08 Oct 2020 20:27:12: #2 finished! INFO @ Thu, 08 Oct 2020 20:27:12: #2 predicted fragment length is 186 bps INFO @ Thu, 08 Oct 2020 20:27:12: #2 alternative fragment length(s) may be 186 bps INFO @ Thu, 08 Oct 2020 20:27:12: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832097/SRX8832097.05_model.r INFO @ Thu, 08 Oct 2020 20:27:12: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:27:12: #3 Pre-compute pvalue-qvalue table... 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 20:27:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832097/SRX8832097.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832097/SRX8832097.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832097/SRX8832097.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832097/SRX8832097.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 20:27:14: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:27:14: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:27:18: 1000000 INFO @ Thu, 08 Oct 2020 20:27:23: 2000000 INFO @ Thu, 08 Oct 2020 20:27:25: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:27:27: 3000000 INFO @ Thu, 08 Oct 2020 20:27:32: 4000000 INFO @ Thu, 08 Oct 2020 20:27:32: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832097/SRX8832097.05_peaks.xls INFO @ Thu, 08 Oct 2020 20:27:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832097/SRX8832097.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:27:32: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832097/SRX8832097.05_summits.bed INFO @ Thu, 08 Oct 2020 20:27:32: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (5432 records, 4 fields): 6 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 20:27:36: 5000000 INFO @ Thu, 08 Oct 2020 20:27:39: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:27:39: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:27:39: #1 total tags in treatment: 5660257 INFO @ Thu, 08 Oct 2020 20:27:39: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:27:39: #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 20:27:39: #1 tags after filtering in treatment: 5660257 INFO @ Thu, 08 Oct 2020 20:27:39: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:27:39: #1 finished! INFO @ Thu, 08 Oct 2020 20:27:39: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:27:39: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:27:40: #2 number of paired peaks: 3049 INFO @ Thu, 08 Oct 2020 20:27:40: start model_add_line... INFO @ Thu, 08 Oct 2020 20:27:40: start X-correlation... INFO @ Thu, 08 Oct 2020 20:27:40: end of X-cor INFO @ Thu, 08 Oct 2020 20:27:40: #2 finished! INFO @ Thu, 08 Oct 2020 20:27:40: #2 predicted fragment length is 186 bps INFO @ Thu, 08 Oct 2020 20:27:40: #2 alternative fragment length(s) may be 186 bps INFO @ Thu, 08 Oct 2020 20:27:40: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832097/SRX8832097.10_model.r INFO @ Thu, 08 Oct 2020 20:27:40: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:27:40: #3 Pre-compute pvalue-qvalue table... 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 20:27:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832097/SRX8832097.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832097/SRX8832097.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832097/SRX8832097.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832097/SRX8832097.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 20:27:43: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:27:43: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:27:48: 1000000 INFO @ Thu, 08 Oct 2020 20:27:53: 2000000 INFO @ Thu, 08 Oct 2020 20:27:55: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:27:57: 3000000 INFO @ Thu, 08 Oct 2020 20:28:02: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832097/SRX8832097.10_peaks.xls INFO @ Thu, 08 Oct 2020 20:28:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832097/SRX8832097.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:28:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832097/SRX8832097.10_summits.bed INFO @ Thu, 08 Oct 2020 20:28:02: Done! INFO @ Thu, 08 Oct 2020 20:28:02: 4000000 pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (4322 records, 4 fields): 5 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 20:28:06: 5000000 INFO @ Thu, 08 Oct 2020 20:28:09: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:28:09: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:28:09: #1 total tags in treatment: 5660257 INFO @ Thu, 08 Oct 2020 20:28:09: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:28:09: #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 20:28:10: #1 tags after filtering in treatment: 5660257 INFO @ Thu, 08 Oct 2020 20:28:10: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:28:10: #1 finished! INFO @ Thu, 08 Oct 2020 20:28:10: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:28:10: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 20:28:10: #2 number of paired peaks: 3049 INFO @ Thu, 08 Oct 2020 20:28:10: start model_add_line... INFO @ Thu, 08 Oct 2020 20:28:10: start X-correlation... INFO @ Thu, 08 Oct 2020 20:28:10: end of X-cor INFO @ Thu, 08 Oct 2020 20:28:10: #2 finished! INFO @ Thu, 08 Oct 2020 20:28:10: #2 predicted fragment length is 186 bps INFO @ Thu, 08 Oct 2020 20:28:10: #2 alternative fragment length(s) may be 186 bps INFO @ Thu, 08 Oct 2020 20:28:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832097/SRX8832097.20_model.r INFO @ Thu, 08 Oct 2020 20:28:10: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:28:10: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 20:28:25: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:28:31: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832097/SRX8832097.20_peaks.xls INFO @ Thu, 08 Oct 2020 20:28:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832097/SRX8832097.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:28:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832097/SRX8832097.20_summits.bed INFO @ Thu, 08 Oct 2020 20:28:31: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (3172 records, 4 fields): 4 millis CompletedMACS2peakCalling