Job ID = 14159657 SRX = SRX8832106 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 13247927 spots for SRR12332030/SRR12332030.sra Written 13247927 spots for SRR12332030/SRR12332030.sra fastq に変換しました。 bowtie でマッピング中... Your job 14160238 ("srTce11") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:01 Multiseed full-index search: 00:03:22 13247927 reads; of these: 13247927 (100.00%) were unpaired; of these: 1836133 (13.86%) aligned 0 times 9332299 (70.44%) aligned exactly 1 time 2079495 (15.70%) aligned >1 times 86.14% overall alignment rate Time searching: 00:03:23 Overall time: 00:03:23 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_sort_core] merging from 8 files... [bam_rmdupse_core] 3034430 / 11411794 = 0.2659 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 00:09:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.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 00:09:14: #1 read tag files... INFO @ Thu, 09 Dec 2021 00:09:14: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 00:09:24: 1000000 INFO @ Thu, 09 Dec 2021 00:09:34: 2000000 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 00:09:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.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 00:09:43: #1 read tag files... INFO @ Thu, 09 Dec 2021 00:09:43: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 00:09:43: 3000000 INFO @ Thu, 09 Dec 2021 00:09:50: 1000000 INFO @ Thu, 09 Dec 2021 00:09:53: 4000000 INFO @ Thu, 09 Dec 2021 00:09:58: 2000000 INFO @ Thu, 09 Dec 2021 00:10:03: 5000000 INFO @ Thu, 09 Dec 2021 00:10:05: 3000000 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 00:10:13: 4000000 INFO @ Thu, 09 Dec 2021 00:10:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.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 00:10:13: #1 read tag files... INFO @ Thu, 09 Dec 2021 00:10:13: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 00:10:13: 6000000 INFO @ Thu, 09 Dec 2021 00:10:20: 5000000 INFO @ Thu, 09 Dec 2021 00:10:22: 1000000 INFO @ Thu, 09 Dec 2021 00:10:22: 7000000 INFO @ Thu, 09 Dec 2021 00:10:28: 6000000 INFO @ Thu, 09 Dec 2021 00:10:32: 2000000 INFO @ Thu, 09 Dec 2021 00:10:32: 8000000 INFO @ Thu, 09 Dec 2021 00:10:35: 7000000 INFO @ Thu, 09 Dec 2021 00:10:36: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 00:10:36: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 00:10:36: #1 total tags in treatment: 8377364 INFO @ Thu, 09 Dec 2021 00:10:36: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 00:10:36: #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 00:10:36: #1 tags after filtering in treatment: 8377364 INFO @ Thu, 09 Dec 2021 00:10:36: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 00:10:36: #1 finished! INFO @ Thu, 09 Dec 2021 00:10:36: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 00:10:36: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 00:10:37: #2 number of paired peaks: 1739 INFO @ Thu, 09 Dec 2021 00:10:37: start model_add_line... INFO @ Thu, 09 Dec 2021 00:10:37: start X-correlation... INFO @ Thu, 09 Dec 2021 00:10:37: end of X-cor INFO @ Thu, 09 Dec 2021 00:10:37: #2 finished! INFO @ Thu, 09 Dec 2021 00:10:37: #2 predicted fragment length is 149 bps INFO @ Thu, 09 Dec 2021 00:10:37: #2 alternative fragment length(s) may be 149 bps INFO @ Thu, 09 Dec 2021 00:10:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.05_model.r INFO @ Thu, 09 Dec 2021 00:10:37: #3 Call peaks... INFO @ Thu, 09 Dec 2021 00:10:37: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 00:10:42: 3000000 INFO @ Thu, 09 Dec 2021 00:10:42: 8000000 INFO @ Thu, 09 Dec 2021 00:10:45: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 00:10:45: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 00:10:45: #1 total tags in treatment: 8377364 INFO @ Thu, 09 Dec 2021 00:10:45: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 00:10:45: #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 00:10:45: #1 tags after filtering in treatment: 8377364 INFO @ Thu, 09 Dec 2021 00:10:45: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 00:10:45: #1 finished! INFO @ Thu, 09 Dec 2021 00:10:45: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 00:10:45: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 00:10:45: #2 number of paired peaks: 1739 INFO @ Thu, 09 Dec 2021 00:10:45: start model_add_line... INFO @ Thu, 09 Dec 2021 00:10:46: start X-correlation... INFO @ Thu, 09 Dec 2021 00:10:46: end of X-cor INFO @ Thu, 09 Dec 2021 00:10:46: #2 finished! INFO @ Thu, 09 Dec 2021 00:10:46: #2 predicted fragment length is 149 bps INFO @ Thu, 09 Dec 2021 00:10:46: #2 alternative fragment length(s) may be 149 bps INFO @ Thu, 09 Dec 2021 00:10:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.10_model.r INFO @ Thu, 09 Dec 2021 00:10:46: #3 Call peaks... INFO @ Thu, 09 Dec 2021 00:10:46: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 00:10:51: 4000000 INFO @ Thu, 09 Dec 2021 00:10:58: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 00:11:00: 5000000 INFO @ Thu, 09 Dec 2021 00:11:06: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 09 Dec 2021 00:11:09: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.05_peaks.xls INFO @ Thu, 09 Dec 2021 00:11:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.05_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 00:11:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.05_summits.bed INFO @ Thu, 09 Dec 2021 00:11:09: Done! INFO @ Thu, 09 Dec 2021 00:11:10: 6000000 pass1 - making usageList (7 chroms): 4 millis pass2 - checking and writing primary data (6689 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 00:11:16: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.10_peaks.xls INFO @ Thu, 09 Dec 2021 00:11:16: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.10_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 00:11:16: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.10_summits.bed INFO @ Thu, 09 Dec 2021 00:11:16: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (5084 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 00:11:19: 7000000 INFO @ Thu, 09 Dec 2021 00:11:29: 8000000 INFO @ Thu, 09 Dec 2021 00:11:33: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 00:11:33: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 00:11:33: #1 total tags in treatment: 8377364 INFO @ Thu, 09 Dec 2021 00:11:33: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 00:11:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) BigWig に変換しました。 INFO @ Thu, 09 Dec 2021 00:11:33: #1 tags after filtering in treatment: 8377364 INFO @ Thu, 09 Dec 2021 00:11:33: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 00:11:33: #1 finished! INFO @ Thu, 09 Dec 2021 00:11:33: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 00:11:33: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 00:11:33: #2 number of paired peaks: 1739 INFO @ Thu, 09 Dec 2021 00:11:33: start model_add_line... INFO @ Thu, 09 Dec 2021 00:11:34: start X-correlation... INFO @ Thu, 09 Dec 2021 00:11:34: end of X-cor INFO @ Thu, 09 Dec 2021 00:11:34: #2 finished! INFO @ Thu, 09 Dec 2021 00:11:34: #2 predicted fragment length is 149 bps INFO @ Thu, 09 Dec 2021 00:11:34: #2 alternative fragment length(s) may be 149 bps INFO @ Thu, 09 Dec 2021 00:11:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.20_model.r INFO @ Thu, 09 Dec 2021 00:11:34: #3 Call peaks... INFO @ Thu, 09 Dec 2021 00:11:34: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 00:11:55: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 00:12:06: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.20_peaks.xls INFO @ Thu, 09 Dec 2021 00:12:06: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.20_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 00:12:06: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832106/SRX8832106.20_summits.bed INFO @ Thu, 09 Dec 2021 00:12:06: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (3504 records, 4 fields): 8 millis CompletedMACS2peakCalling