Job ID = 14519435 SRX = ERX2745127 Genome = rn6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 81498012 spots for ERR2731902/ERR2731902.sra Written 81498012 spots for ERR2731902/ERR2731902.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: 00:47:29 81498012 reads; of these: 81498012 (100.00%) were unpaired; of these: 4192120 (5.14%) aligned 0 times 65584254 (80.47%) aligned exactly 1 time 11721638 (14.38%) aligned >1 times 94.86% overall alignment rate Time searching: 00:47:32 Overall time: 00:47:32 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 32 files... [bam_rmdupse_core] 54379055 / 77305892 = 0.7034 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 15:39:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.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 15:39:15: #1 read tag files... INFO @ Sat, 15 Jan 2022 15:39:15: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 15:39:21: 1000000 INFO @ Sat, 15 Jan 2022 15:39:27: 2000000 INFO @ Sat, 15 Jan 2022 15:39:33: 3000000 INFO @ Sat, 15 Jan 2022 15:39:39: 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 15:39:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.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 15:39:44: #1 read tag files... INFO @ Sat, 15 Jan 2022 15:39:44: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 15:39:45: 5000000 INFO @ Sat, 15 Jan 2022 15:39:51: 1000000 INFO @ Sat, 15 Jan 2022 15:39:52: 6000000 INFO @ Sat, 15 Jan 2022 15:39:57: 2000000 INFO @ Sat, 15 Jan 2022 15:39:58: 7000000 INFO @ Sat, 15 Jan 2022 15:40:04: 3000000 INFO @ Sat, 15 Jan 2022 15:40:05: 8000000 INFO @ Sat, 15 Jan 2022 15:40:10: 4000000 INFO @ Sat, 15 Jan 2022 15:40:12: 9000000 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 15:40:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.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 15:40:14: #1 read tag files... INFO @ Sat, 15 Jan 2022 15:40:14: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 15:40:17: 5000000 INFO @ Sat, 15 Jan 2022 15:40:19: 10000000 INFO @ Sat, 15 Jan 2022 15:40:21: 1000000 INFO @ Sat, 15 Jan 2022 15:40:24: 6000000 INFO @ Sat, 15 Jan 2022 15:40:26: 11000000 INFO @ Sat, 15 Jan 2022 15:40:28: 2000000 INFO @ Sat, 15 Jan 2022 15:40:31: 7000000 INFO @ Sat, 15 Jan 2022 15:40:33: 12000000 INFO @ Sat, 15 Jan 2022 15:40:35: 3000000 INFO @ Sat, 15 Jan 2022 15:40:38: 8000000 INFO @ Sat, 15 Jan 2022 15:40:40: 13000000 INFO @ Sat, 15 Jan 2022 15:40:42: 4000000 INFO @ Sat, 15 Jan 2022 15:40:45: 9000000 INFO @ Sat, 15 Jan 2022 15:40:47: 14000000 INFO @ Sat, 15 Jan 2022 15:40:49: 5000000 INFO @ Sat, 15 Jan 2022 15:40:52: 10000000 INFO @ Sat, 15 Jan 2022 15:40:54: 15000000 INFO @ Sat, 15 Jan 2022 15:40:56: 6000000 INFO @ Sat, 15 Jan 2022 15:40:59: 11000000 INFO @ Sat, 15 Jan 2022 15:41:01: 16000000 INFO @ Sat, 15 Jan 2022 15:41:03: 7000000 INFO @ Sat, 15 Jan 2022 15:41:07: 12000000 INFO @ Sat, 15 Jan 2022 15:41:08: 17000000 INFO @ Sat, 15 Jan 2022 15:41:10: 8000000 INFO @ Sat, 15 Jan 2022 15:41:14: 13000000 INFO @ Sat, 15 Jan 2022 15:41:15: 18000000 INFO @ Sat, 15 Jan 2022 15:41:17: 9000000 INFO @ Sat, 15 Jan 2022 15:41:21: 14000000 INFO @ Sat, 15 Jan 2022 15:41:22: 19000000 INFO @ Sat, 15 Jan 2022 15:41:24: 10000000 INFO @ Sat, 15 Jan 2022 15:41:27: 15000000 INFO @ Sat, 15 Jan 2022 15:41:29: 20000000 INFO @ Sat, 15 Jan 2022 15:41:31: 11000000 INFO @ Sat, 15 Jan 2022 15:41:34: 16000000 INFO @ Sat, 15 Jan 2022 15:41:36: 21000000 INFO @ Sat, 15 Jan 2022 15:41:38: 12000000 INFO @ Sat, 15 Jan 2022 15:41:41: 17000000 INFO @ Sat, 15 Jan 2022 15:41:43: 22000000 INFO @ Sat, 15 Jan 2022 15:41:45: 13000000 INFO @ Sat, 15 Jan 2022 15:41:48: 18000000 INFO @ Sat, 15 Jan 2022 15:41:49: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 15:41:49: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 15:41:49: #1 total tags in treatment: 22926837 INFO @ Sat, 15 Jan 2022 15:41:49: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 15:41:49: #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 15:41:50: #1 tags after filtering in treatment: 22926694 INFO @ Sat, 15 Jan 2022 15:41:50: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 15:41:50: #1 finished! INFO @ Sat, 15 Jan 2022 15:41:50: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 15:41:50: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 15:41:52: 14000000 INFO @ Sat, 15 Jan 2022 15:41:53: #2 number of paired peaks: 31159 INFO @ Sat, 15 Jan 2022 15:41:53: start model_add_line... INFO @ Sat, 15 Jan 2022 15:41:54: start X-correlation... INFO @ Sat, 15 Jan 2022 15:41:54: end of X-cor INFO @ Sat, 15 Jan 2022 15:41:54: #2 finished! INFO @ Sat, 15 Jan 2022 15:41:54: #2 predicted fragment length is 234 bps INFO @ Sat, 15 Jan 2022 15:41:54: #2 alternative fragment length(s) may be 234 bps INFO @ Sat, 15 Jan 2022 15:41:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.05_model.r INFO @ Sat, 15 Jan 2022 15:41:54: #3 Call peaks... INFO @ Sat, 15 Jan 2022 15:41:54: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 15:41:55: 19000000 INFO @ Sat, 15 Jan 2022 15:41:59: 15000000 INFO @ Sat, 15 Jan 2022 15:42:01: 20000000 INFO @ Sat, 15 Jan 2022 15:42:06: 16000000 INFO @ Sat, 15 Jan 2022 15:42:07: 21000000 INFO @ Sat, 15 Jan 2022 15:42:12: 17000000 INFO @ Sat, 15 Jan 2022 15:42:14: 22000000 INFO @ Sat, 15 Jan 2022 15:42:19: 18000000 INFO @ Sat, 15 Jan 2022 15:42:21: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 15:42:21: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 15:42:21: #1 total tags in treatment: 22926837 INFO @ Sat, 15 Jan 2022 15:42:21: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 15:42:21: #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 15:42:21: #1 tags after filtering in treatment: 22926694 INFO @ Sat, 15 Jan 2022 15:42:21: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 15:42:21: #1 finished! INFO @ Sat, 15 Jan 2022 15:42:21: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 15:42:21: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 15:42:24: #2 number of paired peaks: 31159 INFO @ Sat, 15 Jan 2022 15:42:24: start model_add_line... INFO @ Sat, 15 Jan 2022 15:42:25: 19000000 INFO @ Sat, 15 Jan 2022 15:42:25: start X-correlation... INFO @ Sat, 15 Jan 2022 15:42:25: end of X-cor INFO @ Sat, 15 Jan 2022 15:42:25: #2 finished! INFO @ Sat, 15 Jan 2022 15:42:25: #2 predicted fragment length is 234 bps INFO @ Sat, 15 Jan 2022 15:42:25: #2 alternative fragment length(s) may be 234 bps INFO @ Sat, 15 Jan 2022 15:42:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.10_model.r INFO @ Sat, 15 Jan 2022 15:42:25: #3 Call peaks... INFO @ Sat, 15 Jan 2022 15:42:25: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 15:42:31: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 15:42:37: 21000000 INFO @ Sat, 15 Jan 2022 15:42:45: 22000000 INFO @ Sat, 15 Jan 2022 15:42:51: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 15:42:51: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 15:42:51: #1 total tags in treatment: 22926837 INFO @ Sat, 15 Jan 2022 15:42:51: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 15:42:51: #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 15:42:52: #1 tags after filtering in treatment: 22926694 INFO @ Sat, 15 Jan 2022 15:42:52: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 15:42:52: #1 finished! INFO @ Sat, 15 Jan 2022 15:42:52: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 15:42:52: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 15:42:52: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 15:42:55: #2 number of paired peaks: 31159 INFO @ Sat, 15 Jan 2022 15:42:55: start model_add_line... INFO @ Sat, 15 Jan 2022 15:42:56: start X-correlation... INFO @ Sat, 15 Jan 2022 15:42:56: end of X-cor INFO @ Sat, 15 Jan 2022 15:42:56: #2 finished! INFO @ Sat, 15 Jan 2022 15:42:56: #2 predicted fragment length is 234 bps INFO @ Sat, 15 Jan 2022 15:42:56: #2 alternative fragment length(s) may be 234 bps INFO @ Sat, 15 Jan 2022 15:42:56: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.20_model.r INFO @ Sat, 15 Jan 2022 15:42:56: #3 Call peaks... INFO @ Sat, 15 Jan 2022 15:42:56: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 15:43:23: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 15:43:24: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.05_peaks.xls INFO @ Sat, 15 Jan 2022 15:43:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.05_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 15:43:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.05_summits.bed INFO @ Sat, 15 Jan 2022 15:43:24: Done! pass1 - making usageList (134 chroms): 4 millis pass2 - checking and writing primary data (20523 records, 4 fields): 56 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 15:43:54: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 15:43:56: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.10_peaks.xls INFO @ Sat, 15 Jan 2022 15:43:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.10_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 15:43:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.10_summits.bed INFO @ Sat, 15 Jan 2022 15:43:56: Done! pass1 - making usageList (123 chroms): 3 millis pass2 - checking and writing primary data (18338 records, 4 fields): 31 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 15:44:27: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.20_peaks.xls INFO @ Sat, 15 Jan 2022 15:44:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.20_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 15:44:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.20_summits.bed INFO @ Sat, 15 Jan 2022 15:44:27: Done! pass1 - making usageList (105 chroms): 3 millis pass2 - checking and writing primary data (15760 records, 4 fields): 43 millis CompletedMACS2peakCalling