Job ID = 14519424 SRX = ERX2745124 Genome = rn6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 65333517 spots for ERR2731899/ERR2731899.sra Written 65333517 spots for ERR2731899/ERR2731899.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: 00:00:01 Time loading mirror index: 00:00:01 Multiseed full-index search: 00:31:57 65333517 reads; of these: 65333517 (100.00%) were unpaired; of these: 3343168 (5.12%) aligned 0 times 55999869 (85.71%) aligned exactly 1 time 5990480 (9.17%) aligned >1 times 94.88% overall alignment rate Time searching: 00:32:00 Overall time: 00:32:00 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 28 files... [bam_rmdupse_core] 38909811 / 61990349 = 0.6277 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 15:19:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX2745124/ERX2745124.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX2745124/ERX2745124.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX2745124/ERX2745124.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX2745124/ERX2745124.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 15:19:14: #1 read tag files... INFO @ Sat, 15 Jan 2022 15:19:14: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 15:19:23: 1000000 INFO @ Sat, 15 Jan 2022 15:19:31: 2000000 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 15:19:41: 3000000 INFO @ Sat, 15 Jan 2022 15:19:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX2745124/ERX2745124.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX2745124/ERX2745124.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX2745124/ERX2745124.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX2745124/ERX2745124.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 15:19:42: #1 read tag files... INFO @ Sat, 15 Jan 2022 15:19:42: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 15:19:51: 4000000 INFO @ Sat, 15 Jan 2022 15:19:53: 1000000 INFO @ Sat, 15 Jan 2022 15:20:01: 5000000 INFO @ Sat, 15 Jan 2022 15:20:03: 2000000 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 15:20:12: 6000000 INFO @ Sat, 15 Jan 2022 15:20:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX2745124/ERX2745124.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX2745124/ERX2745124.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX2745124/ERX2745124.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX2745124/ERX2745124.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 15:20:12: #1 read tag files... INFO @ Sat, 15 Jan 2022 15:20:12: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 15:20:14: 3000000 INFO @ Sat, 15 Jan 2022 15:20:22: 1000000 INFO @ Sat, 15 Jan 2022 15:20:22: 7000000 INFO @ Sat, 15 Jan 2022 15:20:24: 4000000 INFO @ Sat, 15 Jan 2022 15:20:32: 2000000 INFO @ Sat, 15 Jan 2022 15:20:32: 8000000 INFO @ Sat, 15 Jan 2022 15:20:35: 5000000 INFO @ Sat, 15 Jan 2022 15:20:42: 9000000 INFO @ Sat, 15 Jan 2022 15:20:42: 3000000 INFO @ Sat, 15 Jan 2022 15:20:44: 6000000 INFO @ Sat, 15 Jan 2022 15:20:52: 10000000 INFO @ Sat, 15 Jan 2022 15:20:52: 4000000 INFO @ Sat, 15 Jan 2022 15:20:54: 7000000 INFO @ Sat, 15 Jan 2022 15:21:01: 11000000 INFO @ Sat, 15 Jan 2022 15:21:02: 5000000 INFO @ Sat, 15 Jan 2022 15:21:03: 8000000 INFO @ Sat, 15 Jan 2022 15:21:10: 12000000 INFO @ Sat, 15 Jan 2022 15:21:12: 6000000 INFO @ Sat, 15 Jan 2022 15:21:13: 9000000 INFO @ Sat, 15 Jan 2022 15:21:20: 13000000 INFO @ Sat, 15 Jan 2022 15:21:22: 7000000 INFO @ Sat, 15 Jan 2022 15:21:22: 10000000 INFO @ Sat, 15 Jan 2022 15:21:29: 14000000 INFO @ Sat, 15 Jan 2022 15:21:31: 11000000 INFO @ Sat, 15 Jan 2022 15:21:31: 8000000 INFO @ Sat, 15 Jan 2022 15:21:39: 15000000 INFO @ Sat, 15 Jan 2022 15:21:41: 12000000 INFO @ Sat, 15 Jan 2022 15:21:41: 9000000 INFO @ Sat, 15 Jan 2022 15:21:49: 16000000 INFO @ Sat, 15 Jan 2022 15:21:50: 10000000 INFO @ Sat, 15 Jan 2022 15:21:51: 13000000 INFO @ Sat, 15 Jan 2022 15:21:59: 17000000 INFO @ Sat, 15 Jan 2022 15:22:00: 11000000 INFO @ Sat, 15 Jan 2022 15:22:01: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 15:22:08: 18000000 INFO @ Sat, 15 Jan 2022 15:22:09: 12000000 INFO @ Sat, 15 Jan 2022 15:22:09: 15000000 INFO @ Sat, 15 Jan 2022 15:22:17: 19000000 INFO @ Sat, 15 Jan 2022 15:22:18: 13000000 INFO @ Sat, 15 Jan 2022 15:22:18: 16000000 INFO @ Sat, 15 Jan 2022 15:22:26: 20000000 INFO @ Sat, 15 Jan 2022 15:22:27: 17000000 INFO @ Sat, 15 Jan 2022 15:22:28: 14000000 INFO @ Sat, 15 Jan 2022 15:22:35: 21000000 INFO @ Sat, 15 Jan 2022 15:22:36: 18000000 INFO @ Sat, 15 Jan 2022 15:22:37: 15000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 15:22:45: 22000000 INFO @ Sat, 15 Jan 2022 15:22:45: 19000000 INFO @ Sat, 15 Jan 2022 15:22:46: 16000000 INFO @ Sat, 15 Jan 2022 15:22:54: 20000000 INFO @ Sat, 15 Jan 2022 15:22:54: 23000000 INFO @ Sat, 15 Jan 2022 15:22:55: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 15:22:55: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 15:22:55: #1 total tags in treatment: 23080538 INFO @ Sat, 15 Jan 2022 15:22:55: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 15:22:55: #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 15:22:56: #1 tags after filtering in treatment: 23080265 INFO @ Sat, 15 Jan 2022 15:22:56: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 15:22:56: #1 finished! INFO @ Sat, 15 Jan 2022 15:22:56: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 15:22:56: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 15:22:56: 17000000 INFO @ Sat, 15 Jan 2022 15:22:59: #2 number of paired peaks: 26966 INFO @ Sat, 15 Jan 2022 15:22:59: start model_add_line... INFO @ Sat, 15 Jan 2022 15:23:00: start X-correlation... INFO @ Sat, 15 Jan 2022 15:23:00: end of X-cor INFO @ Sat, 15 Jan 2022 15:23:00: #2 finished! INFO @ Sat, 15 Jan 2022 15:23:00: #2 predicted fragment length is 214 bps INFO @ Sat, 15 Jan 2022 15:23:00: #2 alternative fragment length(s) may be 214 bps INFO @ Sat, 15 Jan 2022 15:23:00: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745124/ERX2745124.05_model.r INFO @ Sat, 15 Jan 2022 15:23:00: #3 Call peaks... INFO @ Sat, 15 Jan 2022 15:23:00: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 15:23:03: 21000000 INFO @ Sat, 15 Jan 2022 15:23:06: 18000000 INFO @ Sat, 15 Jan 2022 15:23:12: 22000000 INFO @ Sat, 15 Jan 2022 15:23:15: 19000000 INFO @ Sat, 15 Jan 2022 15:23:20: 23000000 INFO @ Sat, 15 Jan 2022 15:23:21: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 15:23:21: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 15:23:21: #1 total tags in treatment: 23080538 INFO @ Sat, 15 Jan 2022 15:23:21: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 15:23:21: #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 15:23:22: #1 tags after filtering in treatment: 23080265 INFO @ Sat, 15 Jan 2022 15:23:22: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 15:23:22: #1 finished! INFO @ Sat, 15 Jan 2022 15:23:22: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 15:23:22: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 15:23:25: 20000000 INFO @ Sat, 15 Jan 2022 15:23:25: #2 number of paired peaks: 26966 INFO @ Sat, 15 Jan 2022 15:23:25: start model_add_line... INFO @ Sat, 15 Jan 2022 15:23:26: start X-correlation... INFO @ Sat, 15 Jan 2022 15:23:26: end of X-cor INFO @ Sat, 15 Jan 2022 15:23:26: #2 finished! INFO @ Sat, 15 Jan 2022 15:23:26: #2 predicted fragment length is 214 bps INFO @ Sat, 15 Jan 2022 15:23:26: #2 alternative fragment length(s) may be 214 bps INFO @ Sat, 15 Jan 2022 15:23:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745124/ERX2745124.10_model.r INFO @ Sat, 15 Jan 2022 15:23:26: #3 Call peaks... INFO @ Sat, 15 Jan 2022 15:23:26: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 15:23:34: 21000000 INFO @ Sat, 15 Jan 2022 15:23:44: 22000000 INFO @ Sat, 15 Jan 2022 15:23:54: 23000000 INFO @ Sat, 15 Jan 2022 15:23:54: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 15:23:54: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 15:23:54: #1 total tags in treatment: 23080538 INFO @ Sat, 15 Jan 2022 15:23:54: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 15:23:54: #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 15:23:55: #1 tags after filtering in treatment: 23080265 INFO @ Sat, 15 Jan 2022 15:23:55: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 15:23:55: #1 finished! INFO @ Sat, 15 Jan 2022 15:23:55: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 15:23:55: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 15:23:59: #2 number of paired peaks: 26966 INFO @ Sat, 15 Jan 2022 15:23:59: start model_add_line... INFO @ Sat, 15 Jan 2022 15:23:59: start X-correlation... INFO @ Sat, 15 Jan 2022 15:23:59: end of X-cor INFO @ Sat, 15 Jan 2022 15:23:59: #2 finished! INFO @ Sat, 15 Jan 2022 15:23:59: #2 predicted fragment length is 214 bps INFO @ Sat, 15 Jan 2022 15:23:59: #2 alternative fragment length(s) may be 214 bps INFO @ Sat, 15 Jan 2022 15:23:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745124/ERX2745124.20_model.r INFO @ Sat, 15 Jan 2022 15:23:59: #3 Call peaks... INFO @ Sat, 15 Jan 2022 15:23:59: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 15:24:16: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 15:24:42: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 15:24:51: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745124/ERX2745124.05_peaks.xls INFO @ Sat, 15 Jan 2022 15:24:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745124/ERX2745124.05_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 15:24:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745124/ERX2745124.05_summits.bed INFO @ Sat, 15 Jan 2022 15:24:52: Done! pass1 - making usageList (137 chroms): 12 millis pass2 - checking and writing primary data (23712 records, 4 fields): 39 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 15:25:17: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745124/ERX2745124.10_peaks.xls INFO @ Sat, 15 Jan 2022 15:25:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745124/ERX2745124.10_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 15:25:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745124/ERX2745124.10_summits.bed INFO @ Sat, 15 Jan 2022 15:25:18: Done! pass1 - making usageList (122 chroms): 11 millis pass2 - checking and writing primary data (21394 records, 4 fields): 34 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 15:25:20: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 15:25:58: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745124/ERX2745124.20_peaks.xls INFO @ Sat, 15 Jan 2022 15:25:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745124/ERX2745124.20_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 15:25:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745124/ERX2745124.20_summits.bed INFO @ Sat, 15 Jan 2022 15:25:59: Done! pass1 - making usageList (114 chroms): 5 millis pass2 - checking and writing primary data (19089 records, 4 fields): 38 millis CompletedMACS2peakCalling