Job ID = 14519572 SRX = SRX9963493 Genome = rn6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 35634202 spots for SRR13565207/SRR13565207.sra Written 35634202 spots for SRR13565207/SRR13565207.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: 00:00:02 Time loading mirror index: 00:00:01 Multiseed full-index search: 00:44:35 35634202 reads; of these: 35634202 (100.00%) were unpaired; of these: 4883730 (13.71%) aligned 0 times 27246310 (76.46%) aligned exactly 1 time 3504162 (9.83%) aligned >1 times 86.29% overall alignment rate Time searching: 00:44:38 Overall time: 00:44:38 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] 5343529 / 30750472 = 0.1738 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 17:11:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX9963493/SRX9963493.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX9963493/SRX9963493.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX9963493/SRX9963493.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX9963493/SRX9963493.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 17:11:39: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:11:39: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:11:45: 1000000 INFO @ Sat, 15 Jan 2022 17:11:51: 2000000 INFO @ Sat, 15 Jan 2022 17:11:57: 3000000 INFO @ Sat, 15 Jan 2022 17:12:03: 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 17:12:09: 5000000 INFO @ Sat, 15 Jan 2022 17:12:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX9963493/SRX9963493.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX9963493/SRX9963493.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX9963493/SRX9963493.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX9963493/SRX9963493.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 17:12:09: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:12:09: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:12:15: 6000000 INFO @ Sat, 15 Jan 2022 17:12:16: 1000000 INFO @ Sat, 15 Jan 2022 17:12:22: 7000000 INFO @ Sat, 15 Jan 2022 17:12:22: 2000000 INFO @ Sat, 15 Jan 2022 17:12:28: 8000000 INFO @ Sat, 15 Jan 2022 17:12:29: 3000000 INFO @ Sat, 15 Jan 2022 17:12:35: 9000000 INFO @ Sat, 15 Jan 2022 17:12:35: 4000000 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 17:12:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX9963493/SRX9963493.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX9963493/SRX9963493.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX9963493/SRX9963493.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX9963493/SRX9963493.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 17:12:39: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:12:39: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:12:42: 10000000 INFO @ Sat, 15 Jan 2022 17:12:42: 5000000 INFO @ Sat, 15 Jan 2022 17:12:46: 1000000 INFO @ Sat, 15 Jan 2022 17:12:48: 11000000 INFO @ Sat, 15 Jan 2022 17:12:49: 6000000 INFO @ Sat, 15 Jan 2022 17:12:53: 2000000 INFO @ Sat, 15 Jan 2022 17:12:55: 12000000 INFO @ Sat, 15 Jan 2022 17:12:56: 7000000 INFO @ Sat, 15 Jan 2022 17:12:59: 3000000 INFO @ Sat, 15 Jan 2022 17:13:02: 13000000 INFO @ Sat, 15 Jan 2022 17:13:03: 8000000 INFO @ Sat, 15 Jan 2022 17:13:06: 4000000 INFO @ Sat, 15 Jan 2022 17:13:09: 14000000 INFO @ Sat, 15 Jan 2022 17:13:09: 9000000 INFO @ Sat, 15 Jan 2022 17:13:13: 5000000 INFO @ Sat, 15 Jan 2022 17:13:15: 15000000 INFO @ Sat, 15 Jan 2022 17:13:16: 10000000 INFO @ Sat, 15 Jan 2022 17:13:20: 6000000 INFO @ Sat, 15 Jan 2022 17:13:22: 16000000 INFO @ Sat, 15 Jan 2022 17:13:23: 11000000 INFO @ Sat, 15 Jan 2022 17:13:27: 7000000 INFO @ Sat, 15 Jan 2022 17:13:29: 17000000 INFO @ Sat, 15 Jan 2022 17:13:30: 12000000 INFO @ Sat, 15 Jan 2022 17:13:33: 8000000 INFO @ Sat, 15 Jan 2022 17:13:36: 18000000 INFO @ Sat, 15 Jan 2022 17:13:37: 13000000 INFO @ Sat, 15 Jan 2022 17:13:40: 9000000 INFO @ Sat, 15 Jan 2022 17:13:42: 19000000 INFO @ Sat, 15 Jan 2022 17:13:43: 14000000 INFO @ Sat, 15 Jan 2022 17:13:47: 10000000 INFO @ Sat, 15 Jan 2022 17:13:49: 20000000 INFO @ Sat, 15 Jan 2022 17:13:50: 15000000 INFO @ Sat, 15 Jan 2022 17:13:54: 11000000 INFO @ Sat, 15 Jan 2022 17:13:56: 21000000 INFO @ Sat, 15 Jan 2022 17:13:57: 16000000 INFO @ Sat, 15 Jan 2022 17:14:01: 12000000 INFO @ Sat, 15 Jan 2022 17:14:03: 22000000 INFO @ Sat, 15 Jan 2022 17:14:04: 17000000 INFO @ Sat, 15 Jan 2022 17:14:07: 13000000 INFO @ Sat, 15 Jan 2022 17:14:10: 23000000 INFO @ Sat, 15 Jan 2022 17:14:11: 18000000 INFO @ Sat, 15 Jan 2022 17:14:14: 14000000 INFO @ Sat, 15 Jan 2022 17:14:17: 24000000 INFO @ Sat, 15 Jan 2022 17:14:17: 19000000 INFO @ Sat, 15 Jan 2022 17:14:21: 15000000 INFO @ Sat, 15 Jan 2022 17:14:23: 25000000 INFO @ Sat, 15 Jan 2022 17:14:24: 20000000 INFO @ Sat, 15 Jan 2022 17:14:26: #1 tag size is determined as 76 bps INFO @ Sat, 15 Jan 2022 17:14:26: #1 tag size = 76 INFO @ Sat, 15 Jan 2022 17:14:26: #1 total tags in treatment: 25406943 INFO @ Sat, 15 Jan 2022 17:14:26: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:14:26: #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 17:14:27: #1 tags after filtering in treatment: 25406736 INFO @ Sat, 15 Jan 2022 17:14:27: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 17:14:27: #1 finished! INFO @ Sat, 15 Jan 2022 17:14:27: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:14:27: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:14:28: 16000000 INFO @ Sat, 15 Jan 2022 17:14:31: 21000000 INFO @ Sat, 15 Jan 2022 17:14:31: #2 number of paired peaks: 81227 INFO @ Sat, 15 Jan 2022 17:14:31: start model_add_line... INFO @ Sat, 15 Jan 2022 17:14:32: start X-correlation... INFO @ Sat, 15 Jan 2022 17:14:32: end of X-cor INFO @ Sat, 15 Jan 2022 17:14:32: #2 finished! INFO @ Sat, 15 Jan 2022 17:14:32: #2 predicted fragment length is 184 bps INFO @ Sat, 15 Jan 2022 17:14:32: #2 alternative fragment length(s) may be 184 bps INFO @ Sat, 15 Jan 2022 17:14:32: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX9963493/SRX9963493.05_model.r INFO @ Sat, 15 Jan 2022 17:14:32: #3 Call peaks... INFO @ Sat, 15 Jan 2022 17:14:32: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 17:14:35: 17000000 INFO @ Sat, 15 Jan 2022 17:14:38: 22000000 INFO @ Sat, 15 Jan 2022 17:14:41: 18000000 INFO @ Sat, 15 Jan 2022 17:14:44: 23000000 INFO @ Sat, 15 Jan 2022 17:14:48: 19000000 INFO @ Sat, 15 Jan 2022 17:14:51: 24000000 INFO @ Sat, 15 Jan 2022 17:14:55: 20000000 INFO @ Sat, 15 Jan 2022 17:14:58: 25000000 INFO @ Sat, 15 Jan 2022 17:15:01: #1 tag size is determined as 76 bps INFO @ Sat, 15 Jan 2022 17:15:01: #1 tag size = 76 INFO @ Sat, 15 Jan 2022 17:15:01: #1 total tags in treatment: 25406943 INFO @ Sat, 15 Jan 2022 17:15:01: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:15:01: #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 17:15:01: #1 tags after filtering in treatment: 25406736 INFO @ Sat, 15 Jan 2022 17:15:01: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 17:15:01: #1 finished! INFO @ Sat, 15 Jan 2022 17:15:01: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:15:01: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:15:01: 21000000 INFO @ Sat, 15 Jan 2022 17:15:06: #2 number of paired peaks: 81227 INFO @ Sat, 15 Jan 2022 17:15:06: start model_add_line... INFO @ Sat, 15 Jan 2022 17:15:06: start X-correlation... INFO @ Sat, 15 Jan 2022 17:15:06: end of X-cor INFO @ Sat, 15 Jan 2022 17:15:06: #2 finished! INFO @ Sat, 15 Jan 2022 17:15:06: #2 predicted fragment length is 184 bps INFO @ Sat, 15 Jan 2022 17:15:06: #2 alternative fragment length(s) may be 184 bps INFO @ Sat, 15 Jan 2022 17:15:06: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX9963493/SRX9963493.10_model.r INFO @ Sat, 15 Jan 2022 17:15:06: #3 Call peaks... INFO @ Sat, 15 Jan 2022 17:15:06: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 17:15:08: 22000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 17:15:15: 23000000 INFO @ Sat, 15 Jan 2022 17:15:21: 24000000 INFO @ Sat, 15 Jan 2022 17:15:28: 25000000 INFO @ Sat, 15 Jan 2022 17:15:29: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 17:15:30: #1 tag size is determined as 76 bps INFO @ Sat, 15 Jan 2022 17:15:30: #1 tag size = 76 INFO @ Sat, 15 Jan 2022 17:15:30: #1 total tags in treatment: 25406943 INFO @ Sat, 15 Jan 2022 17:15:30: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:15:30: #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 17:15:31: #1 tags after filtering in treatment: 25406736 INFO @ Sat, 15 Jan 2022 17:15:31: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 17:15:31: #1 finished! INFO @ Sat, 15 Jan 2022 17:15:31: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:15:31: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:15:35: #2 number of paired peaks: 81227 INFO @ Sat, 15 Jan 2022 17:15:35: start model_add_line... INFO @ Sat, 15 Jan 2022 17:15:36: start X-correlation... INFO @ Sat, 15 Jan 2022 17:15:36: end of X-cor INFO @ Sat, 15 Jan 2022 17:15:36: #2 finished! INFO @ Sat, 15 Jan 2022 17:15:36: #2 predicted fragment length is 184 bps INFO @ Sat, 15 Jan 2022 17:15:36: #2 alternative fragment length(s) may be 184 bps INFO @ Sat, 15 Jan 2022 17:15:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX9963493/SRX9963493.20_model.r INFO @ Sat, 15 Jan 2022 17:15:36: #3 Call peaks... INFO @ Sat, 15 Jan 2022 17:15:36: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 17:16:00: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX9963493/SRX9963493.05_peaks.xls INFO @ Sat, 15 Jan 2022 17:16:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX9963493/SRX9963493.05_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 17:16:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX9963493/SRX9963493.05_summits.bed INFO @ Sat, 15 Jan 2022 17:16:00: Done! pass1 - making usageList (116 chroms): 4 millis pass2 - checking and writing primary data (21652 records, 4 fields): 39 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:16:02: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 17:16:33: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX9963493/SRX9963493.10_peaks.xls INFO @ Sat, 15 Jan 2022 17:16:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX9963493/SRX9963493.10_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 17:16:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX9963493/SRX9963493.10_summits.bed INFO @ Sat, 15 Jan 2022 17:16:33: Done! pass1 - making usageList (95 chroms): 3 millis pass2 - checking and writing primary data (17058 records, 4 fields): 18 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:16:37: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 17:17:10: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX9963493/SRX9963493.20_peaks.xls INFO @ Sat, 15 Jan 2022 17:17:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX9963493/SRX9963493.20_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 17:17:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX9963493/SRX9963493.20_summits.bed INFO @ Sat, 15 Jan 2022 17:17:10: Done! pass1 - making usageList (83 chroms): 2 millis pass2 - checking and writing primary data (12387 records, 4 fields): 14 millis CompletedMACS2peakCalling