Job ID = 10165709 SRX = SRX8832074 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 12283396 spots for SRR12332016/SRR12332016.sra Written 12283396 spots for SRR12332016/SRR12332016.sra fastq に変換しました。 bowtie でマッピング中... Your job 10165786 ("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: 00:01:28 12283396 reads; of these: 12283396 (100.00%) were unpaired; of these: 9384163 (76.40%) aligned 0 times 1774089 (14.44%) aligned exactly 1 time 1125144 (9.16%) aligned >1 times 23.60% overall alignment rate Time searching: 00:01:28 Overall time: 00:01:28 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] 745693 / 2899233 = 0.2572 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 19:38:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832074/SRX8832074.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832074/SRX8832074.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832074/SRX8832074.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832074/SRX8832074.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 19:38:10: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:38:10: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:38:15: 1000000 INFO @ Thu, 08 Oct 2020 19:38:20: 2000000 INFO @ Thu, 08 Oct 2020 19:38:21: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:38:21: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:38:21: #1 total tags in treatment: 2153540 INFO @ Thu, 08 Oct 2020 19:38:21: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:38:21: #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 19:38:21: #1 tags after filtering in treatment: 2153540 INFO @ Thu, 08 Oct 2020 19:38:21: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:38:21: #1 finished! INFO @ Thu, 08 Oct 2020 19:38:21: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:38:21: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:38:21: #2 number of paired peaks: 3374 INFO @ Thu, 08 Oct 2020 19:38:21: start model_add_line... INFO @ Thu, 08 Oct 2020 19:38:22: start X-correlation... INFO @ Thu, 08 Oct 2020 19:38:22: end of X-cor INFO @ Thu, 08 Oct 2020 19:38:22: #2 finished! INFO @ Thu, 08 Oct 2020 19:38:22: #2 predicted fragment length is 102 bps INFO @ Thu, 08 Oct 2020 19:38:22: #2 alternative fragment length(s) may be 102 bps INFO @ Thu, 08 Oct 2020 19:38:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832074/SRX8832074.05_model.r INFO @ Thu, 08 Oct 2020 19:38:22: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:38:22: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:38:27: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:38:29: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832074/SRX8832074.05_peaks.xls INFO @ Thu, 08 Oct 2020 19:38:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832074/SRX8832074.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:38:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832074/SRX8832074.05_summits.bed INFO @ Thu, 08 Oct 2020 19:38:29: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (2526 records, 4 fields): 7 millis CompletedMACS2peakCalling 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 19:38:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832074/SRX8832074.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832074/SRX8832074.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832074/SRX8832074.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832074/SRX8832074.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 19:38:38: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:38:38: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:38:44: 1000000 INFO @ Thu, 08 Oct 2020 19:38:49: 2000000 INFO @ Thu, 08 Oct 2020 19:38:50: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:38:50: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:38:50: #1 total tags in treatment: 2153540 INFO @ Thu, 08 Oct 2020 19:38:50: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:38:50: #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 19:38:50: #1 tags after filtering in treatment: 2153540 INFO @ Thu, 08 Oct 2020 19:38:50: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:38:50: #1 finished! INFO @ Thu, 08 Oct 2020 19:38:50: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:38:50: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:38:50: #2 number of paired peaks: 3374 INFO @ Thu, 08 Oct 2020 19:38:50: start model_add_line... INFO @ Thu, 08 Oct 2020 19:38:50: start X-correlation... INFO @ Thu, 08 Oct 2020 19:38:50: end of X-cor INFO @ Thu, 08 Oct 2020 19:38:50: #2 finished! INFO @ Thu, 08 Oct 2020 19:38:50: #2 predicted fragment length is 102 bps INFO @ Thu, 08 Oct 2020 19:38:50: #2 alternative fragment length(s) may be 102 bps INFO @ Thu, 08 Oct 2020 19:38:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832074/SRX8832074.10_model.r INFO @ Thu, 08 Oct 2020 19:38:50: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:38:50: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:38:55: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:38:58: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832074/SRX8832074.10_peaks.xls INFO @ Thu, 08 Oct 2020 19:38:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832074/SRX8832074.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:38:58: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832074/SRX8832074.10_summits.bed INFO @ Thu, 08 Oct 2020 19:38:58: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (935 records, 4 fields): 3 millis CompletedMACS2peakCalling 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 19:39:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832074/SRX8832074.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832074/SRX8832074.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832074/SRX8832074.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832074/SRX8832074.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 19:39:08: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:39:08: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:39:14: 1000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 19:39:19: 2000000 INFO @ Thu, 08 Oct 2020 19:39:20: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:39:20: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:39:20: #1 total tags in treatment: 2153540 INFO @ Thu, 08 Oct 2020 19:39:20: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:39:20: #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 19:39:20: #1 tags after filtering in treatment: 2153540 INFO @ Thu, 08 Oct 2020 19:39:20: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:39:20: #1 finished! INFO @ Thu, 08 Oct 2020 19:39:20: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:39:20: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:39:20: #2 number of paired peaks: 3374 INFO @ Thu, 08 Oct 2020 19:39:20: start model_add_line... INFO @ Thu, 08 Oct 2020 19:39:20: start X-correlation... INFO @ Thu, 08 Oct 2020 19:39:20: end of X-cor INFO @ Thu, 08 Oct 2020 19:39:20: #2 finished! INFO @ Thu, 08 Oct 2020 19:39:20: #2 predicted fragment length is 102 bps INFO @ Thu, 08 Oct 2020 19:39:20: #2 alternative fragment length(s) may be 102 bps INFO @ Thu, 08 Oct 2020 19:39:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832074/SRX8832074.20_model.r INFO @ Thu, 08 Oct 2020 19:39:20: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:39:20: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 19:39:25: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:39:28: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832074/SRX8832074.20_peaks.xls INFO @ Thu, 08 Oct 2020 19:39:28: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832074/SRX8832074.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:39:28: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832074/SRX8832074.20_summits.bed INFO @ Thu, 08 Oct 2020 19:39:28: Done! pass1 - making usageList (7 chroms): 0 millis pass2 - checking and writing primary data (303 records, 4 fields): 2 millis CompletedMACS2peakCalling