Job ID = 14160286 SRX = SRX8832096 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 10882888 spots for SRR12332054/SRR12332054.sra Written 10882888 spots for SRR12332054/SRR12332054.sra fastq に変換しました。 bowtie でマッピング中... Your job 14160406 ("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: 00:02:23 10882888 reads; of these: 10882888 (100.00%) were unpaired; of these: 936462 (8.60%) aligned 0 times 8292770 (76.20%) aligned exactly 1 time 1653656 (15.20%) aligned >1 times 91.40% 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_sort_core] merging from 8 files... [bam_rmdupse_core] 4515773 / 9946426 = 0.4540 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 01:19:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832096/SRX8832096.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832096/SRX8832096.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832096/SRX8832096.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832096/SRX8832096.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 01:19:18: #1 read tag files... INFO @ Thu, 09 Dec 2021 01:19:18: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 01:19:23: 1000000 INFO @ Thu, 09 Dec 2021 01:19:29: 2000000 INFO @ Thu, 09 Dec 2021 01:19:34: 3000000 INFO @ Thu, 09 Dec 2021 01:19:40: 4000000 INFO @ Thu, 09 Dec 2021 01:19:45: 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 01:19:47: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 01:19:47: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 01:19:47: #1 total tags in treatment: 5430653 INFO @ Thu, 09 Dec 2021 01:19:47: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 01:19:47: #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 01:19:48: #1 tags after filtering in treatment: 5430653 INFO @ Thu, 09 Dec 2021 01:19:48: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 01:19:48: #1 finished! INFO @ Thu, 09 Dec 2021 01:19:48: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 01:19:48: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 01:19:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832096/SRX8832096.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832096/SRX8832096.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832096/SRX8832096.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832096/SRX8832096.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 01:19:48: #1 read tag files... INFO @ Thu, 09 Dec 2021 01:19:48: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 01:19:48: #2 number of paired peaks: 3738 INFO @ Thu, 09 Dec 2021 01:19:48: start model_add_line... INFO @ Thu, 09 Dec 2021 01:19:48: start X-correlation... INFO @ Thu, 09 Dec 2021 01:19:48: end of X-cor INFO @ Thu, 09 Dec 2021 01:19:48: #2 finished! INFO @ Thu, 09 Dec 2021 01:19:48: #2 predicted fragment length is 145 bps INFO @ Thu, 09 Dec 2021 01:19:48: #2 alternative fragment length(s) may be 145 bps INFO @ Thu, 09 Dec 2021 01:19:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832096/SRX8832096.05_model.r INFO @ Thu, 09 Dec 2021 01:19:48: #3 Call peaks... INFO @ Thu, 09 Dec 2021 01:19:48: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 01:19:54: 1000000 INFO @ Thu, 09 Dec 2021 01:19:59: 2000000 INFO @ Thu, 09 Dec 2021 01:20:02: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 01:20:04: 3000000 INFO @ Thu, 09 Dec 2021 01:20:08: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832096/SRX8832096.05_peaks.xls INFO @ Thu, 09 Dec 2021 01:20:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832096/SRX8832096.05_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 01:20:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832096/SRX8832096.05_summits.bed INFO @ Thu, 09 Dec 2021 01:20:08: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (6268 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Thu, 09 Dec 2021 01:20:10: 4000000 INFO @ Thu, 09 Dec 2021 01:20:15: 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 01:20:18: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 01:20:18: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 01:20:18: #1 total tags in treatment: 5430653 INFO @ Thu, 09 Dec 2021 01:20:18: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 01:20:18: #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 01:20:18: #1 tags after filtering in treatment: 5430653 INFO @ Thu, 09 Dec 2021 01:20:18: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 01:20:18: #1 finished! INFO @ Thu, 09 Dec 2021 01:20:18: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 01:20:18: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 01:20:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832096/SRX8832096.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832096/SRX8832096.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832096/SRX8832096.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832096/SRX8832096.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 01:20:18: #1 read tag files... INFO @ Thu, 09 Dec 2021 01:20:18: #1 read treatment tags... INFO @ Thu, 09 Dec 2021 01:20:18: #2 number of paired peaks: 3738 INFO @ Thu, 09 Dec 2021 01:20:18: start model_add_line... INFO @ Thu, 09 Dec 2021 01:20:19: start X-correlation... INFO @ Thu, 09 Dec 2021 01:20:19: end of X-cor INFO @ Thu, 09 Dec 2021 01:20:19: #2 finished! INFO @ Thu, 09 Dec 2021 01:20:19: #2 predicted fragment length is 145 bps INFO @ Thu, 09 Dec 2021 01:20:19: #2 alternative fragment length(s) may be 145 bps INFO @ Thu, 09 Dec 2021 01:20:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832096/SRX8832096.10_model.r INFO @ Thu, 09 Dec 2021 01:20:19: #3 Call peaks... INFO @ Thu, 09 Dec 2021 01:20:19: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 09 Dec 2021 01:20:24: 1000000 INFO @ Thu, 09 Dec 2021 01:20:29: 2000000 INFO @ Thu, 09 Dec 2021 01:20:33: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 01:20:35: 3000000 INFO @ Thu, 09 Dec 2021 01:20:39: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832096/SRX8832096.10_peaks.xls INFO @ Thu, 09 Dec 2021 01:20:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832096/SRX8832096.10_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 01:20:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832096/SRX8832096.10_summits.bed INFO @ Thu, 09 Dec 2021 01:20:39: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (5210 records, 4 fields): 6 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 09 Dec 2021 01:20:41: 4000000 INFO @ Thu, 09 Dec 2021 01:20:47: 5000000 INFO @ Thu, 09 Dec 2021 01:20:49: #1 tag size is determined as 50 bps INFO @ Thu, 09 Dec 2021 01:20:49: #1 tag size = 50 INFO @ Thu, 09 Dec 2021 01:20:49: #1 total tags in treatment: 5430653 INFO @ Thu, 09 Dec 2021 01:20:49: #1 user defined the maximum tags... INFO @ Thu, 09 Dec 2021 01:20:49: #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 01:20:49: #1 tags after filtering in treatment: 5430653 INFO @ Thu, 09 Dec 2021 01:20:49: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 09 Dec 2021 01:20:49: #1 finished! INFO @ Thu, 09 Dec 2021 01:20:49: #2 Build Peak Model... INFO @ Thu, 09 Dec 2021 01:20:49: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 09 Dec 2021 01:20:50: #2 number of paired peaks: 3738 INFO @ Thu, 09 Dec 2021 01:20:50: start model_add_line... INFO @ Thu, 09 Dec 2021 01:20:50: start X-correlation... INFO @ Thu, 09 Dec 2021 01:20:50: end of X-cor INFO @ Thu, 09 Dec 2021 01:20:50: #2 finished! INFO @ Thu, 09 Dec 2021 01:20:50: #2 predicted fragment length is 145 bps INFO @ Thu, 09 Dec 2021 01:20:50: #2 alternative fragment length(s) may be 145 bps INFO @ Thu, 09 Dec 2021 01:20:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832096/SRX8832096.20_model.r INFO @ Thu, 09 Dec 2021 01:20:50: #3 Call peaks... INFO @ Thu, 09 Dec 2021 01:20:50: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Thu, 09 Dec 2021 01:21:03: #3 Call peaks for each chromosome... INFO @ Thu, 09 Dec 2021 01:21:09: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832096/SRX8832096.20_peaks.xls INFO @ Thu, 09 Dec 2021 01:21:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832096/SRX8832096.20_peaks.narrowPeak INFO @ Thu, 09 Dec 2021 01:21:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832096/SRX8832096.20_summits.bed INFO @ Thu, 09 Dec 2021 01:21:09: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (4061 records, 4 fields): 6 millis CompletedMACS2peakCalling