Job ID = 6497443 SRX = SRX494941 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-25T22:40:19 prefetch.2.10.7: 1) Downloading 'SRR1198473'... 2020-06-25T22:40:19 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T22:43:12 prefetch.2.10.7: HTTPS download succeed 2020-06-25T22:43:12 prefetch.2.10.7: 1) 'SRR1198473' was downloaded successfully Read 26509773 spots for SRR1198473/SRR1198473.sra Written 26509773 spots for SRR1198473/SRR1198473.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: 00:06:06 26509773 reads; of these: 26509773 (100.00%) were unpaired; of these: 1788129 (6.75%) aligned 0 times 21792758 (82.21%) aligned exactly 1 time 2928886 (11.05%) aligned >1 times 93.25% overall alignment rate Time searching: 00:06:06 Overall time: 00:06:06 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] 13329837 / 24721644 = 0.5392 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 07:56:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX494941/SRX494941.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX494941/SRX494941.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX494941/SRX494941.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX494941/SRX494941.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 07:56:13: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:56:13: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:56:19: 1000000 INFO @ Fri, 26 Jun 2020 07:56:24: 2000000 INFO @ Fri, 26 Jun 2020 07:56:29: 3000000 INFO @ Fri, 26 Jun 2020 07:56:35: 4000000 INFO @ Fri, 26 Jun 2020 07:56:40: 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 @ Fri, 26 Jun 2020 07:56:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX494941/SRX494941.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX494941/SRX494941.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX494941/SRX494941.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX494941/SRX494941.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 07:56:43: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:56:43: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:56:45: 6000000 INFO @ Fri, 26 Jun 2020 07:56:49: 1000000 INFO @ Fri, 26 Jun 2020 07:56:51: 7000000 INFO @ Fri, 26 Jun 2020 07:56:55: 2000000 INFO @ Fri, 26 Jun 2020 07:56:57: 8000000 INFO @ Fri, 26 Jun 2020 07:57:01: 3000000 INFO @ Fri, 26 Jun 2020 07:57:02: 9000000 INFO @ Fri, 26 Jun 2020 07:57:06: 4000000 INFO @ Fri, 26 Jun 2020 07:57:08: 10000000 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 07:57:12: 5000000 INFO @ Fri, 26 Jun 2020 07:57:13: 11000000 INFO @ Fri, 26 Jun 2020 07:57:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX494941/SRX494941.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX494941/SRX494941.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX494941/SRX494941.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX494941/SRX494941.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 07:57:14: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:57:14: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:57:16: #1 tag size is determined as 50 bps INFO @ Fri, 26 Jun 2020 07:57:16: #1 tag size = 50 INFO @ Fri, 26 Jun 2020 07:57:16: #1 total tags in treatment: 11391807 INFO @ Fri, 26 Jun 2020 07:57:16: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:57:16: #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 07:57:16: #1 tags after filtering in treatment: 11391807 INFO @ Fri, 26 Jun 2020 07:57:16: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:57:16: #1 finished! INFO @ Fri, 26 Jun 2020 07:57:16: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:57:16: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:57:17: #2 number of paired peaks: 3380 INFO @ Fri, 26 Jun 2020 07:57:17: start model_add_line... INFO @ Fri, 26 Jun 2020 07:57:17: start X-correlation... INFO @ Fri, 26 Jun 2020 07:57:17: end of X-cor INFO @ Fri, 26 Jun 2020 07:57:17: #2 finished! INFO @ Fri, 26 Jun 2020 07:57:17: #2 predicted fragment length is 186 bps INFO @ Fri, 26 Jun 2020 07:57:17: #2 alternative fragment length(s) may be 186 bps INFO @ Fri, 26 Jun 2020 07:57:17: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX494941/SRX494941.05_model.r INFO @ Fri, 26 Jun 2020 07:57:17: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:57:17: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:57:18: 6000000 INFO @ Fri, 26 Jun 2020 07:57:20: 1000000 INFO @ Fri, 26 Jun 2020 07:57:23: 7000000 INFO @ Fri, 26 Jun 2020 07:57:27: 2000000 INFO @ Fri, 26 Jun 2020 07:57:29: 8000000 INFO @ Fri, 26 Jun 2020 07:57:33: 3000000 INFO @ Fri, 26 Jun 2020 07:57:35: 9000000 INFO @ Fri, 26 Jun 2020 07:57:39: 4000000 INFO @ Fri, 26 Jun 2020 07:57:41: 10000000 INFO @ Fri, 26 Jun 2020 07:57:46: 5000000 INFO @ Fri, 26 Jun 2020 07:57:47: 11000000 INFO @ Fri, 26 Jun 2020 07:57:49: #1 tag size is determined as 50 bps INFO @ Fri, 26 Jun 2020 07:57:49: #1 tag size = 50 INFO @ Fri, 26 Jun 2020 07:57:49: #1 total tags in treatment: 11391807 INFO @ Fri, 26 Jun 2020 07:57:49: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:57:49: #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 07:57:49: #1 tags after filtering in treatment: 11391807 INFO @ Fri, 26 Jun 2020 07:57:49: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:57:49: #1 finished! INFO @ Fri, 26 Jun 2020 07:57:49: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:57:49: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:57:50: #2 number of paired peaks: 3380 INFO @ Fri, 26 Jun 2020 07:57:50: start model_add_line... INFO @ Fri, 26 Jun 2020 07:57:50: start X-correlation... INFO @ Fri, 26 Jun 2020 07:57:50: end of X-cor INFO @ Fri, 26 Jun 2020 07:57:50: #2 finished! INFO @ Fri, 26 Jun 2020 07:57:50: #2 predicted fragment length is 186 bps INFO @ Fri, 26 Jun 2020 07:57:50: #2 alternative fragment length(s) may be 186 bps INFO @ Fri, 26 Jun 2020 07:57:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX494941/SRX494941.10_model.r INFO @ Fri, 26 Jun 2020 07:57:50: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:57:50: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:57:51: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:57:52: 6000000 INFO @ Fri, 26 Jun 2020 07:57:58: 7000000 INFO @ Fri, 26 Jun 2020 07:58:04: 8000000 INFO @ Fri, 26 Jun 2020 07:58:06: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX494941/SRX494941.05_peaks.xls INFO @ Fri, 26 Jun 2020 07:58:06: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX494941/SRX494941.05_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:58:06: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX494941/SRX494941.05_summits.bed INFO @ Fri, 26 Jun 2020 07:58:06: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (10538 records, 4 fields): 12 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 07:58:11: 9000000 INFO @ Fri, 26 Jun 2020 07:58:17: 10000000 INFO @ Fri, 26 Jun 2020 07:58:23: 11000000 INFO @ Fri, 26 Jun 2020 07:58:24: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:58:26: #1 tag size is determined as 50 bps INFO @ Fri, 26 Jun 2020 07:58:26: #1 tag size = 50 INFO @ Fri, 26 Jun 2020 07:58:26: #1 total tags in treatment: 11391807 INFO @ Fri, 26 Jun 2020 07:58:26: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:58:26: #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 07:58:26: #1 tags after filtering in treatment: 11391807 INFO @ Fri, 26 Jun 2020 07:58:26: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:58:26: #1 finished! INFO @ Fri, 26 Jun 2020 07:58:26: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:58:26: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:58:27: #2 number of paired peaks: 3380 INFO @ Fri, 26 Jun 2020 07:58:27: start model_add_line... INFO @ Fri, 26 Jun 2020 07:58:27: start X-correlation... INFO @ Fri, 26 Jun 2020 07:58:27: end of X-cor INFO @ Fri, 26 Jun 2020 07:58:27: #2 finished! INFO @ Fri, 26 Jun 2020 07:58:27: #2 predicted fragment length is 186 bps INFO @ Fri, 26 Jun 2020 07:58:27: #2 alternative fragment length(s) may be 186 bps INFO @ Fri, 26 Jun 2020 07:58:27: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX494941/SRX494941.20_model.r INFO @ Fri, 26 Jun 2020 07:58:27: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:58:27: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 26 Jun 2020 07:58:38: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX494941/SRX494941.10_peaks.xls INFO @ Fri, 26 Jun 2020 07:58:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX494941/SRX494941.10_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:58:38: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX494941/SRX494941.10_summits.bed INFO @ Fri, 26 Jun 2020 07:58:38: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (7485 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 07:59:01: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:59:16: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX494941/SRX494941.20_peaks.xls INFO @ Fri, 26 Jun 2020 07:59:16: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX494941/SRX494941.20_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:59:16: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX494941/SRX494941.20_summits.bed INFO @ Fri, 26 Jun 2020 07:59:16: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (4458 records, 4 fields): 6 millis CompletedMACS2peakCalling