Job ID = 14519439 SRX = ERX2745131 Genome = rn6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 93458226 spots for ERR2731906/ERR2731906.sra Written 93458226 spots for ERR2731906/ERR2731906.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: 00:00:00 Multiseed full-index search: 00:56:22 93458226 reads; of these: 93458226 (100.00%) were unpaired; of these: 3440790 (3.68%) aligned 0 times 80970109 (86.64%) aligned exactly 1 time 9047327 (9.68%) aligned >1 times 96.32% overall alignment rate Time searching: 00:56:25 Overall time: 00:56:25 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] 48258462 / 90017436 = 0.5361 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 15:55:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX2745131/ERX2745131.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX2745131/ERX2745131.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX2745131/ERX2745131.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX2745131/ERX2745131.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 15:55:41: #1 read tag files... INFO @ Sat, 15 Jan 2022 15:55:41: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 15:55:48: 1000000 INFO @ Sat, 15 Jan 2022 15:55:55: 2000000 INFO @ Sat, 15 Jan 2022 15:56:02: 3000000 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 15:56:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX2745131/ERX2745131.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX2745131/ERX2745131.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX2745131/ERX2745131.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX2745131/ERX2745131.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 15:56:09: #1 read tag files... INFO @ Sat, 15 Jan 2022 15:56:09: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 15:56:10: 4000000 INFO @ Sat, 15 Jan 2022 15:56:18: 5000000 INFO @ Sat, 15 Jan 2022 15:56:19: 1000000 INFO @ Sat, 15 Jan 2022 15:56:26: 6000000 INFO @ Sat, 15 Jan 2022 15:56:28: 2000000 INFO @ Sat, 15 Jan 2022 15:56:33: 7000000 INFO @ Sat, 15 Jan 2022 15:56:37: 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 15:56:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX2745131/ERX2745131.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX2745131/ERX2745131.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX2745131/ERX2745131.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX2745131/ERX2745131.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 15:56:40: #1 read tag files... INFO @ Sat, 15 Jan 2022 15:56:40: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 15:56:41: 8000000 INFO @ Sat, 15 Jan 2022 15:56:45: 4000000 INFO @ Sat, 15 Jan 2022 15:56:48: 1000000 INFO @ Sat, 15 Jan 2022 15:56:49: 9000000 INFO @ Sat, 15 Jan 2022 15:56:55: 5000000 INFO @ Sat, 15 Jan 2022 15:56:56: 2000000 INFO @ Sat, 15 Jan 2022 15:56:57: 10000000 INFO @ Sat, 15 Jan 2022 15:57:04: 11000000 INFO @ Sat, 15 Jan 2022 15:57:04: 3000000 INFO @ Sat, 15 Jan 2022 15:57:05: 6000000 INFO @ Sat, 15 Jan 2022 15:57:12: 12000000 INFO @ Sat, 15 Jan 2022 15:57:13: 4000000 INFO @ Sat, 15 Jan 2022 15:57:15: 7000000 INFO @ Sat, 15 Jan 2022 15:57:20: 13000000 INFO @ Sat, 15 Jan 2022 15:57:22: 5000000 INFO @ Sat, 15 Jan 2022 15:57:24: 8000000 INFO @ Sat, 15 Jan 2022 15:57:28: 14000000 INFO @ Sat, 15 Jan 2022 15:57:31: 6000000 INFO @ Sat, 15 Jan 2022 15:57:34: 9000000 INFO @ Sat, 15 Jan 2022 15:57:36: 15000000 INFO @ Sat, 15 Jan 2022 15:57:40: 7000000 INFO @ Sat, 15 Jan 2022 15:57:43: 16000000 INFO @ Sat, 15 Jan 2022 15:57:44: 10000000 INFO @ Sat, 15 Jan 2022 15:57:49: 8000000 INFO @ Sat, 15 Jan 2022 15:57:52: 17000000 INFO @ Sat, 15 Jan 2022 15:57:54: 11000000 INFO @ Sat, 15 Jan 2022 15:57:56: 9000000 INFO @ Sat, 15 Jan 2022 15:58:00: 18000000 INFO @ Sat, 15 Jan 2022 15:58:03: 12000000 INFO @ Sat, 15 Jan 2022 15:58:05: 10000000 INFO @ Sat, 15 Jan 2022 15:58:09: 19000000 INFO @ Sat, 15 Jan 2022 15:58:12: 11000000 INFO @ Sat, 15 Jan 2022 15:58:13: 13000000 INFO @ Sat, 15 Jan 2022 15:58:17: 20000000 INFO @ Sat, 15 Jan 2022 15:58:20: 12000000 INFO @ Sat, 15 Jan 2022 15:58:23: 14000000 INFO @ Sat, 15 Jan 2022 15:58:26: 21000000 INFO @ Sat, 15 Jan 2022 15:58:28: 13000000 INFO @ Sat, 15 Jan 2022 15:58:33: 15000000 INFO @ Sat, 15 Jan 2022 15:58:34: 22000000 INFO @ Sat, 15 Jan 2022 15:58:36: 14000000 INFO @ Sat, 15 Jan 2022 15:58:43: 16000000 INFO @ Sat, 15 Jan 2022 15:58:43: 23000000 INFO @ Sat, 15 Jan 2022 15:58:44: 15000000 INFO @ Sat, 15 Jan 2022 15:58:51: 24000000 INFO @ Sat, 15 Jan 2022 15:58:52: 16000000 INFO @ Sat, 15 Jan 2022 15:58:53: 17000000 INFO @ Sat, 15 Jan 2022 15:59:00: 17000000 INFO @ Sat, 15 Jan 2022 15:59:00: 25000000 INFO @ Sat, 15 Jan 2022 15:59:03: 18000000 INFO @ Sat, 15 Jan 2022 15:59:08: 26000000 INFO @ Sat, 15 Jan 2022 15:59:09: 18000000 INFO @ Sat, 15 Jan 2022 15:59:13: 19000000 INFO @ Sat, 15 Jan 2022 15:59:16: 27000000 INFO @ Sat, 15 Jan 2022 15:59:19: 19000000 INFO @ Sat, 15 Jan 2022 15:59:23: 20000000 INFO @ Sat, 15 Jan 2022 15:59:24: 28000000 INFO @ Sat, 15 Jan 2022 15:59:28: 20000000 INFO @ Sat, 15 Jan 2022 15:59:32: 29000000 INFO @ Sat, 15 Jan 2022 15:59:33: 21000000 INFO @ Sat, 15 Jan 2022 15:59:37: 21000000 INFO @ Sat, 15 Jan 2022 15:59:40: 30000000 INFO @ Sat, 15 Jan 2022 15:59:42: 22000000 INFO @ Sat, 15 Jan 2022 15:59:46: 22000000 INFO @ Sat, 15 Jan 2022 15:59:48: 31000000 INFO @ Sat, 15 Jan 2022 15:59:52: 23000000 INFO @ Sat, 15 Jan 2022 15:59:55: 23000000 INFO @ Sat, 15 Jan 2022 15:59:55: 32000000 INFO @ Sat, 15 Jan 2022 16:00:02: 24000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 16:00:03: 24000000 INFO @ Sat, 15 Jan 2022 16:00:03: 33000000 INFO @ Sat, 15 Jan 2022 16:00:11: 34000000 INFO @ Sat, 15 Jan 2022 16:00:12: 25000000 INFO @ Sat, 15 Jan 2022 16:00:13: 25000000 INFO @ Sat, 15 Jan 2022 16:00:19: 35000000 INFO @ Sat, 15 Jan 2022 16:00:21: 26000000 INFO @ Sat, 15 Jan 2022 16:00:21: 26000000 INFO @ Sat, 15 Jan 2022 16:00:27: 36000000 INFO @ Sat, 15 Jan 2022 16:00:31: 27000000 INFO @ Sat, 15 Jan 2022 16:00:31: 27000000 INFO @ Sat, 15 Jan 2022 16:00:36: 37000000 INFO @ Sat, 15 Jan 2022 16:00:41: 28000000 INFO @ Sat, 15 Jan 2022 16:00:42: 28000000 INFO @ Sat, 15 Jan 2022 16:00:44: 38000000 INFO @ Sat, 15 Jan 2022 16:00:51: 29000000 INFO @ Sat, 15 Jan 2022 16:00:52: 29000000 INFO @ Sat, 15 Jan 2022 16:00:52: 39000000 INFO @ Sat, 15 Jan 2022 16:01:00: 30000000 INFO @ Sat, 15 Jan 2022 16:01:01: 40000000 INFO @ Sat, 15 Jan 2022 16:01:03: 30000000 INFO @ Sat, 15 Jan 2022 16:01:09: 41000000 INFO @ Sat, 15 Jan 2022 16:01:09: 31000000 INFO @ Sat, 15 Jan 2022 16:01:12: 31000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 16:01:16: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 16:01:16: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 16:01:16: #1 total tags in treatment: 41758974 INFO @ Sat, 15 Jan 2022 16:01:16: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 16:01:16: #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 16:01:17: #1 tags after filtering in treatment: 41758798 INFO @ Sat, 15 Jan 2022 16:01:17: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 16:01:17: #1 finished! INFO @ Sat, 15 Jan 2022 16:01:17: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 16:01:17: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 16:01:18: 32000000 INFO @ Sat, 15 Jan 2022 16:01:22: 32000000 INFO @ Sat, 15 Jan 2022 16:01:24: #2 number of paired peaks: 46510 INFO @ Sat, 15 Jan 2022 16:01:24: start model_add_line... INFO @ Sat, 15 Jan 2022 16:01:25: start X-correlation... INFO @ Sat, 15 Jan 2022 16:01:25: end of X-cor INFO @ Sat, 15 Jan 2022 16:01:25: #2 finished! INFO @ Sat, 15 Jan 2022 16:01:25: #2 predicted fragment length is 254 bps INFO @ Sat, 15 Jan 2022 16:01:25: #2 alternative fragment length(s) may be 4,254 bps INFO @ Sat, 15 Jan 2022 16:01:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745131/ERX2745131.05_model.r INFO @ Sat, 15 Jan 2022 16:01:25: #3 Call peaks... INFO @ Sat, 15 Jan 2022 16:01:25: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 16:01:28: 33000000 INFO @ Sat, 15 Jan 2022 16:01:31: 33000000 INFO @ Sat, 15 Jan 2022 16:01:36: 34000000 INFO @ Sat, 15 Jan 2022 16:01:41: 34000000 INFO @ Sat, 15 Jan 2022 16:01:45: 35000000 INFO @ Sat, 15 Jan 2022 16:01:51: 35000000 INFO @ Sat, 15 Jan 2022 16:01:54: 36000000 INFO @ Sat, 15 Jan 2022 16:02:00: 36000000 INFO @ Sat, 15 Jan 2022 16:02:03: 37000000 INFO @ Sat, 15 Jan 2022 16:02:10: 37000000 INFO @ Sat, 15 Jan 2022 16:02:12: 38000000 INFO @ Sat, 15 Jan 2022 16:02:19: 38000000 INFO @ Sat, 15 Jan 2022 16:02:22: 39000000 INFO @ Sat, 15 Jan 2022 16:02:30: 39000000 INFO @ Sat, 15 Jan 2022 16:02:31: 40000000 INFO @ Sat, 15 Jan 2022 16:02:40: 40000000 INFO @ Sat, 15 Jan 2022 16:02:40: 41000000 INFO @ Sat, 15 Jan 2022 16:02:47: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 16:02:47: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 16:02:47: #1 total tags in treatment: 41758974 INFO @ Sat, 15 Jan 2022 16:02:47: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 16:02:47: #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 16:02:48: #1 tags after filtering in treatment: 41758798 INFO @ Sat, 15 Jan 2022 16:02:48: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 16:02:48: #1 finished! INFO @ Sat, 15 Jan 2022 16:02:48: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 16:02:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 16:02:50: 41000000 INFO @ Sat, 15 Jan 2022 16:02:56: #2 number of paired peaks: 46510 INFO @ Sat, 15 Jan 2022 16:02:56: start model_add_line... INFO @ Sat, 15 Jan 2022 16:02:57: start X-correlation... INFO @ Sat, 15 Jan 2022 16:02:57: end of X-cor INFO @ Sat, 15 Jan 2022 16:02:57: #2 finished! INFO @ Sat, 15 Jan 2022 16:02:57: #2 predicted fragment length is 254 bps INFO @ Sat, 15 Jan 2022 16:02:57: #2 alternative fragment length(s) may be 4,254 bps INFO @ Sat, 15 Jan 2022 16:02:57: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745131/ERX2745131.20_model.r INFO @ Sat, 15 Jan 2022 16:02:57: #3 Call peaks... INFO @ Sat, 15 Jan 2022 16:02:57: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 16:02:57: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 16:02:57: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 16:02:57: #1 total tags in treatment: 41758974 INFO @ Sat, 15 Jan 2022 16:02:57: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 16:02:57: #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 16:02:58: #1 tags after filtering in treatment: 41758798 INFO @ Sat, 15 Jan 2022 16:02:58: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 16:02:58: #1 finished! INFO @ Sat, 15 Jan 2022 16:02:58: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 16:02:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 16:03:05: #2 number of paired peaks: 46510 INFO @ Sat, 15 Jan 2022 16:03:05: start model_add_line... INFO @ Sat, 15 Jan 2022 16:03:06: start X-correlation... INFO @ Sat, 15 Jan 2022 16:03:06: end of X-cor INFO @ Sat, 15 Jan 2022 16:03:06: #2 finished! INFO @ Sat, 15 Jan 2022 16:03:06: #2 predicted fragment length is 254 bps INFO @ Sat, 15 Jan 2022 16:03:06: #2 alternative fragment length(s) may be 4,254 bps INFO @ Sat, 15 Jan 2022 16:03:06: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745131/ERX2745131.10_model.r INFO @ Sat, 15 Jan 2022 16:03:06: #3 Call peaks... INFO @ Sat, 15 Jan 2022 16:03:06: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 16:03:54: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 16:05:04: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745131/ERX2745131.05_peaks.xls INFO @ Sat, 15 Jan 2022 16:05:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745131/ERX2745131.05_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 16:05:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745131/ERX2745131.05_summits.bed INFO @ Sat, 15 Jan 2022 16:05:05: Done! pass1 - making usageList (148 chroms): 6 millis pass2 - checking and writing primary data (27046 records, 4 fields): 44 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 16:05:17: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 16:05:27: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 16:06:19: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745131/ERX2745131.20_peaks.xls INFO @ Sat, 15 Jan 2022 16:06:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745131/ERX2745131.20_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 16:06:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745131/ERX2745131.20_summits.bed INFO @ Sat, 15 Jan 2022 16:06:19: Done! pass1 - making usageList (119 chroms): 7 millis pass2 - checking and writing primary data (21605 records, 4 fields): 35 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 16:06:31: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745131/ERX2745131.10_peaks.xls INFO @ Sat, 15 Jan 2022 16:06:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745131/ERX2745131.10_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 16:06:32: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745131/ERX2745131.10_summits.bed INFO @ Sat, 15 Jan 2022 16:06:32: Done! pass1 - making usageList (135 chroms): 5 millis pass2 - checking and writing primary data (24218 records, 4 fields): 39 millis CompletedMACS2peakCalling