Job ID = 14518019 SRX = SRX10533677 Genome = rn6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 4000000 spots for SRR14165421/SRR14165421.sra Written 4000000 spots for SRR14165421/SRR14165421.sra Read 4000000 spots for SRR14165422/SRR14165422.sra Written 4000000 spots for SRR14165422/SRR14165422.sra Read 4000000 spots for SRR14165423/SRR14165423.sra Written 4000000 spots for SRR14165423/SRR14165423.sra Read 4000000 spots for SRR14165424/SRR14165424.sra Written 4000000 spots for SRR14165424/SRR14165424.sra Read 4000000 spots for SRR14165425/SRR14165425.sra Written 4000000 spots for SRR14165425/SRR14165425.sra Read 4000000 spots for SRR14165426/SRR14165426.sra Written 4000000 spots for SRR14165426/SRR14165426.sra Read 4000000 spots for SRR14165427/SRR14165427.sra Written 4000000 spots for SRR14165427/SRR14165427.sra Read 4000000 spots for SRR14165428/SRR14165428.sra Written 4000000 spots for SRR14165428/SRR14165428.sra 2022-01-14T22:32:44 prefetch.2.10.7: 1) Downloading 'SRR14165429'... 2022-01-14T22:32:44 prefetch.2.10.7: Downloading via HTTPS... 2022-01-14T22:32:47 prefetch.2.10.7: HTTPS download succeed 2022-01-14T22:32:47 prefetch.2.10.7: 'SRR14165429' is valid 2022-01-14T22:32:47 prefetch.2.10.7: 1) 'SRR14165429' was downloaded successfully 2022-01-14T22:32:47 prefetch.2.10.7: 'SRR14165429' has 0 unresolved dependencies Read 267001 spots for SRR14165429/SRR14165429.sra Written 267001 spots for SRR14165429/SRR14165429.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: 00:13:18 32267001 reads; of these: 32267001 (100.00%) were unpaired; of these: 16343837 (50.65%) aligned 0 times 12851019 (39.83%) aligned exactly 1 time 3072145 (9.52%) aligned >1 times 49.35% overall alignment rate Time searching: 00:13:21 Overall time: 00:13:21 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 8 files... [bam_rmdupse_core] 4209794 / 15923164 = 0.2644 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 07:50:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX10533677/SRX10533677.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX10533677/SRX10533677.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX10533677/SRX10533677.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX10533677/SRX10533677.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 07:50:37: #1 read tag files... INFO @ Sat, 15 Jan 2022 07:50:37: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 07:50:43: 1000000 INFO @ Sat, 15 Jan 2022 07:50:48: 2000000 INFO @ Sat, 15 Jan 2022 07:50:53: 3000000 INFO @ Sat, 15 Jan 2022 07:50:58: 4000000 INFO @ Sat, 15 Jan 2022 07:51:03: 5000000 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 07:51:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX10533677/SRX10533677.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX10533677/SRX10533677.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX10533677/SRX10533677.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX10533677/SRX10533677.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 07:51:07: #1 read tag files... INFO @ Sat, 15 Jan 2022 07:51:07: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 07:51:08: 6000000 INFO @ Sat, 15 Jan 2022 07:51:13: 1000000 INFO @ Sat, 15 Jan 2022 07:51:14: 7000000 INFO @ Sat, 15 Jan 2022 07:51:19: 8000000 INFO @ Sat, 15 Jan 2022 07:51:20: 2000000 INFO @ Sat, 15 Jan 2022 07:51:25: 9000000 INFO @ Sat, 15 Jan 2022 07:51:26: 3000000 INFO @ Sat, 15 Jan 2022 07:51:31: 10000000 INFO @ Sat, 15 Jan 2022 07:51:32: 4000000 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 07:51:36: 11000000 INFO @ Sat, 15 Jan 2022 07:51:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX10533677/SRX10533677.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX10533677/SRX10533677.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX10533677/SRX10533677.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX10533677/SRX10533677.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 07:51:37: #1 read tag files... INFO @ Sat, 15 Jan 2022 07:51:37: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 07:51:38: 5000000 INFO @ Sat, 15 Jan 2022 07:51:40: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 07:51:40: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 07:51:40: #1 total tags in treatment: 11713370 INFO @ Sat, 15 Jan 2022 07:51:40: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 07:51:40: #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 07:51:41: #1 tags after filtering in treatment: 11713181 INFO @ Sat, 15 Jan 2022 07:51:41: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 07:51:41: #1 finished! INFO @ Sat, 15 Jan 2022 07:51:41: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 07:51:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 07:51:43: #2 number of paired peaks: 57830 INFO @ Sat, 15 Jan 2022 07:51:43: start model_add_line... INFO @ Sat, 15 Jan 2022 07:51:43: start X-correlation... INFO @ Sat, 15 Jan 2022 07:51:43: end of X-cor INFO @ Sat, 15 Jan 2022 07:51:43: #2 finished! INFO @ Sat, 15 Jan 2022 07:51:43: #2 predicted fragment length is 300 bps INFO @ Sat, 15 Jan 2022 07:51:43: #2 alternative fragment length(s) may be 300 bps INFO @ Sat, 15 Jan 2022 07:51:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX10533677/SRX10533677.05_model.r INFO @ Sat, 15 Jan 2022 07:51:43: #3 Call peaks... INFO @ Sat, 15 Jan 2022 07:51:43: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 07:51:44: 6000000 INFO @ Sat, 15 Jan 2022 07:51:44: 1000000 INFO @ Sat, 15 Jan 2022 07:51:50: 7000000 INFO @ Sat, 15 Jan 2022 07:51:51: 2000000 INFO @ Sat, 15 Jan 2022 07:51:56: 8000000 INFO @ Sat, 15 Jan 2022 07:51:58: 3000000 INFO @ Sat, 15 Jan 2022 07:52:02: 9000000 INFO @ Sat, 15 Jan 2022 07:52:04: 4000000 INFO @ Sat, 15 Jan 2022 07:52:08: 10000000 INFO @ Sat, 15 Jan 2022 07:52:11: 5000000 INFO @ Sat, 15 Jan 2022 07:52:14: 11000000 INFO @ Sat, 15 Jan 2022 07:52:15: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 07:52:18: 6000000 INFO @ Sat, 15 Jan 2022 07:52:19: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 07:52:19: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 07:52:19: #1 total tags in treatment: 11713370 INFO @ Sat, 15 Jan 2022 07:52:19: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 07:52:19: #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 07:52:19: #1 tags after filtering in treatment: 11713181 INFO @ Sat, 15 Jan 2022 07:52:19: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 07:52:19: #1 finished! INFO @ Sat, 15 Jan 2022 07:52:19: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 07:52:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 07:52:22: #2 number of paired peaks: 57830 INFO @ Sat, 15 Jan 2022 07:52:22: start model_add_line... INFO @ Sat, 15 Jan 2022 07:52:22: start X-correlation... INFO @ Sat, 15 Jan 2022 07:52:22: end of X-cor INFO @ Sat, 15 Jan 2022 07:52:22: #2 finished! INFO @ Sat, 15 Jan 2022 07:52:22: #2 predicted fragment length is 300 bps INFO @ Sat, 15 Jan 2022 07:52:22: #2 alternative fragment length(s) may be 300 bps INFO @ Sat, 15 Jan 2022 07:52:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX10533677/SRX10533677.10_model.r INFO @ Sat, 15 Jan 2022 07:52:22: #3 Call peaks... INFO @ Sat, 15 Jan 2022 07:52:22: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 07:52:24: 7000000 INFO @ Sat, 15 Jan 2022 07:52:29: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX10533677/SRX10533677.05_peaks.xls INFO @ Sat, 15 Jan 2022 07:52:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX10533677/SRX10533677.05_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 07:52:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX10533677/SRX10533677.05_summits.bed INFO @ Sat, 15 Jan 2022 07:52:29: Done! pass1 - making usageList (73 chroms): 1 millis pass2 - checking and writing primary data (3433 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 07:52:31: 8000000 INFO @ Sat, 15 Jan 2022 07:52:37: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 07:52:44: 10000000 INFO @ Sat, 15 Jan 2022 07:52:50: 11000000 INFO @ Sat, 15 Jan 2022 07:52:54: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 07:52:55: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 07:52:55: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 07:52:55: #1 total tags in treatment: 11713370 INFO @ Sat, 15 Jan 2022 07:52:55: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 07:52:55: #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 07:52:55: #1 tags after filtering in treatment: 11713181 INFO @ Sat, 15 Jan 2022 07:52:55: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 07:52:55: #1 finished! INFO @ Sat, 15 Jan 2022 07:52:55: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 07:52:55: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 07:52:58: #2 number of paired peaks: 57830 INFO @ Sat, 15 Jan 2022 07:52:58: start model_add_line... INFO @ Sat, 15 Jan 2022 07:52:58: start X-correlation... INFO @ Sat, 15 Jan 2022 07:52:58: end of X-cor INFO @ Sat, 15 Jan 2022 07:52:58: #2 finished! INFO @ Sat, 15 Jan 2022 07:52:58: #2 predicted fragment length is 300 bps INFO @ Sat, 15 Jan 2022 07:52:58: #2 alternative fragment length(s) may be 300 bps INFO @ Sat, 15 Jan 2022 07:52:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX10533677/SRX10533677.20_model.r INFO @ Sat, 15 Jan 2022 07:52:58: #3 Call peaks... INFO @ Sat, 15 Jan 2022 07:52:58: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 07:53:08: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX10533677/SRX10533677.10_peaks.xls INFO @ Sat, 15 Jan 2022 07:53:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX10533677/SRX10533677.10_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 07:53:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX10533677/SRX10533677.10_summits.bed INFO @ Sat, 15 Jan 2022 07:53:08: Done! pass1 - making usageList (56 chroms): 1 millis pass2 - checking and writing primary data (1383 records, 4 fields): 6 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 07:53:32: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 07:53:48: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX10533677/SRX10533677.20_peaks.xls INFO @ Sat, 15 Jan 2022 07:53:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX10533677/SRX10533677.20_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 07:53:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX10533677/SRX10533677.20_summits.bed INFO @ Sat, 15 Jan 2022 07:53:48: Done! pass1 - making usageList (43 chroms): 0 millis pass2 - checking and writing primary data (420 records, 4 fields): 3 millis CompletedMACS2peakCalling