Job ID = 10223645 SRX = ERX2745122 Genome = rn6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-10-15T19:49:33 prefetch.2.10.7: 1) Downloading 'ERR2731897'... 2020-10-15T19:49:33 prefetch.2.10.7: Downloading via HTTPS... 2020-10-15T19:52:08 prefetch.2.10.7: HTTPS download succeed 2020-10-15T19:52:08 prefetch.2.10.7: 1) 'ERR2731897' was downloaded successfully Read 97223374 spots for ERR2731897/ERR2731897.sra Written 97223374 spots for ERR2731897/ERR2731897.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: 00:00:02 Time loading mirror index: 00:00:01 Multiseed full-index search: 00:36:24 97223374 reads; of these: 97223374 (100.00%) were unpaired; of these: 5121133 (5.27%) aligned 0 times 83332237 (85.71%) aligned exactly 1 time 8770004 (9.02%) aligned >1 times 94.73% overall alignment rate Time searching: 00:36:28 Overall time: 00:36:28 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] 64498048 / 92102241 = 0.7003 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 05:44:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX2745122/ERX2745122.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX2745122/ERX2745122.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX2745122/ERX2745122.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX2745122/ERX2745122.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 05:44:07: #1 read tag files... INFO @ Fri, 16 Oct 2020 05:44:07: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 05:44:13: 1000000 INFO @ Fri, 16 Oct 2020 05:44:20: 2000000 INFO @ Fri, 16 Oct 2020 05:44:26: 3000000 INFO @ Fri, 16 Oct 2020 05:44:33: 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 05:44:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX2745122/ERX2745122.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX2745122/ERX2745122.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX2745122/ERX2745122.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX2745122/ERX2745122.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 05:44:37: #1 read tag files... INFO @ Fri, 16 Oct 2020 05:44:37: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 05:44:40: 5000000 INFO @ Fri, 16 Oct 2020 05:44:44: 1000000 INFO @ Fri, 16 Oct 2020 05:44:48: 6000000 INFO @ Fri, 16 Oct 2020 05:44:51: 2000000 INFO @ Fri, 16 Oct 2020 05:44:55: 7000000 INFO @ Fri, 16 Oct 2020 05:44:58: 3000000 INFO @ Fri, 16 Oct 2020 05:45:03: 8000000 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 05:45:06: 4000000 INFO @ Fri, 16 Oct 2020 05:45:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX2745122/ERX2745122.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX2745122/ERX2745122.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX2745122/ERX2745122.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX2745122/ERX2745122.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 05:45:07: #1 read tag files... INFO @ Fri, 16 Oct 2020 05:45:07: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 05:45:11: 9000000 INFO @ Fri, 16 Oct 2020 05:45:14: 5000000 INFO @ Fri, 16 Oct 2020 05:45:16: 1000000 INFO @ Fri, 16 Oct 2020 05:45:18: 10000000 INFO @ Fri, 16 Oct 2020 05:45:21: 6000000 INFO @ Fri, 16 Oct 2020 05:45:25: 2000000 INFO @ Fri, 16 Oct 2020 05:45:26: 11000000 INFO @ Fri, 16 Oct 2020 05:45:29: 7000000 INFO @ Fri, 16 Oct 2020 05:45:34: 12000000 INFO @ Fri, 16 Oct 2020 05:45:34: 3000000 INFO @ Fri, 16 Oct 2020 05:45:37: 8000000 INFO @ Fri, 16 Oct 2020 05:45:42: 13000000 INFO @ Fri, 16 Oct 2020 05:45:43: 4000000 INFO @ Fri, 16 Oct 2020 05:45:45: 9000000 INFO @ Fri, 16 Oct 2020 05:45:49: 14000000 INFO @ Fri, 16 Oct 2020 05:45:50: 5000000 INFO @ Fri, 16 Oct 2020 05:45:53: 10000000 INFO @ Fri, 16 Oct 2020 05:45:57: 6000000 INFO @ Fri, 16 Oct 2020 05:45:57: 15000000 INFO @ Fri, 16 Oct 2020 05:46:00: 11000000 INFO @ Fri, 16 Oct 2020 05:46:04: 7000000 INFO @ Fri, 16 Oct 2020 05:46:05: 16000000 INFO @ Fri, 16 Oct 2020 05:46:08: 12000000 INFO @ Fri, 16 Oct 2020 05:46:11: 8000000 INFO @ Fri, 16 Oct 2020 05:46:13: 17000000 INFO @ Fri, 16 Oct 2020 05:46:16: 13000000 INFO @ Fri, 16 Oct 2020 05:46:18: 9000000 INFO @ Fri, 16 Oct 2020 05:46:21: 18000000 INFO @ Fri, 16 Oct 2020 05:46:24: 14000000 INFO @ Fri, 16 Oct 2020 05:46:25: 10000000 INFO @ Fri, 16 Oct 2020 05:46:29: 19000000 INFO @ Fri, 16 Oct 2020 05:46:32: 15000000 INFO @ Fri, 16 Oct 2020 05:46:32: 11000000 INFO @ Fri, 16 Oct 2020 05:46:37: 20000000 INFO @ Fri, 16 Oct 2020 05:46:39: 12000000 INFO @ Fri, 16 Oct 2020 05:46:39: 16000000 INFO @ Fri, 16 Oct 2020 05:46:44: 21000000 INFO @ Fri, 16 Oct 2020 05:46:46: 13000000 INFO @ Fri, 16 Oct 2020 05:46:47: 17000000 INFO @ Fri, 16 Oct 2020 05:46:52: 22000000 INFO @ Fri, 16 Oct 2020 05:46:53: 14000000 INFO @ Fri, 16 Oct 2020 05:46:55: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 16 Oct 2020 05:47:00: 15000000 INFO @ Fri, 16 Oct 2020 05:47:00: 23000000 INFO @ Fri, 16 Oct 2020 05:47:03: 19000000 INFO @ Fri, 16 Oct 2020 05:47:07: 16000000 INFO @ Fri, 16 Oct 2020 05:47:08: 24000000 INFO @ Fri, 16 Oct 2020 05:47:11: 20000000 INFO @ Fri, 16 Oct 2020 05:47:14: 17000000 INFO @ Fri, 16 Oct 2020 05:47:16: 25000000 INFO @ Fri, 16 Oct 2020 05:47:19: 21000000 INFO @ Fri, 16 Oct 2020 05:47:21: 18000000 INFO @ Fri, 16 Oct 2020 05:47:24: 26000000 INFO @ Fri, 16 Oct 2020 05:47:27: 22000000 INFO @ Fri, 16 Oct 2020 05:47:28: 19000000 BigWig に変換しました。 INFO @ Fri, 16 Oct 2020 05:47:32: 27000000 INFO @ Fri, 16 Oct 2020 05:47:34: 23000000 INFO @ Fri, 16 Oct 2020 05:47:35: 20000000 INFO @ Fri, 16 Oct 2020 05:47:37: #1 tag size is determined as 50 bps INFO @ Fri, 16 Oct 2020 05:47:37: #1 tag size = 50 INFO @ Fri, 16 Oct 2020 05:47:37: #1 total tags in treatment: 27604193 INFO @ Fri, 16 Oct 2020 05:47:37: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 05:47:37: #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 05:47:37: #1 tags after filtering in treatment: 27603964 INFO @ Fri, 16 Oct 2020 05:47:37: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 16 Oct 2020 05:47:37: #1 finished! INFO @ Fri, 16 Oct 2020 05:47:37: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 05:47:37: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 05:47:41: #2 number of paired peaks: 29144 INFO @ Fri, 16 Oct 2020 05:47:41: start model_add_line... INFO @ Fri, 16 Oct 2020 05:47:41: start X-correlation... INFO @ Fri, 16 Oct 2020 05:47:41: end of X-cor INFO @ Fri, 16 Oct 2020 05:47:41: #2 finished! INFO @ Fri, 16 Oct 2020 05:47:41: #2 predicted fragment length is 221 bps INFO @ Fri, 16 Oct 2020 05:47:41: #2 alternative fragment length(s) may be 221 bps INFO @ Fri, 16 Oct 2020 05:47:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745122/ERX2745122.05_model.r INFO @ Fri, 16 Oct 2020 05:47:41: #3 Call peaks... INFO @ Fri, 16 Oct 2020 05:47:41: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 16 Oct 2020 05:47:42: 21000000 INFO @ Fri, 16 Oct 2020 05:47:42: 24000000 INFO @ Fri, 16 Oct 2020 05:47:49: 22000000 INFO @ Fri, 16 Oct 2020 05:47:50: 25000000 INFO @ Fri, 16 Oct 2020 05:47:56: 23000000 INFO @ Fri, 16 Oct 2020 05:47:58: 26000000 INFO @ Fri, 16 Oct 2020 05:48:02: 24000000 INFO @ Fri, 16 Oct 2020 05:48:06: 27000000 INFO @ Fri, 16 Oct 2020 05:48:09: 25000000 INFO @ Fri, 16 Oct 2020 05:48:10: #1 tag size is determined as 50 bps INFO @ Fri, 16 Oct 2020 05:48:10: #1 tag size = 50 INFO @ Fri, 16 Oct 2020 05:48:10: #1 total tags in treatment: 27604193 INFO @ Fri, 16 Oct 2020 05:48:10: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 05:48:10: #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 05:48:11: #1 tags after filtering in treatment: 27603964 INFO @ Fri, 16 Oct 2020 05:48:11: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 16 Oct 2020 05:48:11: #1 finished! INFO @ Fri, 16 Oct 2020 05:48:11: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 05:48:11: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 05:48:14: #2 number of paired peaks: 29144 INFO @ Fri, 16 Oct 2020 05:48:14: start model_add_line... INFO @ Fri, 16 Oct 2020 05:48:14: start X-correlation... INFO @ Fri, 16 Oct 2020 05:48:14: end of X-cor INFO @ Fri, 16 Oct 2020 05:48:14: #2 finished! INFO @ Fri, 16 Oct 2020 05:48:14: #2 predicted fragment length is 221 bps INFO @ Fri, 16 Oct 2020 05:48:14: #2 alternative fragment length(s) may be 221 bps INFO @ Fri, 16 Oct 2020 05:48:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745122/ERX2745122.10_model.r INFO @ Fri, 16 Oct 2020 05:48:14: #3 Call peaks... INFO @ Fri, 16 Oct 2020 05:48:14: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 16 Oct 2020 05:48:16: 26000000 INFO @ Fri, 16 Oct 2020 05:48:22: 27000000 INFO @ Fri, 16 Oct 2020 05:48:25: #1 tag size is determined as 50 bps INFO @ Fri, 16 Oct 2020 05:48:25: #1 tag size = 50 INFO @ Fri, 16 Oct 2020 05:48:25: #1 total tags in treatment: 27604193 INFO @ Fri, 16 Oct 2020 05:48:25: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 05:48:25: #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 05:48:26: #1 tags after filtering in treatment: 27603964 INFO @ Fri, 16 Oct 2020 05:48:26: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 16 Oct 2020 05:48:26: #1 finished! INFO @ Fri, 16 Oct 2020 05:48:26: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 05:48:26: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 05:48:29: #2 number of paired peaks: 29144 INFO @ Fri, 16 Oct 2020 05:48:29: start model_add_line... INFO @ Fri, 16 Oct 2020 05:48:29: start X-correlation... INFO @ Fri, 16 Oct 2020 05:48:29: end of X-cor INFO @ Fri, 16 Oct 2020 05:48:29: #2 finished! INFO @ Fri, 16 Oct 2020 05:48:29: #2 predicted fragment length is 221 bps INFO @ Fri, 16 Oct 2020 05:48:29: #2 alternative fragment length(s) may be 221 bps INFO @ Fri, 16 Oct 2020 05:48:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745122/ERX2745122.20_model.r INFO @ Fri, 16 Oct 2020 05:48:29: #3 Call peaks... INFO @ Fri, 16 Oct 2020 05:48:29: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 16 Oct 2020 05:48:51: #3 Call peaks for each chromosome... INFO @ Fri, 16 Oct 2020 05:49:24: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745122/ERX2745122.05_peaks.xls INFO @ Fri, 16 Oct 2020 05:49:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745122/ERX2745122.05_peaks.narrowPeak INFO @ Fri, 16 Oct 2020 05:49:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745122/ERX2745122.05_summits.bed INFO @ Fri, 16 Oct 2020 05:49:24: Done! pass1 - making usageList (149 chroms): 4 millis pass2 - checking and writing primary data (25076 records, 4 fields): 28 millis CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 05:49:25: #3 Call peaks for each chromosome... INFO @ Fri, 16 Oct 2020 05:49:36: #3 Call peaks for each chromosome... INFO @ Fri, 16 Oct 2020 05:50:00: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745122/ERX2745122.10_peaks.xls INFO @ Fri, 16 Oct 2020 05:50:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745122/ERX2745122.10_peaks.narrowPeak INFO @ Fri, 16 Oct 2020 05:50:01: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745122/ERX2745122.10_summits.bed INFO @ Fri, 16 Oct 2020 05:50:01: Done! pass1 - making usageList (131 chroms): 4 millis pass2 - checking and writing primary data (22538 records, 4 fields): 26 millis CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 05:50:08: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745122/ERX2745122.20_peaks.xls INFO @ Fri, 16 Oct 2020 05:50:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745122/ERX2745122.20_peaks.narrowPeak INFO @ Fri, 16 Oct 2020 05:50:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745122/ERX2745122.20_summits.bed INFO @ Fri, 16 Oct 2020 05:50:08: Done! pass1 - making usageList (118 chroms): 4 millis pass2 - checking and writing primary data (20020 records, 4 fields): 23 millis CompletedMACS2peakCalling