Job ID = 10165696 SRX = SRX8832067 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 15544248 spots for SRR12332009/SRR12332009.sra Written 15544248 spots for SRR12332009/SRR12332009.sra fastq に変換しました。 bowtie でマッピング中... Your job 10165862 ("srTce11") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:03:39 15544248 reads; of these: 15544248 (100.00%) were unpaired; of these: 812829 (5.23%) aligned 0 times 12845295 (82.64%) aligned exactly 1 time 1886124 (12.13%) aligned >1 times 94.77% overall alignment rate Time searching: 00:03:39 Overall time: 00:03:39 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] 2413173 / 14731419 = 0.1638 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 19:43:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832067/SRX8832067.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832067/SRX8832067.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832067/SRX8832067.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832067/SRX8832067.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 19:43:39: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:43:39: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:43:46: 1000000 INFO @ Thu, 08 Oct 2020 19:43:53: 2000000 INFO @ Thu, 08 Oct 2020 19:44:00: 3000000 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 19:44:07: 4000000 INFO @ Thu, 08 Oct 2020 19:44:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832067/SRX8832067.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832067/SRX8832067.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832067/SRX8832067.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832067/SRX8832067.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 19:44:08: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:44:08: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:44:14: 5000000 INFO @ Thu, 08 Oct 2020 19:44:16: 1000000 INFO @ Thu, 08 Oct 2020 19:44:21: 6000000 INFO @ Thu, 08 Oct 2020 19:44:24: 2000000 INFO @ Thu, 08 Oct 2020 19:44:29: 7000000 INFO @ Thu, 08 Oct 2020 19:44:32: 3000000 INFO @ Thu, 08 Oct 2020 19:44:36: 8000000 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 19:44:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832067/SRX8832067.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832067/SRX8832067.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832067/SRX8832067.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832067/SRX8832067.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 19:44:38: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:44:38: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:44:40: 4000000 INFO @ Thu, 08 Oct 2020 19:44:43: 9000000 INFO @ Thu, 08 Oct 2020 19:44:45: 1000000 INFO @ Thu, 08 Oct 2020 19:44:48: 5000000 INFO @ Thu, 08 Oct 2020 19:44:50: 10000000 INFO @ Thu, 08 Oct 2020 19:44:52: 2000000 INFO @ Thu, 08 Oct 2020 19:44:56: 6000000 INFO @ Thu, 08 Oct 2020 19:44:57: 11000000 INFO @ Thu, 08 Oct 2020 19:44:59: 3000000 INFO @ Thu, 08 Oct 2020 19:45:04: 7000000 INFO @ Thu, 08 Oct 2020 19:45:04: 12000000 INFO @ Thu, 08 Oct 2020 19:45:06: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:45:06: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:45:06: #1 total tags in treatment: 12318246 INFO @ Thu, 08 Oct 2020 19:45:06: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:45:06: #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 19:45:06: 4000000 INFO @ Thu, 08 Oct 2020 19:45:06: #1 tags after filtering in treatment: 12318246 INFO @ Thu, 08 Oct 2020 19:45:06: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:45:06: #1 finished! INFO @ Thu, 08 Oct 2020 19:45:06: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:45:06: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:45:07: #2 number of paired peaks: 3209 INFO @ Thu, 08 Oct 2020 19:45:07: start model_add_line... INFO @ Thu, 08 Oct 2020 19:45:08: start X-correlation... INFO @ Thu, 08 Oct 2020 19:45:08: end of X-cor INFO @ Thu, 08 Oct 2020 19:45:08: #2 finished! INFO @ Thu, 08 Oct 2020 19:45:08: #2 predicted fragment length is 148 bps INFO @ Thu, 08 Oct 2020 19:45:08: #2 alternative fragment length(s) may be 4,148 bps INFO @ Thu, 08 Oct 2020 19:45:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832067/SRX8832067.05_model.r INFO @ Thu, 08 Oct 2020 19:45:08: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:45:08: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:45:12: 8000000 INFO @ Thu, 08 Oct 2020 19:45:13: 5000000 INFO @ Thu, 08 Oct 2020 19:45:19: 9000000 INFO @ Thu, 08 Oct 2020 19:45:20: 6000000 INFO @ Thu, 08 Oct 2020 19:45:27: 10000000 INFO @ Thu, 08 Oct 2020 19:45:27: 7000000 INFO @ Thu, 08 Oct 2020 19:45:35: 8000000 INFO @ Thu, 08 Oct 2020 19:45:35: 11000000 INFO @ Thu, 08 Oct 2020 19:45:37: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:45:42: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 19:45:43: 12000000 INFO @ Thu, 08 Oct 2020 19:45:45: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:45:45: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:45:45: #1 total tags in treatment: 12318246 INFO @ Thu, 08 Oct 2020 19:45:45: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:45:45: #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 19:45:46: #1 tags after filtering in treatment: 12318246 INFO @ Thu, 08 Oct 2020 19:45:46: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:45:46: #1 finished! INFO @ Thu, 08 Oct 2020 19:45:46: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:45:46: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:45:47: #2 number of paired peaks: 3209 INFO @ Thu, 08 Oct 2020 19:45:47: start model_add_line... INFO @ Thu, 08 Oct 2020 19:45:47: start X-correlation... INFO @ Thu, 08 Oct 2020 19:45:47: end of X-cor INFO @ Thu, 08 Oct 2020 19:45:47: #2 finished! INFO @ Thu, 08 Oct 2020 19:45:47: #2 predicted fragment length is 148 bps INFO @ Thu, 08 Oct 2020 19:45:47: #2 alternative fragment length(s) may be 4,148 bps INFO @ Thu, 08 Oct 2020 19:45:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832067/SRX8832067.10_model.r INFO @ Thu, 08 Oct 2020 19:45:48: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:45:48: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:45:49: 10000000 INFO @ Thu, 08 Oct 2020 19:45:53: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832067/SRX8832067.05_peaks.xls INFO @ Thu, 08 Oct 2020 19:45:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832067/SRX8832067.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:45:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832067/SRX8832067.05_summits.bed INFO @ Thu, 08 Oct 2020 19:45:53: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (7366 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:45:56: 11000000 INFO @ Thu, 08 Oct 2020 19:46:03: 12000000 INFO @ Thu, 08 Oct 2020 19:46:05: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:46:05: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:46:05: #1 total tags in treatment: 12318246 INFO @ Thu, 08 Oct 2020 19:46:05: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:46:05: #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 19:46:05: #1 tags after filtering in treatment: 12318246 INFO @ Thu, 08 Oct 2020 19:46:05: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:46:05: #1 finished! INFO @ Thu, 08 Oct 2020 19:46:05: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:46:05: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:46:06: #2 number of paired peaks: 3209 INFO @ Thu, 08 Oct 2020 19:46:06: start model_add_line... INFO @ Thu, 08 Oct 2020 19:46:07: start X-correlation... INFO @ Thu, 08 Oct 2020 19:46:07: end of X-cor INFO @ Thu, 08 Oct 2020 19:46:07: #2 finished! INFO @ Thu, 08 Oct 2020 19:46:07: #2 predicted fragment length is 148 bps INFO @ Thu, 08 Oct 2020 19:46:07: #2 alternative fragment length(s) may be 4,148 bps INFO @ Thu, 08 Oct 2020 19:46:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832067/SRX8832067.20_model.r INFO @ Thu, 08 Oct 2020 19:46:07: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:46:07: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 19:46:17: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:46:33: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832067/SRX8832067.10_peaks.xls INFO @ Thu, 08 Oct 2020 19:46:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832067/SRX8832067.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:46:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832067/SRX8832067.10_summits.bed INFO @ Thu, 08 Oct 2020 19:46:33: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (5998 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:46:36: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:46:51: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832067/SRX8832067.20_peaks.xls INFO @ Thu, 08 Oct 2020 19:46:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832067/SRX8832067.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:46:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832067/SRX8832067.20_summits.bed INFO @ Thu, 08 Oct 2020 19:46:52: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (4297 records, 4 fields): 7 millis CompletedMACS2peakCalling