Job ID = 10223555 SRX = ERX2745101 Genome = rn6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-10-15T17:52:22 prefetch.2.10.7: 1) Downloading 'ERR2731876'... 2020-10-15T17:52:22 prefetch.2.10.7: Downloading via HTTPS... 2020-10-15T17:54:30 prefetch.2.10.7: HTTPS download succeed 2020-10-15T17:54:30 prefetch.2.10.7: 1) 'ERR2731876' was downloaded successfully Read 73223390 spots for ERR2731876/ERR2731876.sra Written 73223390 spots for ERR2731876/ERR2731876.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: 00:00:00 Multiseed full-index search: 00:46:02 73223390 reads; of these: 73223390 (100.00%) were unpaired; of these: 2470392 (3.37%) aligned 0 times 62188458 (84.93%) aligned exactly 1 time 8564540 (11.70%) aligned >1 times 96.63% overall alignment rate Time searching: 00:46:04 Overall time: 00:46:04 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] 23331001 / 70752998 = 0.3298 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 03:54:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX2745101/ERX2745101.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX2745101/ERX2745101.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX2745101/ERX2745101.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX2745101/ERX2745101.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 03:54:36: #1 read tag files... INFO @ Fri, 16 Oct 2020 03:54:36: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 03:54:42: 1000000 INFO @ Fri, 16 Oct 2020 03:54:47: 2000000 INFO @ Fri, 16 Oct 2020 03:54:52: 3000000 INFO @ Fri, 16 Oct 2020 03:54:57: 4000000 INFO @ Fri, 16 Oct 2020 03:55:03: 5000000 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 03:55:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX2745101/ERX2745101.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX2745101/ERX2745101.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX2745101/ERX2745101.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX2745101/ERX2745101.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 03:55:06: #1 read tag files... INFO @ Fri, 16 Oct 2020 03:55:06: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 03:55:08: 6000000 INFO @ Fri, 16 Oct 2020 03:55:12: 1000000 INFO @ Fri, 16 Oct 2020 03:55:14: 7000000 INFO @ Fri, 16 Oct 2020 03:55:18: 2000000 INFO @ Fri, 16 Oct 2020 03:55:20: 8000000 INFO @ Fri, 16 Oct 2020 03:55:24: 3000000 INFO @ Fri, 16 Oct 2020 03:55:26: 9000000 INFO @ Fri, 16 Oct 2020 03:55:30: 4000000 INFO @ Fri, 16 Oct 2020 03:55:32: 10000000 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 03:55:36: 5000000 INFO @ Fri, 16 Oct 2020 03:55:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX2745101/ERX2745101.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX2745101/ERX2745101.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX2745101/ERX2745101.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX2745101/ERX2745101.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 03:55:36: #1 read tag files... INFO @ Fri, 16 Oct 2020 03:55:36: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 03:55:38: 11000000 INFO @ Fri, 16 Oct 2020 03:55:42: 6000000 INFO @ Fri, 16 Oct 2020 03:55:42: 1000000 INFO @ Fri, 16 Oct 2020 03:55:44: 12000000 INFO @ Fri, 16 Oct 2020 03:55:48: 7000000 INFO @ Fri, 16 Oct 2020 03:55:48: 2000000 INFO @ Fri, 16 Oct 2020 03:55:50: 13000000 INFO @ Fri, 16 Oct 2020 03:55:54: 8000000 INFO @ Fri, 16 Oct 2020 03:55:54: 3000000 INFO @ Fri, 16 Oct 2020 03:55:56: 14000000 INFO @ Fri, 16 Oct 2020 03:56:00: 9000000 INFO @ Fri, 16 Oct 2020 03:56:00: 4000000 INFO @ Fri, 16 Oct 2020 03:56:01: 15000000 INFO @ Fri, 16 Oct 2020 03:56:06: 10000000 INFO @ Fri, 16 Oct 2020 03:56:06: 5000000 INFO @ Fri, 16 Oct 2020 03:56:07: 16000000 INFO @ Fri, 16 Oct 2020 03:56:12: 11000000 INFO @ Fri, 16 Oct 2020 03:56:12: 6000000 INFO @ Fri, 16 Oct 2020 03:56:13: 17000000 INFO @ Fri, 16 Oct 2020 03:56:18: 12000000 INFO @ Fri, 16 Oct 2020 03:56:18: 7000000 INFO @ Fri, 16 Oct 2020 03:56:19: 18000000 INFO @ Fri, 16 Oct 2020 03:56:24: 13000000 INFO @ Fri, 16 Oct 2020 03:56:24: 8000000 INFO @ Fri, 16 Oct 2020 03:56:25: 19000000 INFO @ Fri, 16 Oct 2020 03:56:30: 14000000 INFO @ Fri, 16 Oct 2020 03:56:30: 9000000 INFO @ Fri, 16 Oct 2020 03:56:31: 20000000 INFO @ Fri, 16 Oct 2020 03:56:36: 15000000 INFO @ Fri, 16 Oct 2020 03:56:36: 10000000 INFO @ Fri, 16 Oct 2020 03:56:37: 21000000 INFO @ Fri, 16 Oct 2020 03:56:42: 16000000 INFO @ Fri, 16 Oct 2020 03:56:43: 11000000 INFO @ Fri, 16 Oct 2020 03:56:43: 22000000 INFO @ Fri, 16 Oct 2020 03:56:48: 17000000 INFO @ Fri, 16 Oct 2020 03:56:49: 12000000 INFO @ Fri, 16 Oct 2020 03:56:49: 23000000 INFO @ Fri, 16 Oct 2020 03:56:54: 18000000 INFO @ Fri, 16 Oct 2020 03:56:55: 13000000 INFO @ Fri, 16 Oct 2020 03:56:55: 24000000 INFO @ Fri, 16 Oct 2020 03:57:00: 19000000 INFO @ Fri, 16 Oct 2020 03:57:01: 14000000 INFO @ Fri, 16 Oct 2020 03:57:01: 25000000 INFO @ Fri, 16 Oct 2020 03:57:06: 20000000 INFO @ Fri, 16 Oct 2020 03:57:07: 15000000 INFO @ Fri, 16 Oct 2020 03:57:07: 26000000 INFO @ Fri, 16 Oct 2020 03:57:12: 21000000 INFO @ Fri, 16 Oct 2020 03:57:13: 16000000 INFO @ Fri, 16 Oct 2020 03:57:13: 27000000 INFO @ Fri, 16 Oct 2020 03:57:18: 22000000 INFO @ Fri, 16 Oct 2020 03:57:19: 17000000 INFO @ Fri, 16 Oct 2020 03:57:19: 28000000 INFO @ Fri, 16 Oct 2020 03:57:24: 23000000 INFO @ Fri, 16 Oct 2020 03:57:25: 18000000 INFO @ Fri, 16 Oct 2020 03:57:25: 29000000 INFO @ Fri, 16 Oct 2020 03:57:30: 24000000 INFO @ Fri, 16 Oct 2020 03:57:31: 19000000 INFO @ Fri, 16 Oct 2020 03:57:31: 30000000 INFO @ Fri, 16 Oct 2020 03:57:36: 25000000 INFO @ Fri, 16 Oct 2020 03:57:37: 20000000 INFO @ Fri, 16 Oct 2020 03:57:37: 31000000 INFO @ Fri, 16 Oct 2020 03:57:42: 26000000 INFO @ Fri, 16 Oct 2020 03:57:43: 21000000 INFO @ Fri, 16 Oct 2020 03:57:43: 32000000 INFO @ Fri, 16 Oct 2020 03:57:48: 27000000 INFO @ Fri, 16 Oct 2020 03:57:49: 22000000 INFO @ Fri, 16 Oct 2020 03:57:49: 33000000 INFO @ Fri, 16 Oct 2020 03:57:54: 28000000 INFO @ Fri, 16 Oct 2020 03:57:55: 23000000 INFO @ Fri, 16 Oct 2020 03:57:55: 34000000 INFO @ Fri, 16 Oct 2020 03:58:00: 29000000 INFO @ Fri, 16 Oct 2020 03:58:01: 24000000 INFO @ Fri, 16 Oct 2020 03:58:01: 35000000 INFO @ Fri, 16 Oct 2020 03:58:06: 30000000 INFO @ Fri, 16 Oct 2020 03:58:07: 36000000 INFO @ Fri, 16 Oct 2020 03:58:07: 25000000 INFO @ Fri, 16 Oct 2020 03:58:12: 31000000 INFO @ Fri, 16 Oct 2020 03:58:13: 37000000 INFO @ Fri, 16 Oct 2020 03:58:13: 26000000 INFO @ Fri, 16 Oct 2020 03:58:18: 32000000 INFO @ Fri, 16 Oct 2020 03:58:19: 38000000 INFO @ Fri, 16 Oct 2020 03:58:19: 27000000 INFO @ Fri, 16 Oct 2020 03:58:24: 33000000 INFO @ Fri, 16 Oct 2020 03:58:25: 39000000 INFO @ Fri, 16 Oct 2020 03:58:25: 28000000 INFO @ Fri, 16 Oct 2020 03:58:30: 34000000 INFO @ Fri, 16 Oct 2020 03:58:31: 40000000 INFO @ Fri, 16 Oct 2020 03:58:31: 29000000 INFO @ Fri, 16 Oct 2020 03:58:36: 35000000 INFO @ Fri, 16 Oct 2020 03:58:37: 41000000 INFO @ Fri, 16 Oct 2020 03:58:37: 30000000 INFO @ Fri, 16 Oct 2020 03:58:42: 36000000 INFO @ Fri, 16 Oct 2020 03:58:43: 42000000 INFO @ Fri, 16 Oct 2020 03:58:43: 31000000 INFO @ Fri, 16 Oct 2020 03:58:48: 37000000 INFO @ Fri, 16 Oct 2020 03:58:49: 43000000 INFO @ Fri, 16 Oct 2020 03:58:49: 32000000 INFO @ Fri, 16 Oct 2020 03:58:54: 38000000 INFO @ Fri, 16 Oct 2020 03:58:55: 44000000 INFO @ Fri, 16 Oct 2020 03:58:55: 33000000 INFO @ Fri, 16 Oct 2020 03:59:00: 39000000 INFO @ Fri, 16 Oct 2020 03:59:01: 45000000 INFO @ Fri, 16 Oct 2020 03:59:01: 34000000 INFO @ Fri, 16 Oct 2020 03:59:06: 40000000 INFO @ Fri, 16 Oct 2020 03:59:07: 46000000 INFO @ Fri, 16 Oct 2020 03:59:07: 35000000 INFO @ Fri, 16 Oct 2020 03:59:12: 41000000 INFO @ Fri, 16 Oct 2020 03:59:13: 47000000 INFO @ Fri, 16 Oct 2020 03:59:13: 36000000 INFO @ Fri, 16 Oct 2020 03:59:16: #1 tag size is determined as 50 bps INFO @ Fri, 16 Oct 2020 03:59:16: #1 tag size = 50 INFO @ Fri, 16 Oct 2020 03:59:16: #1 total tags in treatment: 47421997 INFO @ Fri, 16 Oct 2020 03:59:16: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 03:59:16: #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 03:59:17: #1 tags after filtering in treatment: 47421832 INFO @ Fri, 16 Oct 2020 03:59:17: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 16 Oct 2020 03:59:17: #1 finished! INFO @ Fri, 16 Oct 2020 03:59:17: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 03:59:17: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 03:59:18: 42000000 INFO @ Fri, 16 Oct 2020 03:59:19: 37000000 INFO @ Fri, 16 Oct 2020 03:59:24: #2 number of paired peaks: 118870 INFO @ Fri, 16 Oct 2020 03:59:24: start model_add_line... INFO @ Fri, 16 Oct 2020 03:59:24: 43000000 INFO @ Fri, 16 Oct 2020 03:59:25: start X-correlation... INFO @ Fri, 16 Oct 2020 03:59:25: end of X-cor INFO @ Fri, 16 Oct 2020 03:59:25: #2 finished! INFO @ Fri, 16 Oct 2020 03:59:25: #2 predicted fragment length is 223 bps INFO @ Fri, 16 Oct 2020 03:59:25: #2 alternative fragment length(s) may be 223 bps INFO @ Fri, 16 Oct 2020 03:59:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745101/ERX2745101.05_model.r INFO @ Fri, 16 Oct 2020 03:59:25: #3 Call peaks... INFO @ Fri, 16 Oct 2020 03:59:25: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 16 Oct 2020 03:59:25: 38000000 INFO @ Fri, 16 Oct 2020 03:59:30: 44000000 INFO @ Fri, 16 Oct 2020 03:59:31: 39000000 INFO @ Fri, 16 Oct 2020 03:59:36: 45000000 INFO @ Fri, 16 Oct 2020 03:59:37: 40000000 INFO @ Fri, 16 Oct 2020 03:59:42: 46000000 INFO @ Fri, 16 Oct 2020 03:59:43: 41000000 INFO @ Fri, 16 Oct 2020 03:59:49: 47000000 INFO @ Fri, 16 Oct 2020 03:59:49: 42000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 16 Oct 2020 03:59:51: #1 tag size is determined as 50 bps INFO @ Fri, 16 Oct 2020 03:59:51: #1 tag size = 50 INFO @ Fri, 16 Oct 2020 03:59:51: #1 total tags in treatment: 47421997 INFO @ Fri, 16 Oct 2020 03:59:51: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 03:59:51: #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 03:59:52: #1 tags after filtering in treatment: 47421832 INFO @ Fri, 16 Oct 2020 03:59:52: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 16 Oct 2020 03:59:52: #1 finished! INFO @ Fri, 16 Oct 2020 03:59:52: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 03:59:52: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 03:59:55: 43000000 INFO @ Fri, 16 Oct 2020 04:00:00: #2 number of paired peaks: 118870 INFO @ Fri, 16 Oct 2020 04:00:00: start model_add_line... INFO @ Fri, 16 Oct 2020 04:00:01: start X-correlation... INFO @ Fri, 16 Oct 2020 04:00:01: end of X-cor INFO @ Fri, 16 Oct 2020 04:00:01: #2 finished! INFO @ Fri, 16 Oct 2020 04:00:01: #2 predicted fragment length is 223 bps INFO @ Fri, 16 Oct 2020 04:00:01: #2 alternative fragment length(s) may be 223 bps INFO @ Fri, 16 Oct 2020 04:00:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745101/ERX2745101.10_model.r INFO @ Fri, 16 Oct 2020 04:00:01: #3 Call peaks... INFO @ Fri, 16 Oct 2020 04:00:01: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 16 Oct 2020 04:00:01: 44000000 INFO @ Fri, 16 Oct 2020 04:00:07: 45000000 INFO @ Fri, 16 Oct 2020 04:00:12: 46000000 INFO @ Fri, 16 Oct 2020 04:00:18: 47000000 INFO @ Fri, 16 Oct 2020 04:00:20: #1 tag size is determined as 50 bps INFO @ Fri, 16 Oct 2020 04:00:20: #1 tag size = 50 INFO @ Fri, 16 Oct 2020 04:00:20: #1 total tags in treatment: 47421997 INFO @ Fri, 16 Oct 2020 04:00:20: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 04:00:20: #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 04:00:21: #1 tags after filtering in treatment: 47421832 INFO @ Fri, 16 Oct 2020 04:00:21: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 16 Oct 2020 04:00:21: #1 finished! INFO @ Fri, 16 Oct 2020 04:00:21: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 04:00:21: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 04:00:29: #2 number of paired peaks: 118870 INFO @ Fri, 16 Oct 2020 04:00:29: start model_add_line... INFO @ Fri, 16 Oct 2020 04:00:30: start X-correlation... INFO @ Fri, 16 Oct 2020 04:00:30: end of X-cor INFO @ Fri, 16 Oct 2020 04:00:30: #2 finished! INFO @ Fri, 16 Oct 2020 04:00:30: #2 predicted fragment length is 223 bps INFO @ Fri, 16 Oct 2020 04:00:30: #2 alternative fragment length(s) may be 223 bps INFO @ Fri, 16 Oct 2020 04:00:30: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745101/ERX2745101.20_model.r INFO @ Fri, 16 Oct 2020 04:00:30: #3 Call peaks... INFO @ Fri, 16 Oct 2020 04:00:30: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 16 Oct 2020 04:01:24: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Fri, 16 Oct 2020 04:02:02: #3 Call peaks for each chromosome... INFO @ Fri, 16 Oct 2020 04:02:29: #3 Call peaks for each chromosome... INFO @ Fri, 16 Oct 2020 04:02:36: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745101/ERX2745101.05_peaks.xls INFO @ Fri, 16 Oct 2020 04:02:36: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745101/ERX2745101.05_peaks.narrowPeak INFO @ Fri, 16 Oct 2020 04:02:36: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745101/ERX2745101.05_summits.bed INFO @ Fri, 16 Oct 2020 04:02:36: Done! pass1 - making usageList (144 chroms): 6 millis pass2 - checking and writing primary data (40127 records, 4 fields): 42 millis CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 04:03:14: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745101/ERX2745101.10_peaks.xls INFO @ Fri, 16 Oct 2020 04:03:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745101/ERX2745101.10_peaks.narrowPeak INFO @ Fri, 16 Oct 2020 04:03:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745101/ERX2745101.10_summits.bed INFO @ Fri, 16 Oct 2020 04:03:15: Done! pass1 - making usageList (109 chroms): 4 millis pass2 - checking and writing primary data (24050 records, 4 fields): 25 millis CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 04:03:39: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745101/ERX2745101.20_peaks.xls INFO @ Fri, 16 Oct 2020 04:03:40: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745101/ERX2745101.20_peaks.narrowPeak INFO @ Fri, 16 Oct 2020 04:03:40: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745101/ERX2745101.20_summits.bed INFO @ Fri, 16 Oct 2020 04:03:40: Done! pass1 - making usageList (80 chroms): 3 millis pass2 - checking and writing primary data (14149 records, 4 fields): 15 millis CompletedMACS2peakCalling