Job ID = 10223652 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... 2020-10-15T19:57:48 prefetch.2.10.7: 1) Downloading 'ERR2731902'... 2020-10-15T19:57:48 prefetch.2.10.7: Downloading via HTTPS... 2020-10-15T19:59:28 prefetch.2.10.7: HTTPS download succeed 2020-10-15T19:59:28 prefetch.2.10.7: 1) 'ERR2731902' was downloaded successfully 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: 00:00:02 Time loading mirror index: 00:00:01 Multiseed full-index search: 00:40:16 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: 00:40:21 Overall time: 00:40:21 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 16 Oct 2020 05:53:10: # 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 @ Fri, 16 Oct 2020 05:53:10: #1 read tag files... INFO @ Fri, 16 Oct 2020 05:53:10: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 05:53:17: 1000000 INFO @ Fri, 16 Oct 2020 05:53:23: 2000000 INFO @ Fri, 16 Oct 2020 05:53:29: 3000000 INFO @ Fri, 16 Oct 2020 05:53:34: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 16 Oct 2020 05:53:39: # 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 @ Fri, 16 Oct 2020 05:53:39: #1 read tag files... INFO @ Fri, 16 Oct 2020 05:53:39: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 05:53:40: 5000000 INFO @ Fri, 16 Oct 2020 05:53:47: 1000000 INFO @ Fri, 16 Oct 2020 05:53:47: 6000000 INFO @ Fri, 16 Oct 2020 05:53:53: 7000000 INFO @ Fri, 16 Oct 2020 05:53:54: 2000000 INFO @ Fri, 16 Oct 2020 05:54:00: 8000000 INFO @ Fri, 16 Oct 2020 05:54:01: 3000000 INFO @ Fri, 16 Oct 2020 05:54:07: 9000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 16 Oct 2020 05:54:08: 4000000 INFO @ Fri, 16 Oct 2020 05:54:09: # 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 @ Fri, 16 Oct 2020 05:54:09: #1 read tag files... INFO @ Fri, 16 Oct 2020 05:54:09: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 05:54:13: 10000000 INFO @ Fri, 16 Oct 2020 05:54:15: 5000000 INFO @ Fri, 16 Oct 2020 05:54:16: 1000000 INFO @ Fri, 16 Oct 2020 05:54:20: 11000000 INFO @ Fri, 16 Oct 2020 05:54:22: 6000000 INFO @ Fri, 16 Oct 2020 05:54:23: 2000000 INFO @ Fri, 16 Oct 2020 05:54:26: 12000000 INFO @ Fri, 16 Oct 2020 05:54:30: 7000000 INFO @ Fri, 16 Oct 2020 05:54:30: 3000000 INFO @ Fri, 16 Oct 2020 05:54:33: 13000000 INFO @ Fri, 16 Oct 2020 05:54:37: 8000000 INFO @ Fri, 16 Oct 2020 05:54:37: 4000000 INFO @ Fri, 16 Oct 2020 05:54:39: 14000000 INFO @ Fri, 16 Oct 2020 05:54:44: 9000000 INFO @ Fri, 16 Oct 2020 05:54:44: 5000000 INFO @ Fri, 16 Oct 2020 05:54:46: 15000000 INFO @ Fri, 16 Oct 2020 05:54:51: 10000000 INFO @ Fri, 16 Oct 2020 05:54:51: 6000000 INFO @ Fri, 16 Oct 2020 05:54:52: 16000000 INFO @ Fri, 16 Oct 2020 05:54:58: 11000000 INFO @ Fri, 16 Oct 2020 05:54:59: 7000000 INFO @ Fri, 16 Oct 2020 05:54:59: 17000000 INFO @ Fri, 16 Oct 2020 05:55:05: 12000000 INFO @ Fri, 16 Oct 2020 05:55:05: 8000000 INFO @ Fri, 16 Oct 2020 05:55:06: 18000000 INFO @ Fri, 16 Oct 2020 05:55:12: 13000000 INFO @ Fri, 16 Oct 2020 05:55:12: 9000000 INFO @ Fri, 16 Oct 2020 05:55:12: 19000000 INFO @ Fri, 16 Oct 2020 05:55:19: 14000000 INFO @ Fri, 16 Oct 2020 05:55:19: 10000000 INFO @ Fri, 16 Oct 2020 05:55:19: 20000000 INFO @ Fri, 16 Oct 2020 05:55:25: 15000000 INFO @ Fri, 16 Oct 2020 05:55:26: 11000000 INFO @ Fri, 16 Oct 2020 05:55:26: 21000000 INFO @ Fri, 16 Oct 2020 05:55:33: 16000000 INFO @ Fri, 16 Oct 2020 05:55:33: 12000000 INFO @ Fri, 16 Oct 2020 05:55:33: 22000000 INFO @ Fri, 16 Oct 2020 05:55:40: #1 tag size is determined as 50 bps INFO @ Fri, 16 Oct 2020 05:55:40: #1 tag size = 50 INFO @ Fri, 16 Oct 2020 05:55:40: #1 total tags in treatment: 22926837 INFO @ Fri, 16 Oct 2020 05:55:40: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 05:55:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 05:55:40: 17000000 INFO @ Fri, 16 Oct 2020 05:55:40: #1 tags after filtering in treatment: 22926694 INFO @ Fri, 16 Oct 2020 05:55:40: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 16 Oct 2020 05:55:40: #1 finished! INFO @ Fri, 16 Oct 2020 05:55:40: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 05:55:40: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 05:55:40: 13000000 INFO @ Fri, 16 Oct 2020 05:55:43: #2 number of paired peaks: 31159 INFO @ Fri, 16 Oct 2020 05:55:43: start model_add_line... INFO @ Fri, 16 Oct 2020 05:55:43: start X-correlation... INFO @ Fri, 16 Oct 2020 05:55:43: end of X-cor INFO @ Fri, 16 Oct 2020 05:55:43: #2 finished! INFO @ Fri, 16 Oct 2020 05:55:43: #2 predicted fragment length is 234 bps INFO @ Fri, 16 Oct 2020 05:55:43: #2 alternative fragment length(s) may be 234 bps INFO @ Fri, 16 Oct 2020 05:55:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.05_model.r INFO @ Fri, 16 Oct 2020 05:55:43: #3 Call peaks... INFO @ Fri, 16 Oct 2020 05:55:43: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 16 Oct 2020 05:55:47: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 16 Oct 2020 05:55:47: 14000000 INFO @ Fri, 16 Oct 2020 05:55:54: 15000000 INFO @ Fri, 16 Oct 2020 05:55:54: 19000000 INFO @ Fri, 16 Oct 2020 05:56:00: 16000000 INFO @ Fri, 16 Oct 2020 05:56:01: 20000000 INFO @ Fri, 16 Oct 2020 05:56:07: 17000000 INFO @ Fri, 16 Oct 2020 05:56:08: 21000000 INFO @ Fri, 16 Oct 2020 05:56:14: 18000000 INFO @ Fri, 16 Oct 2020 05:56:15: 22000000 INFO @ Fri, 16 Oct 2020 05:56:21: 19000000 INFO @ Fri, 16 Oct 2020 05:56:21: #1 tag size is determined as 50 bps INFO @ Fri, 16 Oct 2020 05:56:21: #1 tag size = 50 INFO @ Fri, 16 Oct 2020 05:56:21: #1 total tags in treatment: 22926837 INFO @ Fri, 16 Oct 2020 05:56:21: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 05:56:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 05:56:22: #1 tags after filtering in treatment: 22926694 INFO @ Fri, 16 Oct 2020 05:56:22: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 16 Oct 2020 05:56:22: #1 finished! INFO @ Fri, 16 Oct 2020 05:56:22: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 05:56:22: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Fri, 16 Oct 2020 05:56:25: #2 number of paired peaks: 31159 INFO @ Fri, 16 Oct 2020 05:56:25: start model_add_line... INFO @ Fri, 16 Oct 2020 05:56:25: start X-correlation... INFO @ Fri, 16 Oct 2020 05:56:25: end of X-cor INFO @ Fri, 16 Oct 2020 05:56:25: #2 finished! INFO @ Fri, 16 Oct 2020 05:56:25: #2 predicted fragment length is 234 bps INFO @ Fri, 16 Oct 2020 05:56:25: #2 alternative fragment length(s) may be 234 bps INFO @ Fri, 16 Oct 2020 05:56:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.10_model.r INFO @ Fri, 16 Oct 2020 05:56:25: #3 Call peaks... INFO @ Fri, 16 Oct 2020 05:56:25: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 16 Oct 2020 05:56:27: 20000000 INFO @ Fri, 16 Oct 2020 05:56:33: 21000000 INFO @ Fri, 16 Oct 2020 05:56:39: 22000000 INFO @ Fri, 16 Oct 2020 05:56:40: #3 Call peaks for each chromosome... INFO @ Fri, 16 Oct 2020 05:56:45: #1 tag size is determined as 50 bps INFO @ Fri, 16 Oct 2020 05:56:45: #1 tag size = 50 INFO @ Fri, 16 Oct 2020 05:56:45: #1 total tags in treatment: 22926837 INFO @ Fri, 16 Oct 2020 05:56:45: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 05:56:45: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 05:56:45: #1 tags after filtering in treatment: 22926694 INFO @ Fri, 16 Oct 2020 05:56:45: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 16 Oct 2020 05:56:45: #1 finished! INFO @ Fri, 16 Oct 2020 05:56:45: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 05:56:45: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 05:56:48: #2 number of paired peaks: 31159 INFO @ Fri, 16 Oct 2020 05:56:48: start model_add_line... INFO @ Fri, 16 Oct 2020 05:56:48: start X-correlation... INFO @ Fri, 16 Oct 2020 05:56:48: end of X-cor INFO @ Fri, 16 Oct 2020 05:56:48: #2 finished! INFO @ Fri, 16 Oct 2020 05:56:48: #2 predicted fragment length is 234 bps INFO @ Fri, 16 Oct 2020 05:56:48: #2 alternative fragment length(s) may be 234 bps INFO @ Fri, 16 Oct 2020 05:56:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.20_model.r INFO @ Fri, 16 Oct 2020 05:56:48: #3 Call peaks... INFO @ Fri, 16 Oct 2020 05:56:48: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 16 Oct 2020 05:57:12: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.05_peaks.xls INFO @ Fri, 16 Oct 2020 05:57:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.05_peaks.narrowPeak INFO @ Fri, 16 Oct 2020 05:57:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.05_summits.bed INFO @ Fri, 16 Oct 2020 05:57:12: Done! pass1 - making usageList (134 chroms): 4 millis pass2 - checking and writing primary data (20523 records, 4 fields): 23 millis CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 05:57:21: #3 Call peaks for each chromosome... INFO @ Fri, 16 Oct 2020 05:57:42: #3 Call peaks for each chromosome... INFO @ Fri, 16 Oct 2020 05:57:52: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.10_peaks.xls INFO @ Fri, 16 Oct 2020 05:57:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.10_peaks.narrowPeak INFO @ Fri, 16 Oct 2020 05:57:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.10_summits.bed INFO @ Fri, 16 Oct 2020 05:57:52: Done! pass1 - making usageList (123 chroms): 3 millis pass2 - checking and writing primary data (18338 records, 4 fields): 21 millis CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 05:58:11: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.20_peaks.xls INFO @ Fri, 16 Oct 2020 05:58:11: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.20_peaks.narrowPeak INFO @ Fri, 16 Oct 2020 05:58:11: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745127/ERX2745127.20_summits.bed INFO @ Fri, 16 Oct 2020 05:58:11: Done! pass1 - making usageList (105 chroms): 2 millis pass2 - checking and writing primary data (15760 records, 4 fields): 20 millis CompletedMACS2peakCalling