Job ID = 10165710 SRX = SRX8832075 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 13179853 spots for SRR12332017/SRR12332017.sra Written 13179853 spots for SRR12332017/SRR12332017.sra fastq に変換しました。 bowtie でマッピング中... Your job 10165842 ("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: 00:02:59 13179853 reads; of these: 13179853 (100.00%) were unpaired; of these: 3961764 (30.06%) aligned 0 times 5164771 (39.19%) aligned exactly 1 time 4053318 (30.75%) aligned >1 times 69.94% overall alignment rate Time searching: 00:02:59 Overall time: 00:02:59 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] 2855993 / 9218089 = 0.3098 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 19:41:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832075/SRX8832075.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832075/SRX8832075.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832075/SRX8832075.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832075/SRX8832075.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 19:41:31: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:41:31: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:41:36: 1000000 INFO @ Thu, 08 Oct 2020 19:41:42: 2000000 INFO @ Thu, 08 Oct 2020 19:41:48: 3000000 INFO @ Thu, 08 Oct 2020 19:41:54: 4000000 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 19:42:00: 5000000 INFO @ Thu, 08 Oct 2020 19:42:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832075/SRX8832075.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832075/SRX8832075.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832075/SRX8832075.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832075/SRX8832075.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 19:42:01: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:42:01: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:42:06: 6000000 INFO @ Thu, 08 Oct 2020 19:42:07: 1000000 INFO @ Thu, 08 Oct 2020 19:42:08: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:42:08: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:42:08: #1 total tags in treatment: 6362096 INFO @ Thu, 08 Oct 2020 19:42:08: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:42:08: #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 19:42:08: #1 tags after filtering in treatment: 6362096 INFO @ Thu, 08 Oct 2020 19:42:08: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:42:08: #1 finished! INFO @ Thu, 08 Oct 2020 19:42:08: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:42:08: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:42:09: #2 number of paired peaks: 4954 INFO @ Thu, 08 Oct 2020 19:42:09: start model_add_line... INFO @ Thu, 08 Oct 2020 19:42:09: start X-correlation... INFO @ Thu, 08 Oct 2020 19:42:09: end of X-cor INFO @ Thu, 08 Oct 2020 19:42:09: #2 finished! INFO @ Thu, 08 Oct 2020 19:42:09: #2 predicted fragment length is 113 bps INFO @ Thu, 08 Oct 2020 19:42:09: #2 alternative fragment length(s) may be 4,113 bps INFO @ Thu, 08 Oct 2020 19:42:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832075/SRX8832075.05_model.r INFO @ Thu, 08 Oct 2020 19:42:09: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:42:09: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:42:12: 2000000 INFO @ Thu, 08 Oct 2020 19:42:18: 3000000 INFO @ Thu, 08 Oct 2020 19:42:24: 4000000 INFO @ Thu, 08 Oct 2020 19:42:27: #3 Call peaks for each chromosome... 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 19:42:30: 5000000 INFO @ Thu, 08 Oct 2020 19:42:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832075/SRX8832075.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832075/SRX8832075.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832075/SRX8832075.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832075/SRX8832075.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 19:42:31: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:42:31: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:42:35: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832075/SRX8832075.05_peaks.xls INFO @ Thu, 08 Oct 2020 19:42:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832075/SRX8832075.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:42:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832075/SRX8832075.05_summits.bed INFO @ Thu, 08 Oct 2020 19:42:35: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (6305 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:42:36: 6000000 INFO @ Thu, 08 Oct 2020 19:42:37: 1000000 INFO @ Thu, 08 Oct 2020 19:42:38: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:42:38: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:42:38: #1 total tags in treatment: 6362096 INFO @ Thu, 08 Oct 2020 19:42:38: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:42:38: #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 19:42:38: #1 tags after filtering in treatment: 6362096 INFO @ Thu, 08 Oct 2020 19:42:38: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:42:38: #1 finished! INFO @ Thu, 08 Oct 2020 19:42:38: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:42:38: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:42:39: #2 number of paired peaks: 4954 INFO @ Thu, 08 Oct 2020 19:42:39: start model_add_line... INFO @ Thu, 08 Oct 2020 19:42:39: start X-correlation... INFO @ Thu, 08 Oct 2020 19:42:39: end of X-cor INFO @ Thu, 08 Oct 2020 19:42:39: #2 finished! INFO @ Thu, 08 Oct 2020 19:42:39: #2 predicted fragment length is 113 bps INFO @ Thu, 08 Oct 2020 19:42:39: #2 alternative fragment length(s) may be 4,113 bps INFO @ Thu, 08 Oct 2020 19:42:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832075/SRX8832075.10_model.r INFO @ Thu, 08 Oct 2020 19:42:39: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:42:39: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:42:43: 2000000 INFO @ Thu, 08 Oct 2020 19:42:48: 3000000 INFO @ Thu, 08 Oct 2020 19:42:54: 4000000 INFO @ Thu, 08 Oct 2020 19:42:57: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:43:00: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 19:43:04: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832075/SRX8832075.10_peaks.xls INFO @ Thu, 08 Oct 2020 19:43:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832075/SRX8832075.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:43:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832075/SRX8832075.10_summits.bed INFO @ Thu, 08 Oct 2020 19:43:05: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (3737 records, 4 fields): 5 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:43:06: 6000000 INFO @ Thu, 08 Oct 2020 19:43:08: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:43:08: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:43:08: #1 total tags in treatment: 6362096 INFO @ Thu, 08 Oct 2020 19:43:08: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:43:08: #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 19:43:08: #1 tags after filtering in treatment: 6362096 INFO @ Thu, 08 Oct 2020 19:43:08: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:43:08: #1 finished! INFO @ Thu, 08 Oct 2020 19:43:08: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:43:08: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:43:09: #2 number of paired peaks: 4954 INFO @ Thu, 08 Oct 2020 19:43:09: start model_add_line... INFO @ Thu, 08 Oct 2020 19:43:09: start X-correlation... INFO @ Thu, 08 Oct 2020 19:43:09: end of X-cor INFO @ Thu, 08 Oct 2020 19:43:09: #2 finished! INFO @ Thu, 08 Oct 2020 19:43:09: #2 predicted fragment length is 113 bps INFO @ Thu, 08 Oct 2020 19:43:09: #2 alternative fragment length(s) may be 4,113 bps INFO @ Thu, 08 Oct 2020 19:43:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832075/SRX8832075.20_model.r INFO @ Thu, 08 Oct 2020 19:43:09: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:43:09: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 19:43:27: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:43:34: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832075/SRX8832075.20_peaks.xls INFO @ Thu, 08 Oct 2020 19:43:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832075/SRX8832075.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:43:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832075/SRX8832075.20_summits.bed INFO @ Thu, 08 Oct 2020 19:43:34: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (1629 records, 4 fields): 3 millis CompletedMACS2peakCalling