Job ID = 14519576 SRX = SRX9963495 Genome = rn6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 36117248 spots for SRR13565209/SRR13565209.sra Written 36117248 spots for SRR13565209/SRR13565209.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:01 Time loading forward index: 00:00:02 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:49:42 36117248 reads; of these: 36117248 (100.00%) were unpaired; of these: 3331133 (9.22%) aligned 0 times 28796894 (79.73%) aligned exactly 1 time 3989221 (11.05%) aligned >1 times 90.78% overall alignment rate Time searching: 00:49:45 Overall time: 00:49:45 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 953 sequences. [bam_sort_core] merging from 16 files... [bam_rmdupse_core] 4886257 / 32786115 = 0.1490 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 17:17:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX9963495/SRX9963495.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX9963495/SRX9963495.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX9963495/SRX9963495.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX9963495/SRX9963495.bam'] # control file = None # effective genome size = 2.15e+09 # 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 @ Sat, 15 Jan 2022 17:17:10: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:17:10: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:17:16: 1000000 INFO @ Sat, 15 Jan 2022 17:17:22: 2000000 INFO @ Sat, 15 Jan 2022 17:17:28: 3000000 INFO @ Sat, 15 Jan 2022 17:17:34: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 17:17:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX9963495/SRX9963495.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX9963495/SRX9963495.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX9963495/SRX9963495.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX9963495/SRX9963495.bam'] # control file = None # effective genome size = 2.15e+09 # 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 @ Sat, 15 Jan 2022 17:17:39: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:17:39: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:17:41: 5000000 INFO @ Sat, 15 Jan 2022 17:17:47: 1000000 INFO @ Sat, 15 Jan 2022 17:17:47: 6000000 INFO @ Sat, 15 Jan 2022 17:17:54: 2000000 INFO @ Sat, 15 Jan 2022 17:17:54: 7000000 INFO @ Sat, 15 Jan 2022 17:18:01: 8000000 INFO @ Sat, 15 Jan 2022 17:18:02: 3000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 17:18:08: 9000000 INFO @ Sat, 15 Jan 2022 17:18:09: 4000000 INFO @ Sat, 15 Jan 2022 17:18:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX9963495/SRX9963495.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX9963495/SRX9963495.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX9963495/SRX9963495.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX9963495/SRX9963495.bam'] # control file = None # effective genome size = 2.15e+09 # 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 @ Sat, 15 Jan 2022 17:18:09: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:18:09: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:18:16: 10000000 INFO @ Sat, 15 Jan 2022 17:18:16: 5000000 INFO @ Sat, 15 Jan 2022 17:18:17: 1000000 INFO @ Sat, 15 Jan 2022 17:18:23: 11000000 INFO @ Sat, 15 Jan 2022 17:18:24: 6000000 INFO @ Sat, 15 Jan 2022 17:18:25: 2000000 INFO @ Sat, 15 Jan 2022 17:18:31: 12000000 INFO @ Sat, 15 Jan 2022 17:18:31: 7000000 INFO @ Sat, 15 Jan 2022 17:18:32: 3000000 INFO @ Sat, 15 Jan 2022 17:18:38: 13000000 INFO @ Sat, 15 Jan 2022 17:18:39: 8000000 INFO @ Sat, 15 Jan 2022 17:18:39: 4000000 INFO @ Sat, 15 Jan 2022 17:18:45: 14000000 INFO @ Sat, 15 Jan 2022 17:18:46: 9000000 INFO @ Sat, 15 Jan 2022 17:18:47: 5000000 INFO @ Sat, 15 Jan 2022 17:18:53: 15000000 INFO @ Sat, 15 Jan 2022 17:18:53: 10000000 INFO @ Sat, 15 Jan 2022 17:18:54: 6000000 INFO @ Sat, 15 Jan 2022 17:19:00: 16000000 INFO @ Sat, 15 Jan 2022 17:19:00: 11000000 INFO @ Sat, 15 Jan 2022 17:19:02: 7000000 INFO @ Sat, 15 Jan 2022 17:19:07: 17000000 INFO @ Sat, 15 Jan 2022 17:19:07: 12000000 INFO @ Sat, 15 Jan 2022 17:19:09: 8000000 INFO @ Sat, 15 Jan 2022 17:19:14: 18000000 INFO @ Sat, 15 Jan 2022 17:19:14: 13000000 INFO @ Sat, 15 Jan 2022 17:19:16: 9000000 INFO @ Sat, 15 Jan 2022 17:19:21: 19000000 INFO @ Sat, 15 Jan 2022 17:19:21: 14000000 INFO @ Sat, 15 Jan 2022 17:19:23: 10000000 INFO @ Sat, 15 Jan 2022 17:19:28: 20000000 INFO @ Sat, 15 Jan 2022 17:19:28: 15000000 INFO @ Sat, 15 Jan 2022 17:19:30: 11000000 INFO @ Sat, 15 Jan 2022 17:19:35: 21000000 INFO @ Sat, 15 Jan 2022 17:19:35: 16000000 INFO @ Sat, 15 Jan 2022 17:19:37: 12000000 INFO @ Sat, 15 Jan 2022 17:19:42: 17000000 INFO @ Sat, 15 Jan 2022 17:19:42: 22000000 INFO @ Sat, 15 Jan 2022 17:19:44: 13000000 INFO @ Sat, 15 Jan 2022 17:19:49: 18000000 INFO @ Sat, 15 Jan 2022 17:19:49: 23000000 INFO @ Sat, 15 Jan 2022 17:19:51: 14000000 INFO @ Sat, 15 Jan 2022 17:19:56: 19000000 INFO @ Sat, 15 Jan 2022 17:19:56: 24000000 INFO @ Sat, 15 Jan 2022 17:19:58: 15000000 INFO @ Sat, 15 Jan 2022 17:20:03: 20000000 INFO @ Sat, 15 Jan 2022 17:20:04: 25000000 INFO @ Sat, 15 Jan 2022 17:20:05: 16000000 INFO @ Sat, 15 Jan 2022 17:20:10: 21000000 INFO @ Sat, 15 Jan 2022 17:20:11: 26000000 INFO @ Sat, 15 Jan 2022 17:20:13: 17000000 INFO @ Sat, 15 Jan 2022 17:20:17: 22000000 INFO @ Sat, 15 Jan 2022 17:20:19: 27000000 INFO @ Sat, 15 Jan 2022 17:20:20: 18000000 INFO @ Sat, 15 Jan 2022 17:20:24: 23000000 INFO @ Sat, 15 Jan 2022 17:20:27: 19000000 INFO @ Sat, 15 Jan 2022 17:20:29: #1 tag size is determined as 76 bps INFO @ Sat, 15 Jan 2022 17:20:29: #1 tag size = 76 INFO @ Sat, 15 Jan 2022 17:20:29: #1 total tags in treatment: 27899858 INFO @ Sat, 15 Jan 2022 17:20:29: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:20:29: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 17:20:29: #1 tags after filtering in treatment: 27899681 INFO @ Sat, 15 Jan 2022 17:20:29: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 17:20:29: #1 finished! INFO @ Sat, 15 Jan 2022 17:20:29: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:20:29: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:20:31: 24000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 17:20:34: #2 number of paired peaks: 83564 INFO @ Sat, 15 Jan 2022 17:20:34: start model_add_line... INFO @ Sat, 15 Jan 2022 17:20:34: 20000000 INFO @ Sat, 15 Jan 2022 17:20:34: start X-correlation... INFO @ Sat, 15 Jan 2022 17:20:34: end of X-cor INFO @ Sat, 15 Jan 2022 17:20:34: #2 finished! INFO @ Sat, 15 Jan 2022 17:20:34: #2 predicted fragment length is 210 bps INFO @ Sat, 15 Jan 2022 17:20:34: #2 alternative fragment length(s) may be 210 bps INFO @ Sat, 15 Jan 2022 17:20:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX9963495/SRX9963495.05_model.r INFO @ Sat, 15 Jan 2022 17:20:34: #3 Call peaks... INFO @ Sat, 15 Jan 2022 17:20:34: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 17:20:39: 25000000 INFO @ Sat, 15 Jan 2022 17:20:41: 21000000 INFO @ Sat, 15 Jan 2022 17:20:46: 26000000 INFO @ Sat, 15 Jan 2022 17:20:48: 22000000 INFO @ Sat, 15 Jan 2022 17:20:53: 27000000 INFO @ Sat, 15 Jan 2022 17:20:56: 23000000 INFO @ Sat, 15 Jan 2022 17:21:00: #1 tag size is determined as 76 bps INFO @ Sat, 15 Jan 2022 17:21:00: #1 tag size = 76 INFO @ Sat, 15 Jan 2022 17:21:00: #1 total tags in treatment: 27899858 INFO @ Sat, 15 Jan 2022 17:21:00: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:21:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 17:21:00: #1 tags after filtering in treatment: 27899681 INFO @ Sat, 15 Jan 2022 17:21:00: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 17:21:00: #1 finished! INFO @ Sat, 15 Jan 2022 17:21:00: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:21:00: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:21:02: 24000000 INFO @ Sat, 15 Jan 2022 17:21:05: #2 number of paired peaks: 83564 INFO @ Sat, 15 Jan 2022 17:21:05: start model_add_line... INFO @ Sat, 15 Jan 2022 17:21:05: start X-correlation... INFO @ Sat, 15 Jan 2022 17:21:05: end of X-cor INFO @ Sat, 15 Jan 2022 17:21:05: #2 finished! INFO @ Sat, 15 Jan 2022 17:21:05: #2 predicted fragment length is 210 bps INFO @ Sat, 15 Jan 2022 17:21:05: #2 alternative fragment length(s) may be 210 bps INFO @ Sat, 15 Jan 2022 17:21:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX9963495/SRX9963495.10_model.r INFO @ Sat, 15 Jan 2022 17:21:05: #3 Call peaks... INFO @ Sat, 15 Jan 2022 17:21:05: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 17:21:09: 25000000 INFO @ Sat, 15 Jan 2022 17:21:17: 26000000 INFO @ Sat, 15 Jan 2022 17:21:23: 27000000 INFO @ Sat, 15 Jan 2022 17:21:29: #1 tag size is determined as 76 bps INFO @ Sat, 15 Jan 2022 17:21:29: #1 tag size = 76 INFO @ Sat, 15 Jan 2022 17:21:29: #1 total tags in treatment: 27899858 INFO @ Sat, 15 Jan 2022 17:21:29: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:21:29: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 17:21:30: #1 tags after filtering in treatment: 27899681 INFO @ Sat, 15 Jan 2022 17:21:30: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 17:21:30: #1 finished! INFO @ Sat, 15 Jan 2022 17:21:30: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:21:30: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:21:35: #2 number of paired peaks: 83564 INFO @ Sat, 15 Jan 2022 17:21:35: start model_add_line... INFO @ Sat, 15 Jan 2022 17:21:35: start X-correlation... INFO @ Sat, 15 Jan 2022 17:21:35: end of X-cor INFO @ Sat, 15 Jan 2022 17:21:35: #2 finished! INFO @ Sat, 15 Jan 2022 17:21:35: #2 predicted fragment length is 210 bps INFO @ Sat, 15 Jan 2022 17:21:35: #2 alternative fragment length(s) may be 210 bps INFO @ Sat, 15 Jan 2022 17:21:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX9963495/SRX9963495.20_model.r INFO @ Sat, 15 Jan 2022 17:21:35: #3 Call peaks... INFO @ Sat, 15 Jan 2022 17:21:35: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 17:21:37: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 17:22:10: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 17:22:13: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX9963495/SRX9963495.05_peaks.xls INFO @ Sat, 15 Jan 2022 17:22:13: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX9963495/SRX9963495.05_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 17:22:13: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX9963495/SRX9963495.05_summits.bed INFO @ Sat, 15 Jan 2022 17:22:13: Done! pass1 - making usageList (123 chroms): 4 millis pass2 - checking and writing primary data (22155 records, 4 fields): 24 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:22:38: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 17:22:44: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX9963495/SRX9963495.10_peaks.xls INFO @ Sat, 15 Jan 2022 17:22:44: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX9963495/SRX9963495.10_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 17:22:44: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX9963495/SRX9963495.10_summits.bed INFO @ Sat, 15 Jan 2022 17:22:44: Done! pass1 - making usageList (96 chroms): 3 millis pass2 - checking and writing primary data (17112 records, 4 fields): 32 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:23:12: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX9963495/SRX9963495.20_peaks.xls INFO @ Sat, 15 Jan 2022 17:23:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX9963495/SRX9963495.20_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 17:23:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX9963495/SRX9963495.20_summits.bed INFO @ Sat, 15 Jan 2022 17:23:12: Done! pass1 - making usageList (75 chroms): 3 millis pass2 - checking and writing primary data (11997 records, 4 fields): 14 millis CompletedMACS2peakCalling