Job ID = 6497550 SRX = SRX554723 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-25T22:04:57 prefetch.2.10.7: 1) Downloading 'SRR1301071'... 2020-06-25T22:04:57 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T22:05:23 prefetch.2.10.7: HTTPS download succeed 2020-06-25T22:05:23 prefetch.2.10.7: 'SRR1301071' is valid 2020-06-25T22:05:23 prefetch.2.10.7: 1) 'SRR1301071' was downloaded successfully Read 1510696 spots for SRR1301071/SRR1301071.sra Written 1510696 spots for SRR1301071/SRR1301071.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:00:29 1510696 reads; of these: 1510696 (100.00%) were unpaired; of these: 64660 (4.28%) aligned 0 times 1036416 (68.61%) aligned exactly 1 time 409620 (27.11%) aligned >1 times 95.72% overall alignment rate Time searching: 00:00:29 Overall time: 00:00:29 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] 131360 / 1446036 = 0.0908 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 @ Fri, 26 Jun 2020 07:07:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX554723/SRX554723.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX554723/SRX554723.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX554723/SRX554723.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX554723/SRX554723.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 @ Fri, 26 Jun 2020 07:07:43: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:07:43: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:07:49: 1000000 INFO @ Fri, 26 Jun 2020 07:07:51: #1 tag size is determined as 51 bps INFO @ Fri, 26 Jun 2020 07:07:51: #1 tag size = 51 INFO @ Fri, 26 Jun 2020 07:07:51: #1 total tags in treatment: 1314676 INFO @ Fri, 26 Jun 2020 07:07:51: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:07:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 07:07:51: #1 tags after filtering in treatment: 1314676 INFO @ Fri, 26 Jun 2020 07:07:51: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:07:51: #1 finished! INFO @ Fri, 26 Jun 2020 07:07:51: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:07:51: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:07:51: #2 number of paired peaks: 3359 INFO @ Fri, 26 Jun 2020 07:07:51: start model_add_line... INFO @ Fri, 26 Jun 2020 07:07:51: start X-correlation... INFO @ Fri, 26 Jun 2020 07:07:51: end of X-cor INFO @ Fri, 26 Jun 2020 07:07:51: #2 finished! INFO @ Fri, 26 Jun 2020 07:07:51: #2 predicted fragment length is 166 bps INFO @ Fri, 26 Jun 2020 07:07:51: #2 alternative fragment length(s) may be 4,166,187 bps INFO @ Fri, 26 Jun 2020 07:07:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX554723/SRX554723.05_model.r INFO @ Fri, 26 Jun 2020 07:07:51: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:07:51: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:07:54: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:07:56: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX554723/SRX554723.05_peaks.xls INFO @ Fri, 26 Jun 2020 07:07:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX554723/SRX554723.05_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:07:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX554723/SRX554723.05_summits.bed INFO @ Fri, 26 Jun 2020 07:07:56: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (277 records, 4 fields): 2 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 @ Fri, 26 Jun 2020 07:08:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX554723/SRX554723.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX554723/SRX554723.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX554723/SRX554723.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX554723/SRX554723.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 @ Fri, 26 Jun 2020 07:08:15: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:08:15: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:08:20: 1000000 INFO @ Fri, 26 Jun 2020 07:08:22: #1 tag size is determined as 51 bps INFO @ Fri, 26 Jun 2020 07:08:22: #1 tag size = 51 INFO @ Fri, 26 Jun 2020 07:08:22: #1 total tags in treatment: 1314676 INFO @ Fri, 26 Jun 2020 07:08:22: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:08:22: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 07:08:22: #1 tags after filtering in treatment: 1314676 INFO @ Fri, 26 Jun 2020 07:08:22: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:08:22: #1 finished! INFO @ Fri, 26 Jun 2020 07:08:22: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:08:22: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:08:23: #2 number of paired peaks: 3359 INFO @ Fri, 26 Jun 2020 07:08:23: start model_add_line... INFO @ Fri, 26 Jun 2020 07:08:23: start X-correlation... INFO @ Fri, 26 Jun 2020 07:08:23: end of X-cor INFO @ Fri, 26 Jun 2020 07:08:23: #2 finished! INFO @ Fri, 26 Jun 2020 07:08:23: #2 predicted fragment length is 166 bps INFO @ Fri, 26 Jun 2020 07:08:23: #2 alternative fragment length(s) may be 4,166,187 bps INFO @ Fri, 26 Jun 2020 07:08:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX554723/SRX554723.10_model.r BedGraph に変換中... INFO @ Fri, 26 Jun 2020 07:08:59: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:08:59: #3 Pre-compute pvalue-qvalue table... 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 @ Fri, 26 Jun 2020 07:09:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX554723/SRX554723.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX554723/SRX554723.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX554723/SRX554723.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX554723/SRX554723.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 @ Fri, 26 Jun 2020 07:09:02: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:09:02: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:09:03: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:09:05: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX554723/SRX554723.10_peaks.xls INFO @ Fri, 26 Jun 2020 07:09:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX554723/SRX554723.10_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:09:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX554723/SRX554723.10_summits.bed INFO @ Fri, 26 Jun 2020 07:09:05: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (150 records, 4 fields): 1 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 07:09:10: 1000000 BigWig に変換しました。 INFO @ Fri, 26 Jun 2020 07:09:12: #1 tag size is determined as 51 bps INFO @ Fri, 26 Jun 2020 07:09:12: #1 tag size = 51 INFO @ Fri, 26 Jun 2020 07:09:12: #1 total tags in treatment: 1314676 INFO @ Fri, 26 Jun 2020 07:09:12: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:09:12: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 07:09:12: #1 tags after filtering in treatment: 1314676 INFO @ Fri, 26 Jun 2020 07:09:12: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:09:12: #1 finished! INFO @ Fri, 26 Jun 2020 07:09:12: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:09:12: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:09:12: #2 number of paired peaks: 3359 INFO @ Fri, 26 Jun 2020 07:09:12: start model_add_line... INFO @ Fri, 26 Jun 2020 07:09:12: start X-correlation... INFO @ Fri, 26 Jun 2020 07:09:12: end of X-cor INFO @ Fri, 26 Jun 2020 07:09:12: #2 finished! INFO @ Fri, 26 Jun 2020 07:09:12: #2 predicted fragment length is 166 bps INFO @ Fri, 26 Jun 2020 07:09:12: #2 alternative fragment length(s) may be 4,166,187 bps INFO @ Fri, 26 Jun 2020 07:09:12: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX554723/SRX554723.20_model.r INFO @ Fri, 26 Jun 2020 07:09:35: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:09:35: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:09:39: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:09:40: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX554723/SRX554723.20_peaks.xls INFO @ Fri, 26 Jun 2020 07:09:40: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX554723/SRX554723.20_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:09:40: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX554723/SRX554723.20_summits.bed INFO @ Fri, 26 Jun 2020 07:09:40: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (71 records, 4 fields): 1 millis CompletedMACS2peakCalling