Job ID = 14159667 SRX = SRX8832109 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 16589313 spots for SRR12332033/SRR12332033.sra Written 16589313 spots for SRR12332033/SRR12332033.sra fastq に変換しました。 bowtie でマッピング中... Your job 14160274 ("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: 00:03:22 16589313 reads; of these: 16589313 (100.00%) were unpaired; of these: 3168031 (19.10%) aligned 0 times 10909118 (65.76%) aligned exactly 1 time 2512164 (15.14%) aligned >1 times 80.90% overall alignment rate Time searching: 00:03:22 Overall time: 00:03:22 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] 4587875 / 13421282 = 0.3418 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 00:18:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832109/SRX8832109.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832109/SRX8832109.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832109/SRX8832109.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832109/SRX8832109.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 00:18:16: #1 read tag files... INFO @ Thu, 09 Dec 2021 00:18:16: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 00:18:22: 1000000 INFO @ Thu, 09 Dec 2021 00:18:28: 2000000 INFO @ Thu, 09 Dec 2021 00:18:34: 3000000 INFO @ Thu, 09 Dec 2021 00:18:39: 4000000 INFO @ Thu, 09 Dec 2021 00:18:44: 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 00:18:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832109/SRX8832109.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832109/SRX8832109.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832109/SRX8832109.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832109/SRX8832109.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 00:18:46: #1 read tag files... INFO @ Thu, 09 Dec 2021 00:18:46: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 00:18:50: 6000000 INFO @ Thu, 09 Dec 2021 00:18:52: 1000000 INFO @ Thu, 09 Dec 2021 00:18:55: 7000000 INFO @ Thu, 09 Dec 2021 00:18:58: 2000000 INFO @ Thu, 09 Dec 2021 00:19:01: 8000000 INFO @ Thu, 09 Dec 2021 00:19:03: 3000000 INFO @ Thu, 09 Dec 2021 00:19:06: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 00:19:06: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 00:19:06: #1 total tags in treatment: 8833407 INFO @ Thu, 09 Dec 2021 00:19:06: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 00:19:06: #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 00:19:06: #1 tags after filtering in treatment: 8833407 INFO @ Thu, 09 Dec 2021 00:19:06: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 00:19:06: #1 finished! INFO @ Thu, 09 Dec 2021 00:19:06: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 00:19:06: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 00:19:07: #2 number of paired peaks: 4757 INFO @ Thu, 09 Dec 2021 00:19:07: start model_add_line... INFO @ Thu, 09 Dec 2021 00:19:07: start X-correlation... INFO @ Thu, 09 Dec 2021 00:19:07: end of X-cor INFO @ Thu, 09 Dec 2021 00:19:07: #2 finished! INFO @ Thu, 09 Dec 2021 00:19:07: #2 predicted fragment length is 167 bps INFO @ Thu, 09 Dec 2021 00:19:07: #2 alternative fragment length(s) may be 167 bps INFO @ Thu, 09 Dec 2021 00:19:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832109/SRX8832109.05_model.r INFO @ Thu, 09 Dec 2021 00:19:07: #3 Call peaks... INFO @ Thu, 09 Dec 2021 00:19:07: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 00:19:09: 4000000 INFO @ Thu, 09 Dec 2021 00:19:14: 5000000 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 00:19:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832109/SRX8832109.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832109/SRX8832109.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832109/SRX8832109.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832109/SRX8832109.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 00:19:16: #1 read tag files... INFO @ Thu, 09 Dec 2021 00:19:16: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 00:19:20: 6000000 INFO @ Thu, 09 Dec 2021 00:19:23: 1000000 INFO @ Thu, 09 Dec 2021 00:19:26: 7000000 INFO @ Thu, 09 Dec 2021 00:19:29: 2000000 INFO @ Thu, 09 Dec 2021 00:19:30: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 00:19:33: 8000000 INFO @ Thu, 09 Dec 2021 00:19:35: 3000000 INFO @ Thu, 09 Dec 2021 00:19:38: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 00:19:38: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 00:19:38: #1 total tags in treatment: 8833407 INFO @ Thu, 09 Dec 2021 00:19:38: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 00:19:38: #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 00:19:38: #1 tags after filtering in treatment: 8833407 INFO @ Thu, 09 Dec 2021 00:19:38: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 00:19:38: #1 finished! INFO @ Thu, 09 Dec 2021 00:19:38: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 00:19:38: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 00:19:39: #2 number of paired peaks: 4757 INFO @ Thu, 09 Dec 2021 00:19:39: start model_add_line... INFO @ Thu, 09 Dec 2021 00:19:39: start X-correlation... INFO @ Thu, 09 Dec 2021 00:19:39: end of X-cor INFO @ Thu, 09 Dec 2021 00:19:39: #2 finished! INFO @ Thu, 09 Dec 2021 00:19:39: #2 predicted fragment length is 167 bps INFO @ Thu, 09 Dec 2021 00:19:39: #2 alternative fragment length(s) may be 167 bps INFO @ Thu, 09 Dec 2021 00:19:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832109/SRX8832109.10_model.r INFO @ Thu, 09 Dec 2021 00:19:39: #3 Call peaks... INFO @ Thu, 09 Dec 2021 00:19:39: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 00:19:41: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832109/SRX8832109.05_peaks.xls INFO @ Thu, 09 Dec 2021 00:19:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832109/SRX8832109.05_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 00:19:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832109/SRX8832109.05_summits.bed INFO @ Thu, 09 Dec 2021 00:19:41: Done! INFO @ Thu, 09 Dec 2021 00:19:41: 4000000 pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (9248 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 00:19:47: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 09 Dec 2021 00:19:52: 6000000 INFO @ Thu, 09 Dec 2021 00:19:58: 7000000 INFO @ Thu, 09 Dec 2021 00:20:01: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 00:20:03: 8000000 INFO @ Thu, 09 Dec 2021 00:20:08: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 00:20:08: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 00:20:08: #1 total tags in treatment: 8833407 INFO @ Thu, 09 Dec 2021 00:20:08: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 00:20:08: #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 00:20:08: #1 tags after filtering in treatment: 8833407 INFO @ Thu, 09 Dec 2021 00:20:08: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 00:20:08: #1 finished! INFO @ Thu, 09 Dec 2021 00:20:08: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 00:20:08: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Thu, 09 Dec 2021 00:20:09: #2 number of paired peaks: 4757 INFO @ Thu, 09 Dec 2021 00:20:09: start model_add_line... INFO @ Thu, 09 Dec 2021 00:20:09: start X-correlation... INFO @ Thu, 09 Dec 2021 00:20:09: end of X-cor INFO @ Thu, 09 Dec 2021 00:20:09: #2 finished! INFO @ Thu, 09 Dec 2021 00:20:09: #2 predicted fragment length is 167 bps INFO @ Thu, 09 Dec 2021 00:20:09: #2 alternative fragment length(s) may be 167 bps INFO @ Thu, 09 Dec 2021 00:20:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832109/SRX8832109.20_model.r INFO @ Thu, 09 Dec 2021 00:20:09: #3 Call peaks... INFO @ Thu, 09 Dec 2021 00:20:09: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 00:20:12: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832109/SRX8832109.10_peaks.xls INFO @ Thu, 09 Dec 2021 00:20:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832109/SRX8832109.10_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 00:20:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832109/SRX8832109.10_summits.bed INFO @ Thu, 09 Dec 2021 00:20:12: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (7683 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 00:20:31: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 00:20:41: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832109/SRX8832109.20_peaks.xls INFO @ Thu, 09 Dec 2021 00:20:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832109/SRX8832109.20_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 00:20:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832109/SRX8832109.20_summits.bed INFO @ Thu, 09 Dec 2021 00:20:41: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (5967 records, 4 fields): 7 millis CompletedMACS2peakCalling