Job ID = 10165739 SRX = SRX8832092 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 31385532 spots for SRR12332050/SRR12332050.sra Written 31385532 spots for SRR12332050/SRR12332050.sra fastq に変換しました。 bowtie でマッピング中... Your job 10166030 ("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: 00:06:15 31385532 reads; of these: 31385532 (100.00%) were unpaired; of these: 3090267 (9.85%) aligned 0 times 24002344 (76.48%) aligned exactly 1 time 4292921 (13.68%) aligned >1 times 90.15% overall alignment rate Time searching: 00:06:15 Overall time: 00:06:15 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 12 files... [bam_rmdupse_core] 16548258 / 28295265 = 0.5848 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 19:57:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832092/SRX8832092.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832092/SRX8832092.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832092/SRX8832092.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832092/SRX8832092.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 19:57:15: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:57:15: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:57:20: 1000000 INFO @ Thu, 08 Oct 2020 19:57:24: 2000000 INFO @ Thu, 08 Oct 2020 19:57:29: 3000000 INFO @ Thu, 08 Oct 2020 19:57:34: 4000000 INFO @ Thu, 08 Oct 2020 19:57:39: 5000000 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 19:57:44: 6000000 INFO @ Thu, 08 Oct 2020 19:57:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832092/SRX8832092.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832092/SRX8832092.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832092/SRX8832092.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832092/SRX8832092.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 19:57:45: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:57:45: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:57:49: 7000000 INFO @ Thu, 08 Oct 2020 19:57:50: 1000000 INFO @ Thu, 08 Oct 2020 19:57:54: 8000000 INFO @ Thu, 08 Oct 2020 19:57:56: 2000000 INFO @ Thu, 08 Oct 2020 19:57:59: 9000000 INFO @ Thu, 08 Oct 2020 19:58:01: 3000000 INFO @ Thu, 08 Oct 2020 19:58:04: 10000000 INFO @ Thu, 08 Oct 2020 19:58:07: 4000000 INFO @ Thu, 08 Oct 2020 19:58:09: 11000000 INFO @ Thu, 08 Oct 2020 19:58:12: 5000000 INFO @ Thu, 08 Oct 2020 19:58:12: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:58:12: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:58:12: #1 total tags in treatment: 11747007 INFO @ Thu, 08 Oct 2020 19:58:12: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:58:12: #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 19:58:13: #1 tags after filtering in treatment: 11747007 INFO @ Thu, 08 Oct 2020 19:58:13: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:58:13: #1 finished! INFO @ Thu, 08 Oct 2020 19:58:13: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:58:13: #2 looking for paired plus/minus strand peaks... 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 19:58:14: #2 number of paired peaks: 5473 INFO @ Thu, 08 Oct 2020 19:58:14: start model_add_line... INFO @ Thu, 08 Oct 2020 19:58:14: start X-correlation... INFO @ Thu, 08 Oct 2020 19:58:14: end of X-cor INFO @ Thu, 08 Oct 2020 19:58:14: #2 finished! INFO @ Thu, 08 Oct 2020 19:58:14: #2 predicted fragment length is 162 bps INFO @ Thu, 08 Oct 2020 19:58:14: #2 alternative fragment length(s) may be 162 bps INFO @ Thu, 08 Oct 2020 19:58:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832092/SRX8832092.05_model.r INFO @ Thu, 08 Oct 2020 19:58:14: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:58:14: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:58:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832092/SRX8832092.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832092/SRX8832092.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832092/SRX8832092.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832092/SRX8832092.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 19:58:15: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:58:15: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:58:18: 6000000 INFO @ Thu, 08 Oct 2020 19:58:20: 1000000 INFO @ Thu, 08 Oct 2020 19:58:24: 7000000 INFO @ Thu, 08 Oct 2020 19:58:25: 2000000 INFO @ Thu, 08 Oct 2020 19:58:29: 8000000 INFO @ Thu, 08 Oct 2020 19:58:29: 3000000 INFO @ Thu, 08 Oct 2020 19:58:34: 4000000 INFO @ Thu, 08 Oct 2020 19:58:35: 9000000 INFO @ Thu, 08 Oct 2020 19:58:39: 5000000 INFO @ Thu, 08 Oct 2020 19:58:40: 10000000 INFO @ Thu, 08 Oct 2020 19:58:44: 6000000 INFO @ Thu, 08 Oct 2020 19:58:45: 11000000 INFO @ Thu, 08 Oct 2020 19:58:45: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:58:49: 7000000 INFO @ Thu, 08 Oct 2020 19:58:49: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:58:49: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:58:49: #1 total tags in treatment: 11747007 INFO @ Thu, 08 Oct 2020 19:58:49: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:58:49: #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 19:58:50: #1 tags after filtering in treatment: 11747007 INFO @ Thu, 08 Oct 2020 19:58:50: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:58:50: #1 finished! INFO @ Thu, 08 Oct 2020 19:58:50: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:58:50: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:58:51: #2 number of paired peaks: 5473 INFO @ Thu, 08 Oct 2020 19:58:51: start model_add_line... INFO @ Thu, 08 Oct 2020 19:58:51: start X-correlation... INFO @ Thu, 08 Oct 2020 19:58:51: end of X-cor INFO @ Thu, 08 Oct 2020 19:58:51: #2 finished! INFO @ Thu, 08 Oct 2020 19:58:51: #2 predicted fragment length is 162 bps INFO @ Thu, 08 Oct 2020 19:58:51: #2 alternative fragment length(s) may be 162 bps INFO @ Thu, 08 Oct 2020 19:58:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832092/SRX8832092.10_model.r INFO @ Thu, 08 Oct 2020 19:58:51: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:58:51: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:58:54: 8000000 INFO @ Thu, 08 Oct 2020 19:58:59: 9000000 INFO @ Thu, 08 Oct 2020 19:59:00: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832092/SRX8832092.05_peaks.xls INFO @ Thu, 08 Oct 2020 19:59:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832092/SRX8832092.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:59:01: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832092/SRX8832092.05_summits.bed INFO @ Thu, 08 Oct 2020 19:59:01: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (10009 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:59:04: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 19:59:08: 11000000 INFO @ Thu, 08 Oct 2020 19:59:12: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:59:12: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:59:12: #1 total tags in treatment: 11747007 INFO @ Thu, 08 Oct 2020 19:59:12: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:59:12: #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 19:59:12: #1 tags after filtering in treatment: 11747007 INFO @ Thu, 08 Oct 2020 19:59:12: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:59:12: #1 finished! INFO @ Thu, 08 Oct 2020 19:59:12: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:59:12: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:59:13: #2 number of paired peaks: 5473 INFO @ Thu, 08 Oct 2020 19:59:13: start model_add_line... INFO @ Thu, 08 Oct 2020 19:59:13: start X-correlation... INFO @ Thu, 08 Oct 2020 19:59:13: end of X-cor INFO @ Thu, 08 Oct 2020 19:59:13: #2 finished! INFO @ Thu, 08 Oct 2020 19:59:13: #2 predicted fragment length is 162 bps INFO @ Thu, 08 Oct 2020 19:59:13: #2 alternative fragment length(s) may be 162 bps INFO @ Thu, 08 Oct 2020 19:59:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832092/SRX8832092.20_model.r INFO @ Thu, 08 Oct 2020 19:59:13: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:59:13: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:59:21: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 19:59:35: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832092/SRX8832092.10_peaks.xls INFO @ Thu, 08 Oct 2020 19:59:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832092/SRX8832092.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:59:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832092/SRX8832092.10_summits.bed INFO @ Thu, 08 Oct 2020 19:59:35: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (8543 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:59:43: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:59:56: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832092/SRX8832092.20_peaks.xls INFO @ Thu, 08 Oct 2020 19:59:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832092/SRX8832092.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:59:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832092/SRX8832092.20_summits.bed INFO @ Thu, 08 Oct 2020 19:59:56: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (6889 records, 4 fields): 9 millis CompletedMACS2peakCalling