Job ID = 6508548 SRX = SRX326971 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-26T14:16:11 prefetch.2.10.7: 1) Downloading 'SRR942044'... 2020-06-26T14:16:11 prefetch.2.10.7: Downloading via HTTPS... 2020-06-26T14:18:04 prefetch.2.10.7: HTTPS download succeed 2020-06-26T14:18:04 prefetch.2.10.7: 1) 'SRR942044' was downloaded successfully Read 12682484 spots for SRR942044/SRR942044.sra Written 12682484 spots for SRR942044/SRR942044.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: 00:04:04 12682484 reads; of these: 12682484 (100.00%) were unpaired; of these: 475157 (3.75%) aligned 0 times 8527235 (67.24%) aligned exactly 1 time 3680092 (29.02%) aligned >1 times 96.25% overall alignment rate Time searching: 00:04:05 Overall time: 00:04:05 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 1909459 / 12207327 = 0.1564 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 23:26:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX326971/SRX326971.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX326971/SRX326971.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX326971/SRX326971.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX326971/SRX326971.bam'] # control file = None # effective genome size = 1.20e+08 # 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 23:26:46: #1 read tag files... INFO @ Fri, 26 Jun 2020 23:26:46: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 23:26:56: 1000000 INFO @ Fri, 26 Jun 2020 23:27:05: 2000000 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 23:27:14: 3000000 INFO @ Fri, 26 Jun 2020 23:27:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX326971/SRX326971.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX326971/SRX326971.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX326971/SRX326971.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX326971/SRX326971.bam'] # control file = None # effective genome size = 1.20e+08 # 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 23:27:16: #1 read tag files... INFO @ Fri, 26 Jun 2020 23:27:16: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 23:27:23: 4000000 INFO @ Fri, 26 Jun 2020 23:27:23: 1000000 INFO @ Fri, 26 Jun 2020 23:27:30: 2000000 INFO @ Fri, 26 Jun 2020 23:27:32: 5000000 INFO @ Fri, 26 Jun 2020 23:27:36: 3000000 INFO @ Fri, 26 Jun 2020 23:27:41: 6000000 INFO @ Fri, 26 Jun 2020 23:27:43: 4000000 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 23:27:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX326971/SRX326971.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX326971/SRX326971.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX326971/SRX326971.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX326971/SRX326971.bam'] # control file = None # effective genome size = 1.20e+08 # 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 23:27:46: #1 read tag files... INFO @ Fri, 26 Jun 2020 23:27:46: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 23:27:49: 7000000 INFO @ Fri, 26 Jun 2020 23:27:50: 5000000 INFO @ Fri, 26 Jun 2020 23:27:55: 1000000 INFO @ Fri, 26 Jun 2020 23:27:57: 6000000 INFO @ Fri, 26 Jun 2020 23:27:58: 8000000 INFO @ Fri, 26 Jun 2020 23:28:03: 2000000 INFO @ Fri, 26 Jun 2020 23:28:03: 7000000 INFO @ Fri, 26 Jun 2020 23:28:07: 9000000 INFO @ Fri, 26 Jun 2020 23:28:10: 8000000 INFO @ Fri, 26 Jun 2020 23:28:11: 3000000 INFO @ Fri, 26 Jun 2020 23:28:15: 10000000 INFO @ Fri, 26 Jun 2020 23:28:17: #1 tag size is determined as 49 bps INFO @ Fri, 26 Jun 2020 23:28:17: #1 tag size = 49 INFO @ Fri, 26 Jun 2020 23:28:17: #1 total tags in treatment: 10297868 INFO @ Fri, 26 Jun 2020 23:28:17: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 23:28:17: #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 23:28:17: 9000000 INFO @ Fri, 26 Jun 2020 23:28:18: #1 tags after filtering in treatment: 10297756 INFO @ Fri, 26 Jun 2020 23:28:18: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 23:28:18: #1 finished! INFO @ Fri, 26 Jun 2020 23:28:18: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 23:28:18: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 23:28:18: 4000000 INFO @ Fri, 26 Jun 2020 23:28:19: #2 number of paired peaks: 2633 INFO @ Fri, 26 Jun 2020 23:28:19: start model_add_line... INFO @ Fri, 26 Jun 2020 23:28:19: start X-correlation... INFO @ Fri, 26 Jun 2020 23:28:19: end of X-cor INFO @ Fri, 26 Jun 2020 23:28:19: #2 finished! INFO @ Fri, 26 Jun 2020 23:28:19: #2 predicted fragment length is 190 bps INFO @ Fri, 26 Jun 2020 23:28:19: #2 alternative fragment length(s) may be 190 bps INFO @ Fri, 26 Jun 2020 23:28:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX326971/SRX326971.05_model.r INFO @ Fri, 26 Jun 2020 23:28:19: #3 Call peaks... INFO @ Fri, 26 Jun 2020 23:28:19: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 23:28:24: 10000000 INFO @ Fri, 26 Jun 2020 23:28:25: 5000000 INFO @ Fri, 26 Jun 2020 23:28:26: #1 tag size is determined as 49 bps INFO @ Fri, 26 Jun 2020 23:28:26: #1 tag size = 49 INFO @ Fri, 26 Jun 2020 23:28:26: #1 total tags in treatment: 10297868 INFO @ Fri, 26 Jun 2020 23:28:26: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 23:28:26: #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 23:28:27: #1 tags after filtering in treatment: 10297756 INFO @ Fri, 26 Jun 2020 23:28:27: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 23:28:27: #1 finished! INFO @ Fri, 26 Jun 2020 23:28:27: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 23:28:27: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 23:28:28: #2 number of paired peaks: 2633 INFO @ Fri, 26 Jun 2020 23:28:28: start model_add_line... INFO @ Fri, 26 Jun 2020 23:28:28: start X-correlation... INFO @ Fri, 26 Jun 2020 23:28:28: end of X-cor INFO @ Fri, 26 Jun 2020 23:28:28: #2 finished! INFO @ Fri, 26 Jun 2020 23:28:28: #2 predicted fragment length is 190 bps INFO @ Fri, 26 Jun 2020 23:28:28: #2 alternative fragment length(s) may be 190 bps INFO @ Fri, 26 Jun 2020 23:28:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX326971/SRX326971.10_model.r INFO @ Fri, 26 Jun 2020 23:28:28: #3 Call peaks... INFO @ Fri, 26 Jun 2020 23:28:28: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 23:28:32: 6000000 INFO @ Fri, 26 Jun 2020 23:28:39: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 23:28:45: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 23:28:46: 8000000 INFO @ Fri, 26 Jun 2020 23:28:55: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 23:28:55: 9000000 INFO @ Fri, 26 Jun 2020 23:28:57: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX326971/SRX326971.05_peaks.xls INFO @ Fri, 26 Jun 2020 23:28:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX326971/SRX326971.05_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 23:28:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX326971/SRX326971.05_summits.bed INFO @ Fri, 26 Jun 2020 23:28:57: Done! pass1 - making usageList (571 chroms): 2 millis pass2 - checking and writing primary data (6370 records, 4 fields): 37 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 23:29:03: 10000000 INFO @ Fri, 26 Jun 2020 23:29:05: #1 tag size is determined as 49 bps INFO @ Fri, 26 Jun 2020 23:29:05: #1 tag size = 49 INFO @ Fri, 26 Jun 2020 23:29:05: #1 total tags in treatment: 10297868 INFO @ Fri, 26 Jun 2020 23:29:05: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 23:29:05: #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 23:29:06: #1 tags after filtering in treatment: 10297756 INFO @ Fri, 26 Jun 2020 23:29:06: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 23:29:06: #1 finished! INFO @ Fri, 26 Jun 2020 23:29:06: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 23:29:06: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 23:29:06: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX326971/SRX326971.10_peaks.xls INFO @ Fri, 26 Jun 2020 23:29:06: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX326971/SRX326971.10_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 23:29:06: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX326971/SRX326971.10_summits.bed INFO @ Fri, 26 Jun 2020 23:29:06: Done! pass1 - making usageList (513 chroms): 1 millis pass2 - checking and writing primary data (4558 records, 4 fields): 33 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 23:29:07: #2 number of paired peaks: 2633 INFO @ Fri, 26 Jun 2020 23:29:07: start model_add_line... INFO @ Fri, 26 Jun 2020 23:29:07: start X-correlation... INFO @ Fri, 26 Jun 2020 23:29:07: end of X-cor INFO @ Fri, 26 Jun 2020 23:29:07: #2 finished! INFO @ Fri, 26 Jun 2020 23:29:07: #2 predicted fragment length is 190 bps INFO @ Fri, 26 Jun 2020 23:29:07: #2 alternative fragment length(s) may be 190 bps INFO @ Fri, 26 Jun 2020 23:29:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX326971/SRX326971.20_model.r INFO @ Fri, 26 Jun 2020 23:29:07: #3 Call peaks... INFO @ Fri, 26 Jun 2020 23:29:07: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 26 Jun 2020 23:29:33: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 23:29:46: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX326971/SRX326971.20_peaks.xls INFO @ Fri, 26 Jun 2020 23:29:46: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX326971/SRX326971.20_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 23:29:46: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX326971/SRX326971.20_summits.bed INFO @ Fri, 26 Jun 2020 23:29:46: Done! pass1 - making usageList (426 chroms): 1 millis pass2 - checking and writing primary data (3083 records, 4 fields): 27 millis CompletedMACS2peakCalling