Job ID = 14517855 SRX = SRX6581750 Genome = rn6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 25756882 spots for SRR9825083/SRR9825083.sra Written 25756882 spots for SRR9825083/SRR9825083.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: 00:00:01 Time loading mirror index: 00:00:01 Multiseed full-index search: 00:20:11 25756882 reads; of these: 25756882 (100.00%) were unpaired; of these: 5160681 (20.04%) aligned 0 times 17804834 (69.13%) aligned exactly 1 time 2791367 (10.84%) aligned >1 times 79.96% overall alignment rate Time searching: 00:20:15 Overall time: 00:20:15 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 12 files... [bam_rmdupse_core] 773745 / 20596201 = 0.0376 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 06:01:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX6581750/SRX6581750.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX6581750/SRX6581750.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX6581750/SRX6581750.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX6581750/SRX6581750.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 06:01:42: #1 read tag files... INFO @ Sat, 15 Jan 2022 06:01:42: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 06:01:47: 1000000 INFO @ Sat, 15 Jan 2022 06:01:52: 2000000 INFO @ Sat, 15 Jan 2022 06:01:58: 3000000 INFO @ Sat, 15 Jan 2022 06:02:03: 4000000 INFO @ Sat, 15 Jan 2022 06:02:08: 5000000 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 06:02:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX6581750/SRX6581750.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX6581750/SRX6581750.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX6581750/SRX6581750.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX6581750/SRX6581750.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 06:02:11: #1 read tag files... INFO @ Sat, 15 Jan 2022 06:02:11: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 06:02:14: 6000000 INFO @ Sat, 15 Jan 2022 06:02:17: 1000000 INFO @ Sat, 15 Jan 2022 06:02:20: 7000000 INFO @ Sat, 15 Jan 2022 06:02:22: 2000000 INFO @ Sat, 15 Jan 2022 06:02:26: 8000000 INFO @ Sat, 15 Jan 2022 06:02:27: 3000000 INFO @ Sat, 15 Jan 2022 06:02:32: 9000000 INFO @ Sat, 15 Jan 2022 06:02:33: 4000000 INFO @ Sat, 15 Jan 2022 06:02:38: 10000000 INFO @ Sat, 15 Jan 2022 06:02:38: 5000000 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 06:02:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX6581750/SRX6581750.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX6581750/SRX6581750.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX6581750/SRX6581750.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX6581750/SRX6581750.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 06:02:41: #1 read tag files... INFO @ Sat, 15 Jan 2022 06:02:41: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 06:02:43: 6000000 INFO @ Sat, 15 Jan 2022 06:02:43: 11000000 INFO @ Sat, 15 Jan 2022 06:02:47: 1000000 INFO @ Sat, 15 Jan 2022 06:02:49: 7000000 INFO @ Sat, 15 Jan 2022 06:02:49: 12000000 INFO @ Sat, 15 Jan 2022 06:02:52: 2000000 INFO @ Sat, 15 Jan 2022 06:02:54: 8000000 INFO @ Sat, 15 Jan 2022 06:02:55: 13000000 INFO @ Sat, 15 Jan 2022 06:02:58: 3000000 INFO @ Sat, 15 Jan 2022 06:03:00: 9000000 INFO @ Sat, 15 Jan 2022 06:03:01: 14000000 INFO @ Sat, 15 Jan 2022 06:03:03: 4000000 INFO @ Sat, 15 Jan 2022 06:03:05: 10000000 INFO @ Sat, 15 Jan 2022 06:03:07: 15000000 INFO @ Sat, 15 Jan 2022 06:03:09: 5000000 INFO @ Sat, 15 Jan 2022 06:03:10: 11000000 INFO @ Sat, 15 Jan 2022 06:03:12: 16000000 INFO @ Sat, 15 Jan 2022 06:03:14: 6000000 INFO @ Sat, 15 Jan 2022 06:03:15: 12000000 INFO @ Sat, 15 Jan 2022 06:03:18: 17000000 INFO @ Sat, 15 Jan 2022 06:03:19: 7000000 INFO @ Sat, 15 Jan 2022 06:03:21: 13000000 INFO @ Sat, 15 Jan 2022 06:03:24: 18000000 INFO @ Sat, 15 Jan 2022 06:03:25: 8000000 INFO @ Sat, 15 Jan 2022 06:03:26: 14000000 INFO @ Sat, 15 Jan 2022 06:03:29: 19000000 INFO @ Sat, 15 Jan 2022 06:03:30: 9000000 INFO @ Sat, 15 Jan 2022 06:03:32: 15000000 INFO @ Sat, 15 Jan 2022 06:03:34: #1 tag size is determined as 76 bps INFO @ Sat, 15 Jan 2022 06:03:34: #1 tag size = 76 INFO @ Sat, 15 Jan 2022 06:03:34: #1 total tags in treatment: 19822456 INFO @ Sat, 15 Jan 2022 06:03:34: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 06:03:34: #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 06:03:35: #1 tags after filtering in treatment: 19822259 INFO @ Sat, 15 Jan 2022 06:03:35: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 06:03:35: #1 finished! INFO @ Sat, 15 Jan 2022 06:03:35: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 06:03:35: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 06:03:36: 10000000 INFO @ Sat, 15 Jan 2022 06:03:37: 16000000 INFO @ Sat, 15 Jan 2022 06:03:39: #2 number of paired peaks: 122634 INFO @ Sat, 15 Jan 2022 06:03:39: start model_add_line... INFO @ Sat, 15 Jan 2022 06:03:39: start X-correlation... INFO @ Sat, 15 Jan 2022 06:03:39: end of X-cor INFO @ Sat, 15 Jan 2022 06:03:39: #2 finished! INFO @ Sat, 15 Jan 2022 06:03:39: #2 predicted fragment length is 169 bps INFO @ Sat, 15 Jan 2022 06:03:39: #2 alternative fragment length(s) may be 169 bps INFO @ Sat, 15 Jan 2022 06:03:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX6581750/SRX6581750.05_model.r INFO @ Sat, 15 Jan 2022 06:03:39: #3 Call peaks... INFO @ Sat, 15 Jan 2022 06:03:39: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 06:03:41: 11000000 INFO @ Sat, 15 Jan 2022 06:03:42: 17000000 INFO @ Sat, 15 Jan 2022 06:03:46: 12000000 INFO @ Sat, 15 Jan 2022 06:03:48: 18000000 INFO @ Sat, 15 Jan 2022 06:03:52: 13000000 INFO @ Sat, 15 Jan 2022 06:03:53: 19000000 INFO @ Sat, 15 Jan 2022 06:03:57: 14000000 INFO @ Sat, 15 Jan 2022 06:03:58: #1 tag size is determined as 76 bps INFO @ Sat, 15 Jan 2022 06:03:58: #1 tag size = 76 INFO @ Sat, 15 Jan 2022 06:03:58: #1 total tags in treatment: 19822456 INFO @ Sat, 15 Jan 2022 06:03:58: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 06:03:58: #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 06:03:58: #1 tags after filtering in treatment: 19822259 INFO @ Sat, 15 Jan 2022 06:03:58: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 06:03:58: #1 finished! INFO @ Sat, 15 Jan 2022 06:03:58: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 06:03:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 06:04:03: 15000000 INFO @ Sat, 15 Jan 2022 06:04:03: #2 number of paired peaks: 122634 INFO @ Sat, 15 Jan 2022 06:04:03: start model_add_line... INFO @ Sat, 15 Jan 2022 06:04:03: start X-correlation... INFO @ Sat, 15 Jan 2022 06:04:03: end of X-cor INFO @ Sat, 15 Jan 2022 06:04:03: #2 finished! INFO @ Sat, 15 Jan 2022 06:04:03: #2 predicted fragment length is 169 bps INFO @ Sat, 15 Jan 2022 06:04:03: #2 alternative fragment length(s) may be 169 bps INFO @ Sat, 15 Jan 2022 06:04:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX6581750/SRX6581750.10_model.r INFO @ Sat, 15 Jan 2022 06:04:03: #3 Call peaks... INFO @ Sat, 15 Jan 2022 06:04:03: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 06:04:08: 16000000 INFO @ Sat, 15 Jan 2022 06:04:13: 17000000 INFO @ Sat, 15 Jan 2022 06:04:18: 18000000 INFO @ Sat, 15 Jan 2022 06:04:24: 19000000 INFO @ Sat, 15 Jan 2022 06:04:27: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 06:04:28: #1 tag size is determined as 76 bps INFO @ Sat, 15 Jan 2022 06:04:28: #1 tag size = 76 INFO @ Sat, 15 Jan 2022 06:04:28: #1 total tags in treatment: 19822456 INFO @ Sat, 15 Jan 2022 06:04:28: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 06:04:28: #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 06:04:29: #1 tags after filtering in treatment: 19822259 INFO @ Sat, 15 Jan 2022 06:04:29: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 06:04:29: #1 finished! INFO @ Sat, 15 Jan 2022 06:04:29: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 06:04:29: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 06:04:33: #2 number of paired peaks: 122634 INFO @ Sat, 15 Jan 2022 06:04:33: start model_add_line... INFO @ Sat, 15 Jan 2022 06:04:34: start X-correlation... INFO @ Sat, 15 Jan 2022 06:04:34: end of X-cor INFO @ Sat, 15 Jan 2022 06:04:34: #2 finished! INFO @ Sat, 15 Jan 2022 06:04:34: #2 predicted fragment length is 169 bps INFO @ Sat, 15 Jan 2022 06:04:34: #2 alternative fragment length(s) may be 169 bps INFO @ Sat, 15 Jan 2022 06:04:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX6581750/SRX6581750.20_model.r INFO @ Sat, 15 Jan 2022 06:04:34: #3 Call peaks... INFO @ Sat, 15 Jan 2022 06:04:34: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 06:04:46: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 06:04:54: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX6581750/SRX6581750.05_peaks.xls INFO @ Sat, 15 Jan 2022 06:04:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX6581750/SRX6581750.05_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 06:04:55: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX6581750/SRX6581750.05_summits.bed INFO @ Sat, 15 Jan 2022 06:04:55: Done! pass1 - making usageList (117 chroms): 8 millis pass2 - checking and writing primary data (55372 records, 4 fields): 50 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 06:05:08: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX6581750/SRX6581750.10_peaks.xls INFO @ Sat, 15 Jan 2022 06:05:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX6581750/SRX6581750.10_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 06:05:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX6581750/SRX6581750.10_summits.bed INFO @ Sat, 15 Jan 2022 06:05:08: Done! pass1 - making usageList (60 chroms): 2 millis pass2 - checking and writing primary data (14555 records, 4 fields): 16 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 06:05:17: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 06:05:39: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX6581750/SRX6581750.20_peaks.xls INFO @ Sat, 15 Jan 2022 06:05:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX6581750/SRX6581750.20_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 06:05:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX6581750/SRX6581750.20_summits.bed INFO @ Sat, 15 Jan 2022 06:05:39: Done! pass1 - making usageList (28 chroms): 1 millis pass2 - checking and writing primary data (574 records, 4 fields): 3 millis CompletedMACS2peakCalling