Job ID = 14518034 SRX = SRX10533684 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 SRR14165478/SRR14165478.sra Written 4000000 spots for SRR14165478/SRR14165478.sra 2022-01-14T22:45:30 prefetch.2.10.7: 1) Downloading 'SRR14165479'... 2022-01-14T22:45:30 prefetch.2.10.7: Downloading via HTTPS... 2022-01-14T22:45:40 prefetch.2.10.7: HTTPS download succeed 2022-01-14T22:45:40 prefetch.2.10.7: 'SRR14165479' is valid 2022-01-14T22:45:40 prefetch.2.10.7: 1) 'SRR14165479' was downloaded successfully 2022-01-14T22:45:40 prefetch.2.10.7: 'SRR14165479' has 0 unresolved dependencies Read 4000000 spots for SRR14165479/SRR14165479.sra Written 4000000 spots for SRR14165479/SRR14165479.sra Read 4000000 spots for SRR14165480/SRR14165480.sra Written 4000000 spots for SRR14165480/SRR14165480.sra 2022-01-14T22:46:40 prefetch.2.10.7: 1) Downloading 'SRR14165481'... 2022-01-14T22:46:40 prefetch.2.10.7: Downloading via HTTPS... 2022-01-14T22:46:50 prefetch.2.10.7: HTTPS download succeed 2022-01-14T22:46:51 prefetch.2.10.7: 'SRR14165481' is valid 2022-01-14T22:46:51 prefetch.2.10.7: 1) 'SRR14165481' was downloaded successfully 2022-01-14T22:46:51 prefetch.2.10.7: 'SRR14165481' has 0 unresolved dependencies Read 4000000 spots for SRR14165481/SRR14165481.sra Written 4000000 spots for SRR14165481/SRR14165481.sra Read 4000000 spots for SRR14165482/SRR14165482.sra Written 4000000 spots for SRR14165482/SRR14165482.sra Read 4000000 spots for SRR14165483/SRR14165483.sra Written 4000000 spots for SRR14165483/SRR14165483.sra 2022-01-14T22:47:54 prefetch.2.10.7: 1) Downloading 'SRR14165484'... 2022-01-14T22:47:54 prefetch.2.10.7: Downloading via HTTPS... 2022-01-14T22:48:05 prefetch.2.10.7: HTTPS download succeed 2022-01-14T22:48:05 prefetch.2.10.7: 'SRR14165484' is valid 2022-01-14T22:48:05 prefetch.2.10.7: 1) 'SRR14165484' was downloaded successfully 2022-01-14T22:48:05 prefetch.2.10.7: 'SRR14165484' has 0 unresolved dependencies Read 4000000 spots for SRR14165484/SRR14165484.sra Written 4000000 spots for SRR14165484/SRR14165484.sra 2022-01-14T22:48:34 prefetch.2.10.7: 1) Downloading 'SRR14165485'... 2022-01-14T22:48:34 prefetch.2.10.7: Downloading via HTTPS... 2022-01-14T22:48:45 prefetch.2.10.7: HTTPS download succeed 2022-01-14T22:48:45 prefetch.2.10.7: 'SRR14165485' is valid 2022-01-14T22:48:45 prefetch.2.10.7: 1) 'SRR14165485' was downloaded successfully 2022-01-14T22:48:45 prefetch.2.10.7: 'SRR14165485' has 0 unresolved dependencies Read 3491527 spots for SRR14165485/SRR14165485.sra Written 3491527 spots for SRR14165485/SRR14165485.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: 00:00:03 Time loading mirror index: 00:00:01 Multiseed full-index search: 00:13:37 31491527 reads; of these: 31491527 (100.00%) were unpaired; of these: 14603242 (46.37%) aligned 0 times 13632073 (43.29%) aligned exactly 1 time 3256212 (10.34%) aligned >1 times 53.63% overall alignment rate Time searching: 00:13:42 Overall time: 00:13:42 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] 4972090 / 16888285 = 0.2944 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 08:08:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX10533684/SRX10533684.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX10533684/SRX10533684.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX10533684/SRX10533684.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX10533684/SRX10533684.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 08:08:46: #1 read tag files... INFO @ Sat, 15 Jan 2022 08:08:46: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 08:08:55: 1000000 INFO @ Sat, 15 Jan 2022 08:09:05: 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 08:09:16: 3000000 INFO @ Sat, 15 Jan 2022 08:09:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX10533684/SRX10533684.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX10533684/SRX10533684.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX10533684/SRX10533684.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX10533684/SRX10533684.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 08:09:16: #1 read tag files... INFO @ Sat, 15 Jan 2022 08:09:16: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 08:09:26: 4000000 INFO @ Sat, 15 Jan 2022 08:09:27: 1000000 INFO @ Sat, 15 Jan 2022 08:09:36: 5000000 INFO @ Sat, 15 Jan 2022 08:09:38: 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 08:09:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX10533684/SRX10533684.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX10533684/SRX10533684.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX10533684/SRX10533684.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX10533684/SRX10533684.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 08:09:46: #1 read tag files... INFO @ Sat, 15 Jan 2022 08:09:46: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 08:09:47: 6000000 INFO @ Sat, 15 Jan 2022 08:09:49: 3000000 INFO @ Sat, 15 Jan 2022 08:09:56: 1000000 INFO @ Sat, 15 Jan 2022 08:09:58: 7000000 INFO @ Sat, 15 Jan 2022 08:09:59: 4000000 INFO @ Sat, 15 Jan 2022 08:10:06: 2000000 INFO @ Sat, 15 Jan 2022 08:10:09: 8000000 INFO @ Sat, 15 Jan 2022 08:10:10: 5000000 INFO @ Sat, 15 Jan 2022 08:10:15: 3000000 INFO @ Sat, 15 Jan 2022 08:10:19: 9000000 INFO @ Sat, 15 Jan 2022 08:10:20: 6000000 INFO @ Sat, 15 Jan 2022 08:10:25: 4000000 INFO @ Sat, 15 Jan 2022 08:10:29: 10000000 INFO @ Sat, 15 Jan 2022 08:10:31: 7000000 INFO @ Sat, 15 Jan 2022 08:10:35: 5000000 INFO @ Sat, 15 Jan 2022 08:10:39: 11000000 INFO @ Sat, 15 Jan 2022 08:10:43: 8000000 INFO @ Sat, 15 Jan 2022 08:10:46: 6000000 INFO @ Sat, 15 Jan 2022 08:10:48: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 08:10:48: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 08:10:48: #1 total tags in treatment: 11916195 INFO @ Sat, 15 Jan 2022 08:10:48: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 08:10:48: #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 08:10:48: #1 tags after filtering in treatment: 11915964 INFO @ Sat, 15 Jan 2022 08:10:48: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 08:10:48: #1 finished! INFO @ Sat, 15 Jan 2022 08:10:48: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 08:10:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 08:10:52: #2 number of paired peaks: 62972 INFO @ Sat, 15 Jan 2022 08:10:52: start model_add_line... INFO @ Sat, 15 Jan 2022 08:10:52: start X-correlation... INFO @ Sat, 15 Jan 2022 08:10:52: end of X-cor INFO @ Sat, 15 Jan 2022 08:10:52: #2 finished! INFO @ Sat, 15 Jan 2022 08:10:52: #2 predicted fragment length is 298 bps INFO @ Sat, 15 Jan 2022 08:10:52: #2 alternative fragment length(s) may be 298 bps INFO @ Sat, 15 Jan 2022 08:10:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX10533684/SRX10533684.05_model.r INFO @ Sat, 15 Jan 2022 08:10:52: #3 Call peaks... INFO @ Sat, 15 Jan 2022 08:10:52: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 08:10:55: 9000000 INFO @ Sat, 15 Jan 2022 08:10:56: 7000000 INFO @ Sat, 15 Jan 2022 08:11:06: 8000000 INFO @ Sat, 15 Jan 2022 08:11:06: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 08:11:15: 9000000 INFO @ Sat, 15 Jan 2022 08:11:17: 11000000 INFO @ Sat, 15 Jan 2022 08:11:25: 10000000 INFO @ Sat, 15 Jan 2022 08:11:27: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 08:11:27: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 08:11:27: #1 total tags in treatment: 11916195 INFO @ Sat, 15 Jan 2022 08:11:27: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 08:11:27: #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 08:11:27: #1 tags after filtering in treatment: 11915964 INFO @ Sat, 15 Jan 2022 08:11:27: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 08:11:27: #1 finished! INFO @ Sat, 15 Jan 2022 08:11:27: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 08:11:27: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 08:11:29: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 08:11:31: #2 number of paired peaks: 62972 INFO @ Sat, 15 Jan 2022 08:11:31: start model_add_line... INFO @ Sat, 15 Jan 2022 08:11:31: start X-correlation... INFO @ Sat, 15 Jan 2022 08:11:31: end of X-cor INFO @ Sat, 15 Jan 2022 08:11:31: #2 finished! INFO @ Sat, 15 Jan 2022 08:11:31: #2 predicted fragment length is 298 bps INFO @ Sat, 15 Jan 2022 08:11:31: #2 alternative fragment length(s) may be 298 bps INFO @ Sat, 15 Jan 2022 08:11:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX10533684/SRX10533684.10_model.r INFO @ Sat, 15 Jan 2022 08:11:31: #3 Call peaks... INFO @ Sat, 15 Jan 2022 08:11:31: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 08:11:34: 11000000 INFO @ Sat, 15 Jan 2022 08:11:43: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 08:11:43: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 08:11:43: #1 total tags in treatment: 11916195 INFO @ Sat, 15 Jan 2022 08:11:43: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 08:11:43: #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 08:11:44: #1 tags after filtering in treatment: 11915964 INFO @ Sat, 15 Jan 2022 08:11:44: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 08:11:44: #1 finished! INFO @ Sat, 15 Jan 2022 08:11:44: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 08:11:44: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 08:11:47: #2 number of paired peaks: 62972 INFO @ Sat, 15 Jan 2022 08:11:47: start model_add_line... INFO @ Sat, 15 Jan 2022 08:11:47: start X-correlation... INFO @ Sat, 15 Jan 2022 08:11:47: end of X-cor INFO @ Sat, 15 Jan 2022 08:11:47: #2 finished! INFO @ Sat, 15 Jan 2022 08:11:47: #2 predicted fragment length is 298 bps INFO @ Sat, 15 Jan 2022 08:11:47: #2 alternative fragment length(s) may be 298 bps INFO @ Sat, 15 Jan 2022 08:11:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX10533684/SRX10533684.20_model.r INFO @ Sat, 15 Jan 2022 08:11:47: #3 Call peaks... INFO @ Sat, 15 Jan 2022 08:11:47: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 08:11:48: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX10533684/SRX10533684.05_peaks.xls INFO @ Sat, 15 Jan 2022 08:11:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX10533684/SRX10533684.05_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 08:11:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX10533684/SRX10533684.05_summits.bed INFO @ Sat, 15 Jan 2022 08:11:48: Done! pass1 - making usageList (73 chroms): 1 millis pass2 - checking and writing primary data (3170 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 08:12:06: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 08:12:23: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 08:12:23: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX10533684/SRX10533684.10_peaks.xls INFO @ Sat, 15 Jan 2022 08:12:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX10533684/SRX10533684.10_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 08:12:23: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX10533684/SRX10533684.10_summits.bed INFO @ Sat, 15 Jan 2022 08:12:23: Done! pass1 - making usageList (56 chroms): 1 millis pass2 - checking and writing primary data (1260 records, 4 fields): 69 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 08:12:41: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX10533684/SRX10533684.20_peaks.xls INFO @ Sat, 15 Jan 2022 08:12:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX10533684/SRX10533684.20_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 08:12:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX10533684/SRX10533684.20_summits.bed INFO @ Sat, 15 Jan 2022 08:12:41: Done! pass1 - making usageList (42 chroms): 1 millis pass2 - checking and writing primary data (409 records, 4 fields): 23 millis CompletedMACS2peakCalling