Job ID = 14519438 SRX = ERX2745130 Genome = rn6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 94664531 spots for ERR2731905/ERR2731905.sra Written 94664531 spots for ERR2731905/ERR2731905.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: 00:00:00 Multiseed full-index search: 00:50:20 94664531 reads; of these: 94664531 (100.00%) were unpaired; of these: 3164376 (3.34%) aligned 0 times 77470035 (81.84%) aligned exactly 1 time 14030120 (14.82%) aligned >1 times 96.66% overall alignment rate Time searching: 00:50:23 Overall time: 00:50:23 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 40 files... [bam_rmdupse_core] 40988533 / 91500155 = 0.4480 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 15:49:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX2745130/ERX2745130.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX2745130/ERX2745130.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX2745130/ERX2745130.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX2745130/ERX2745130.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 15:49:47: #1 read tag files... INFO @ Sat, 15 Jan 2022 15:49:47: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 15:49:54: 1000000 INFO @ Sat, 15 Jan 2022 15:50:00: 2000000 INFO @ Sat, 15 Jan 2022 15:50:06: 3000000 INFO @ Sat, 15 Jan 2022 15:50:13: 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 15:50:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX2745130/ERX2745130.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX2745130/ERX2745130.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX2745130/ERX2745130.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX2745130/ERX2745130.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 15:50:17: #1 read tag files... INFO @ Sat, 15 Jan 2022 15:50:17: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 15:50:19: 5000000 INFO @ Sat, 15 Jan 2022 15:50:25: 1000000 INFO @ Sat, 15 Jan 2022 15:50:26: 6000000 INFO @ Sat, 15 Jan 2022 15:50:32: 7000000 INFO @ Sat, 15 Jan 2022 15:50:32: 2000000 INFO @ Sat, 15 Jan 2022 15:50:38: 8000000 INFO @ Sat, 15 Jan 2022 15:50:41: 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 15:50:45: 9000000 INFO @ Sat, 15 Jan 2022 15:50:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX2745130/ERX2745130.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX2745130/ERX2745130.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX2745130/ERX2745130.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX2745130/ERX2745130.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 15:50:47: #1 read tag files... INFO @ Sat, 15 Jan 2022 15:50:47: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 15:50:49: 4000000 INFO @ Sat, 15 Jan 2022 15:50:53: 10000000 INFO @ Sat, 15 Jan 2022 15:50:55: 1000000 INFO @ Sat, 15 Jan 2022 15:50:56: 5000000 INFO @ Sat, 15 Jan 2022 15:51:00: 11000000 INFO @ Sat, 15 Jan 2022 15:51:02: 2000000 INFO @ Sat, 15 Jan 2022 15:51:04: 6000000 INFO @ Sat, 15 Jan 2022 15:51:07: 12000000 INFO @ Sat, 15 Jan 2022 15:51:09: 3000000 INFO @ Sat, 15 Jan 2022 15:51:11: 7000000 INFO @ Sat, 15 Jan 2022 15:51:14: 13000000 INFO @ Sat, 15 Jan 2022 15:51:17: 4000000 INFO @ Sat, 15 Jan 2022 15:51:19: 8000000 INFO @ Sat, 15 Jan 2022 15:51:21: 14000000 INFO @ Sat, 15 Jan 2022 15:51:24: 5000000 INFO @ Sat, 15 Jan 2022 15:51:26: 9000000 INFO @ Sat, 15 Jan 2022 15:51:28: 15000000 INFO @ Sat, 15 Jan 2022 15:51:31: 6000000 INFO @ Sat, 15 Jan 2022 15:51:34: 10000000 INFO @ Sat, 15 Jan 2022 15:51:35: 16000000 INFO @ Sat, 15 Jan 2022 15:51:37: 7000000 INFO @ Sat, 15 Jan 2022 15:51:41: 11000000 INFO @ Sat, 15 Jan 2022 15:51:43: 17000000 INFO @ Sat, 15 Jan 2022 15:51:44: 8000000 INFO @ Sat, 15 Jan 2022 15:51:49: 12000000 INFO @ Sat, 15 Jan 2022 15:51:50: 18000000 INFO @ Sat, 15 Jan 2022 15:51:51: 9000000 INFO @ Sat, 15 Jan 2022 15:51:56: 13000000 INFO @ Sat, 15 Jan 2022 15:51:57: 19000000 INFO @ Sat, 15 Jan 2022 15:51:58: 10000000 INFO @ Sat, 15 Jan 2022 15:52:04: 14000000 INFO @ Sat, 15 Jan 2022 15:52:04: 20000000 INFO @ Sat, 15 Jan 2022 15:52:05: 11000000 INFO @ Sat, 15 Jan 2022 15:52:11: 21000000 INFO @ Sat, 15 Jan 2022 15:52:11: 15000000 INFO @ Sat, 15 Jan 2022 15:52:12: 12000000 INFO @ Sat, 15 Jan 2022 15:52:18: 22000000 INFO @ Sat, 15 Jan 2022 15:52:18: 16000000 INFO @ Sat, 15 Jan 2022 15:52:20: 13000000 INFO @ Sat, 15 Jan 2022 15:52:25: 23000000 INFO @ Sat, 15 Jan 2022 15:52:25: 17000000 INFO @ Sat, 15 Jan 2022 15:52:27: 14000000 INFO @ Sat, 15 Jan 2022 15:52:33: 18000000 INFO @ Sat, 15 Jan 2022 15:52:33: 24000000 INFO @ Sat, 15 Jan 2022 15:52:33: 15000000 INFO @ Sat, 15 Jan 2022 15:52:40: 19000000 INFO @ Sat, 15 Jan 2022 15:52:40: 16000000 INFO @ Sat, 15 Jan 2022 15:52:40: 25000000 INFO @ Sat, 15 Jan 2022 15:52:47: 17000000 INFO @ Sat, 15 Jan 2022 15:52:47: 20000000 INFO @ Sat, 15 Jan 2022 15:52:47: 26000000 INFO @ Sat, 15 Jan 2022 15:52:54: 18000000 INFO @ Sat, 15 Jan 2022 15:52:55: 27000000 INFO @ Sat, 15 Jan 2022 15:52:56: 21000000 INFO @ Sat, 15 Jan 2022 15:53:01: 19000000 INFO @ Sat, 15 Jan 2022 15:53:02: 28000000 INFO @ Sat, 15 Jan 2022 15:53:03: 22000000 INFO @ Sat, 15 Jan 2022 15:53:08: 20000000 INFO @ Sat, 15 Jan 2022 15:53:09: 29000000 INFO @ Sat, 15 Jan 2022 15:53:10: 23000000 INFO @ Sat, 15 Jan 2022 15:53:14: 21000000 INFO @ Sat, 15 Jan 2022 15:53:16: 30000000 INFO @ Sat, 15 Jan 2022 15:53:17: 24000000 INFO @ Sat, 15 Jan 2022 15:53:21: 22000000 INFO @ Sat, 15 Jan 2022 15:53:23: 31000000 INFO @ Sat, 15 Jan 2022 15:53:24: 25000000 INFO @ Sat, 15 Jan 2022 15:53:28: 23000000 INFO @ Sat, 15 Jan 2022 15:53:30: 32000000 INFO @ Sat, 15 Jan 2022 15:53:31: 26000000 INFO @ Sat, 15 Jan 2022 15:53:35: 24000000 INFO @ Sat, 15 Jan 2022 15:53:37: 33000000 INFO @ Sat, 15 Jan 2022 15:53:38: 27000000 INFO @ Sat, 15 Jan 2022 15:53:42: 25000000 INFO @ Sat, 15 Jan 2022 15:53:44: 34000000 INFO @ Sat, 15 Jan 2022 15:53:46: 28000000 INFO @ Sat, 15 Jan 2022 15:53:48: 26000000 INFO @ Sat, 15 Jan 2022 15:53:51: 35000000 INFO @ Sat, 15 Jan 2022 15:53:53: 29000000 INFO @ Sat, 15 Jan 2022 15:53:55: 27000000 INFO @ Sat, 15 Jan 2022 15:53:58: 36000000 INFO @ Sat, 15 Jan 2022 15:54:01: 30000000 INFO @ Sat, 15 Jan 2022 15:54:02: 28000000 INFO @ Sat, 15 Jan 2022 15:54:05: 37000000 INFO @ Sat, 15 Jan 2022 15:54:08: 31000000 INFO @ Sat, 15 Jan 2022 15:54:09: 29000000 INFO @ Sat, 15 Jan 2022 15:54:12: 38000000 INFO @ Sat, 15 Jan 2022 15:54:16: 32000000 INFO @ Sat, 15 Jan 2022 15:54:16: 30000000 INFO @ Sat, 15 Jan 2022 15:54:19: 39000000 INFO @ Sat, 15 Jan 2022 15:54:23: 33000000 INFO @ Sat, 15 Jan 2022 15:54:23: 31000000 INFO @ Sat, 15 Jan 2022 15:54:26: 40000000 INFO @ Sat, 15 Jan 2022 15:54:30: 34000000 INFO @ Sat, 15 Jan 2022 15:54:30: 32000000 INFO @ Sat, 15 Jan 2022 15:54:33: 41000000 INFO @ Sat, 15 Jan 2022 15:54:37: 35000000 INFO @ Sat, 15 Jan 2022 15:54:37: 33000000 INFO @ Sat, 15 Jan 2022 15:54:40: 42000000 INFO @ Sat, 15 Jan 2022 15:54:44: 34000000 INFO @ Sat, 15 Jan 2022 15:54:44: 36000000 INFO @ Sat, 15 Jan 2022 15:54:47: 43000000 INFO @ Sat, 15 Jan 2022 15:54:51: 35000000 INFO @ Sat, 15 Jan 2022 15:54:51: 37000000 INFO @ Sat, 15 Jan 2022 15:54:54: 44000000 INFO @ Sat, 15 Jan 2022 15:54:58: 36000000 INFO @ Sat, 15 Jan 2022 15:54:58: 38000000 INFO @ Sat, 15 Jan 2022 15:55:01: 45000000 INFO @ Sat, 15 Jan 2022 15:55:04: 37000000 INFO @ Sat, 15 Jan 2022 15:55:05: 39000000 INFO @ Sat, 15 Jan 2022 15:55:08: 46000000 INFO @ Sat, 15 Jan 2022 15:55:11: 38000000 INFO @ Sat, 15 Jan 2022 15:55:12: 40000000 INFO @ Sat, 15 Jan 2022 15:55:15: 47000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 15:55:18: 39000000 INFO @ Sat, 15 Jan 2022 15:55:19: 41000000 INFO @ Sat, 15 Jan 2022 15:55:22: 48000000 INFO @ Sat, 15 Jan 2022 15:55:26: 40000000 INFO @ Sat, 15 Jan 2022 15:55:26: 42000000 INFO @ Sat, 15 Jan 2022 15:55:29: 49000000 INFO @ Sat, 15 Jan 2022 15:55:32: 41000000 INFO @ Sat, 15 Jan 2022 15:55:33: 43000000 INFO @ Sat, 15 Jan 2022 15:55:36: 50000000 INFO @ Sat, 15 Jan 2022 15:55:39: 42000000 INFO @ Sat, 15 Jan 2022 15:55:40: 44000000 INFO @ Sat, 15 Jan 2022 15:55:40: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 15:55:40: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 15:55:40: #1 total tags in treatment: 50511622 INFO @ Sat, 15 Jan 2022 15:55:40: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 15:55:40: #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 15:55:42: #1 tags after filtering in treatment: 50511427 INFO @ Sat, 15 Jan 2022 15:55:42: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 15:55:42: #1 finished! INFO @ Sat, 15 Jan 2022 15:55:42: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 15:55:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 15:55:46: 43000000 INFO @ Sat, 15 Jan 2022 15:55:47: 45000000 INFO @ Sat, 15 Jan 2022 15:55:52: #2 number of paired peaks: 111772 INFO @ Sat, 15 Jan 2022 15:55:52: start model_add_line... INFO @ Sat, 15 Jan 2022 15:55:53: 44000000 INFO @ Sat, 15 Jan 2022 15:55:53: start X-correlation... INFO @ Sat, 15 Jan 2022 15:55:53: end of X-cor INFO @ Sat, 15 Jan 2022 15:55:53: #2 finished! INFO @ Sat, 15 Jan 2022 15:55:53: #2 predicted fragment length is 244 bps INFO @ Sat, 15 Jan 2022 15:55:53: #2 alternative fragment length(s) may be 244 bps INFO @ Sat, 15 Jan 2022 15:55:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745130/ERX2745130.05_model.r INFO @ Sat, 15 Jan 2022 15:55:53: #3 Call peaks... INFO @ Sat, 15 Jan 2022 15:55:53: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 15:55:54: 46000000 INFO @ Sat, 15 Jan 2022 15:55:59: 45000000 INFO @ Sat, 15 Jan 2022 15:56:01: 47000000 INFO @ Sat, 15 Jan 2022 15:56:06: 46000000 INFO @ Sat, 15 Jan 2022 15:56:08: 48000000 INFO @ Sat, 15 Jan 2022 15:56:13: 47000000 INFO @ Sat, 15 Jan 2022 15:56:15: 49000000 INFO @ Sat, 15 Jan 2022 15:56:20: 48000000 INFO @ Sat, 15 Jan 2022 15:56:22: 50000000 INFO @ Sat, 15 Jan 2022 15:56:26: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 15:56:26: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 15:56:26: #1 total tags in treatment: 50511622 INFO @ Sat, 15 Jan 2022 15:56:26: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 15:56:26: #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 15:56:27: 49000000 INFO @ Sat, 15 Jan 2022 15:56:28: #1 tags after filtering in treatment: 50511427 INFO @ Sat, 15 Jan 2022 15:56:28: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 15:56:28: #1 finished! INFO @ Sat, 15 Jan 2022 15:56:28: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 15:56:28: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 15:56:34: 50000000 INFO @ Sat, 15 Jan 2022 15:56:37: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 15:56:37: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 15:56:37: #1 total tags in treatment: 50511622 INFO @ Sat, 15 Jan 2022 15:56:37: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 15:56:37: #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 15:56:38: #2 number of paired peaks: 111772 INFO @ Sat, 15 Jan 2022 15:56:38: start model_add_line... INFO @ Sat, 15 Jan 2022 15:56:39: #1 tags after filtering in treatment: 50511427 INFO @ Sat, 15 Jan 2022 15:56:39: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 15:56:39: #1 finished! INFO @ Sat, 15 Jan 2022 15:56:39: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 15:56:39: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 15:56:39: start X-correlation... INFO @ Sat, 15 Jan 2022 15:56:39: end of X-cor INFO @ Sat, 15 Jan 2022 15:56:39: #2 finished! INFO @ Sat, 15 Jan 2022 15:56:39: #2 predicted fragment length is 244 bps INFO @ Sat, 15 Jan 2022 15:56:39: #2 alternative fragment length(s) may be 244 bps INFO @ Sat, 15 Jan 2022 15:56:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745130/ERX2745130.10_model.r INFO @ Sat, 15 Jan 2022 15:56:39: #3 Call peaks... INFO @ Sat, 15 Jan 2022 15:56:39: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 15:56:49: #2 number of paired peaks: 111772 INFO @ Sat, 15 Jan 2022 15:56:49: start model_add_line... INFO @ Sat, 15 Jan 2022 15:56:50: start X-correlation... INFO @ Sat, 15 Jan 2022 15:56:50: end of X-cor INFO @ Sat, 15 Jan 2022 15:56:50: #2 finished! INFO @ Sat, 15 Jan 2022 15:56:50: #2 predicted fragment length is 244 bps INFO @ Sat, 15 Jan 2022 15:56:50: #2 alternative fragment length(s) may be 244 bps INFO @ Sat, 15 Jan 2022 15:56:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745130/ERX2745130.20_model.r INFO @ Sat, 15 Jan 2022 15:56:50: #3 Call peaks... INFO @ Sat, 15 Jan 2022 15:56:50: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 15:58:11: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 15:59:03: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 15:59:07: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 15:59:22: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745130/ERX2745130.05_peaks.xls INFO @ Sat, 15 Jan 2022 15:59:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745130/ERX2745130.05_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 15:59:23: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745130/ERX2745130.05_summits.bed INFO @ Sat, 15 Jan 2022 15:59:23: Done! pass1 - making usageList (235 chroms): 11 millis pass2 - checking and writing primary data (62917 records, 4 fields): 91 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 16:00:14: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745130/ERX2745130.10_peaks.xls INFO @ Sat, 15 Jan 2022 16:00:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745130/ERX2745130.10_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 16:00:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745130/ERX2745130.10_summits.bed INFO @ Sat, 15 Jan 2022 16:00:15: Done! INFO @ Sat, 15 Jan 2022 16:00:16: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745130/ERX2745130.20_peaks.xls pass1 - making usageList (209 chroms): 9 millis pass2 - checking and writing primary data (50418 records, 4 fields): 73 millis INFO @ Sat, 15 Jan 2022 16:00:16: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745130/ERX2745130.20_peaks.narrowPeak CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 16:00:16: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745130/ERX2745130.20_summits.bed INFO @ Sat, 15 Jan 2022 16:00:16: Done! pass1 - making usageList (179 chroms): 7 millis pass2 - checking and writing primary data (37236 records, 4 fields): 56 millis CompletedMACS2peakCalling