Job ID = 6497479 SRX = SRX494980 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-25T22:47:58 prefetch.2.10.7: 1) Downloading 'SRR1198512'... 2020-06-25T22:47:58 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T22:49:25 prefetch.2.10.7: HTTPS download succeed 2020-06-25T22:49:25 prefetch.2.10.7: 'SRR1198512' is valid 2020-06-25T22:49:25 prefetch.2.10.7: 1) 'SRR1198512' was downloaded successfully Read 12751112 spots for SRR1198512/SRR1198512.sra Written 12751112 spots for SRR1198512/SRR1198512.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: 00:01:44 12751112 reads; of these: 12751112 (100.00%) were unpaired; of these: 3695859 (28.98%) aligned 0 times 6568854 (51.52%) aligned exactly 1 time 2486399 (19.50%) aligned >1 times 71.02% overall alignment rate Time searching: 00:01:44 Overall time: 00:01:44 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] 1530548 / 9055253 = 0.1690 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 07:54:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX494980/SRX494980.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX494980/SRX494980.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX494980/SRX494980.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX494980/SRX494980.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 07:54:01: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:54:01: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:54:06: 1000000 INFO @ Fri, 26 Jun 2020 07:54:11: 2000000 INFO @ Fri, 26 Jun 2020 07:54:15: 3000000 INFO @ Fri, 26 Jun 2020 07:54:19: 4000000 INFO @ Fri, 26 Jun 2020 07:54:24: 5000000 INFO @ Fri, 26 Jun 2020 07:54:29: 6000000 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 07:54:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX494980/SRX494980.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX494980/SRX494980.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX494980/SRX494980.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX494980/SRX494980.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 07:54:31: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:54:31: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:54:33: 7000000 INFO @ Fri, 26 Jun 2020 07:54:36: #1 tag size is determined as 28 bps INFO @ Fri, 26 Jun 2020 07:54:36: #1 tag size = 28 INFO @ Fri, 26 Jun 2020 07:54:36: #1 total tags in treatment: 7524705 INFO @ Fri, 26 Jun 2020 07:54:36: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:54:36: #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 07:54:36: #1 tags after filtering in treatment: 7524705 INFO @ Fri, 26 Jun 2020 07:54:36: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:54:36: #1 finished! INFO @ Fri, 26 Jun 2020 07:54:36: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:54:36: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:54:36: 1000000 INFO @ Fri, 26 Jun 2020 07:54:36: #2 number of paired peaks: 1700 INFO @ Fri, 26 Jun 2020 07:54:36: start model_add_line... INFO @ Fri, 26 Jun 2020 07:54:37: start X-correlation... INFO @ Fri, 26 Jun 2020 07:54:37: end of X-cor INFO @ Fri, 26 Jun 2020 07:54:37: #2 finished! INFO @ Fri, 26 Jun 2020 07:54:37: #2 predicted fragment length is 160 bps INFO @ Fri, 26 Jun 2020 07:54:37: #2 alternative fragment length(s) may be 2,139,160 bps INFO @ Fri, 26 Jun 2020 07:54:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX494980/SRX494980.05_model.r INFO @ Fri, 26 Jun 2020 07:54:37: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:54:37: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:54:41: 2000000 INFO @ Fri, 26 Jun 2020 07:54:45: 3000000 INFO @ Fri, 26 Jun 2020 07:54:50: 4000000 INFO @ Fri, 26 Jun 2020 07:54:55: 5000000 INFO @ Fri, 26 Jun 2020 07:54:57: #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 @ Fri, 26 Jun 2020 07:55:00: 6000000 INFO @ Fri, 26 Jun 2020 07:55:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX494980/SRX494980.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX494980/SRX494980.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX494980/SRX494980.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX494980/SRX494980.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 07:55:02: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:55:02: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:55:04: 7000000 INFO @ Fri, 26 Jun 2020 07:55:07: 1000000 INFO @ Fri, 26 Jun 2020 07:55:07: #1 tag size is determined as 28 bps INFO @ Fri, 26 Jun 2020 07:55:07: #1 tag size = 28 INFO @ Fri, 26 Jun 2020 07:55:07: #1 total tags in treatment: 7524705 INFO @ Fri, 26 Jun 2020 07:55:07: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:55:07: #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 07:55:07: #1 tags after filtering in treatment: 7524705 INFO @ Fri, 26 Jun 2020 07:55:07: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:55:07: #1 finished! INFO @ Fri, 26 Jun 2020 07:55:07: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:55:07: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:55:07: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX494980/SRX494980.05_peaks.xls INFO @ Fri, 26 Jun 2020 07:55:07: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX494980/SRX494980.05_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:55:07: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX494980/SRX494980.05_summits.bed INFO @ Fri, 26 Jun 2020 07:55:07: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (2259 records, 4 fields): 3 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 07:55:08: #2 number of paired peaks: 1700 INFO @ Fri, 26 Jun 2020 07:55:08: start model_add_line... INFO @ Fri, 26 Jun 2020 07:55:08: start X-correlation... INFO @ Fri, 26 Jun 2020 07:55:08: end of X-cor INFO @ Fri, 26 Jun 2020 07:55:08: #2 finished! INFO @ Fri, 26 Jun 2020 07:55:08: #2 predicted fragment length is 160 bps INFO @ Fri, 26 Jun 2020 07:55:08: #2 alternative fragment length(s) may be 2,139,160 bps INFO @ Fri, 26 Jun 2020 07:55:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX494980/SRX494980.10_model.r INFO @ Fri, 26 Jun 2020 07:55:08: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:55:08: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:55:12: 2000000 INFO @ Fri, 26 Jun 2020 07:55:16: 3000000 INFO @ Fri, 26 Jun 2020 07:55:21: 4000000 INFO @ Fri, 26 Jun 2020 07:55:26: 5000000 INFO @ Fri, 26 Jun 2020 07:55:29: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:55:31: 6000000 INFO @ Fri, 26 Jun 2020 07:55:36: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 07:55:38: #1 tag size is determined as 28 bps INFO @ Fri, 26 Jun 2020 07:55:38: #1 tag size = 28 INFO @ Fri, 26 Jun 2020 07:55:38: #1 total tags in treatment: 7524705 INFO @ Fri, 26 Jun 2020 07:55:38: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:55:38: #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 07:55:38: #1 tags after filtering in treatment: 7524705 INFO @ Fri, 26 Jun 2020 07:55:38: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:55:38: #1 finished! INFO @ Fri, 26 Jun 2020 07:55:38: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:55:38: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:55:39: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX494980/SRX494980.10_peaks.xls INFO @ Fri, 26 Jun 2020 07:55:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX494980/SRX494980.10_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:55:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX494980/SRX494980.10_summits.bed INFO @ Fri, 26 Jun 2020 07:55:39: Done! INFO @ Fri, 26 Jun 2020 07:55:39: #2 number of paired peaks: 1700 INFO @ Fri, 26 Jun 2020 07:55:39: start model_add_line... pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (760 records, 4 fields): 2 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 07:55:39: start X-correlation... INFO @ Fri, 26 Jun 2020 07:55:39: end of X-cor INFO @ Fri, 26 Jun 2020 07:55:39: #2 finished! INFO @ Fri, 26 Jun 2020 07:55:39: #2 predicted fragment length is 160 bps INFO @ Fri, 26 Jun 2020 07:55:39: #2 alternative fragment length(s) may be 2,139,160 bps INFO @ Fri, 26 Jun 2020 07:55:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX494980/SRX494980.20_model.r INFO @ Fri, 26 Jun 2020 07:55:39: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:55:39: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 26 Jun 2020 07:56:00: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:56:10: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX494980/SRX494980.20_peaks.xls INFO @ Fri, 26 Jun 2020 07:56:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX494980/SRX494980.20_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:56:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX494980/SRX494980.20_summits.bed INFO @ Fri, 26 Jun 2020 07:56:10: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (227 records, 4 fields): 2 millis CompletedMACS2peakCalling