Job ID = 14519617 SRX = SRX6581727 Genome = rn6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 31465205 spots for SRR9825060/SRR9825060.sra Written 31465205 spots for SRR9825060/SRR9825060.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: 00:00:01 Multiseed full-index search: 00:38:12 31465205 reads; of these: 31465205 (100.00%) were unpaired; of these: 892803 (2.84%) aligned 0 times 22902096 (72.79%) aligned exactly 1 time 7670306 (24.38%) aligned >1 times 97.16% overall alignment rate Time searching: 00:38:15 Overall time: 00:38:15 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 16 files... [bam_rmdupse_core] 4038310 / 30572402 = 0.1321 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 17:36:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX6581727/SRX6581727.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX6581727/SRX6581727.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX6581727/SRX6581727.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX6581727/SRX6581727.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 17:36:44: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:36:44: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:36:50: 1000000 INFO @ Sat, 15 Jan 2022 17:36:56: 2000000 INFO @ Sat, 15 Jan 2022 17:37:02: 3000000 INFO @ Sat, 15 Jan 2022 17:37:08: 4000000 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 17:37:14: 5000000 INFO @ Sat, 15 Jan 2022 17:37:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX6581727/SRX6581727.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX6581727/SRX6581727.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX6581727/SRX6581727.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX6581727/SRX6581727.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 17:37:14: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:37:14: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:37:20: 6000000 INFO @ Sat, 15 Jan 2022 17:37:21: 1000000 INFO @ Sat, 15 Jan 2022 17:37:26: 7000000 INFO @ Sat, 15 Jan 2022 17:37:28: 2000000 INFO @ Sat, 15 Jan 2022 17:37:32: 8000000 INFO @ Sat, 15 Jan 2022 17:37:35: 3000000 INFO @ Sat, 15 Jan 2022 17:37:38: 9000000 INFO @ Sat, 15 Jan 2022 17:37:42: 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 17:37:44: 10000000 INFO @ Sat, 15 Jan 2022 17:37:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX6581727/SRX6581727.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX6581727/SRX6581727.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX6581727/SRX6581727.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX6581727/SRX6581727.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 17:37:44: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:37:44: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:37:49: 5000000 INFO @ Sat, 15 Jan 2022 17:37:50: 11000000 INFO @ Sat, 15 Jan 2022 17:37:51: 1000000 INFO @ Sat, 15 Jan 2022 17:37:56: 6000000 INFO @ Sat, 15 Jan 2022 17:37:56: 12000000 INFO @ Sat, 15 Jan 2022 17:37:58: 2000000 INFO @ Sat, 15 Jan 2022 17:38:02: 13000000 INFO @ Sat, 15 Jan 2022 17:38:03: 7000000 INFO @ Sat, 15 Jan 2022 17:38:05: 3000000 INFO @ Sat, 15 Jan 2022 17:38:09: 14000000 INFO @ Sat, 15 Jan 2022 17:38:10: 8000000 INFO @ Sat, 15 Jan 2022 17:38:12: 4000000 INFO @ Sat, 15 Jan 2022 17:38:15: 15000000 INFO @ Sat, 15 Jan 2022 17:38:17: 9000000 INFO @ Sat, 15 Jan 2022 17:38:19: 5000000 INFO @ Sat, 15 Jan 2022 17:38:21: 16000000 INFO @ Sat, 15 Jan 2022 17:38:24: 10000000 INFO @ Sat, 15 Jan 2022 17:38:26: 6000000 INFO @ Sat, 15 Jan 2022 17:38:27: 17000000 INFO @ Sat, 15 Jan 2022 17:38:32: 11000000 INFO @ Sat, 15 Jan 2022 17:38:33: 7000000 INFO @ Sat, 15 Jan 2022 17:38:33: 18000000 INFO @ Sat, 15 Jan 2022 17:38:39: 12000000 INFO @ Sat, 15 Jan 2022 17:38:39: 19000000 INFO @ Sat, 15 Jan 2022 17:38:40: 8000000 INFO @ Sat, 15 Jan 2022 17:38:45: 20000000 INFO @ Sat, 15 Jan 2022 17:38:46: 13000000 INFO @ Sat, 15 Jan 2022 17:38:47: 9000000 INFO @ Sat, 15 Jan 2022 17:38:52: 21000000 INFO @ Sat, 15 Jan 2022 17:38:53: 14000000 INFO @ Sat, 15 Jan 2022 17:38:54: 10000000 INFO @ Sat, 15 Jan 2022 17:38:58: 22000000 INFO @ Sat, 15 Jan 2022 17:39:00: 15000000 INFO @ Sat, 15 Jan 2022 17:39:01: 11000000 INFO @ Sat, 15 Jan 2022 17:39:04: 23000000 INFO @ Sat, 15 Jan 2022 17:39:07: 16000000 INFO @ Sat, 15 Jan 2022 17:39:08: 12000000 INFO @ Sat, 15 Jan 2022 17:39:10: 24000000 INFO @ Sat, 15 Jan 2022 17:39:13: 17000000 INFO @ Sat, 15 Jan 2022 17:39:15: 13000000 INFO @ Sat, 15 Jan 2022 17:39:16: 25000000 INFO @ Sat, 15 Jan 2022 17:39:20: 18000000 INFO @ Sat, 15 Jan 2022 17:39:22: 14000000 INFO @ Sat, 15 Jan 2022 17:39:23: 26000000 INFO @ Sat, 15 Jan 2022 17:39:26: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 17:39:26: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 17:39:26: #1 total tags in treatment: 26534092 INFO @ Sat, 15 Jan 2022 17:39:26: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:39:26: #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 17:39:27: #1 tags after filtering in treatment: 26533973 INFO @ Sat, 15 Jan 2022 17:39:27: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 17:39:27: #1 finished! INFO @ Sat, 15 Jan 2022 17:39:27: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:39:27: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:39:27: 19000000 INFO @ Sat, 15 Jan 2022 17:39:29: #2 number of paired peaks: 16985 INFO @ Sat, 15 Jan 2022 17:39:29: start model_add_line... INFO @ Sat, 15 Jan 2022 17:39:29: 15000000 INFO @ Sat, 15 Jan 2022 17:39:29: start X-correlation... INFO @ Sat, 15 Jan 2022 17:39:29: end of X-cor INFO @ Sat, 15 Jan 2022 17:39:29: #2 finished! INFO @ Sat, 15 Jan 2022 17:39:29: #2 predicted fragment length is 177 bps INFO @ Sat, 15 Jan 2022 17:39:29: #2 alternative fragment length(s) may be 177 bps INFO @ Sat, 15 Jan 2022 17:39:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX6581727/SRX6581727.05_model.r INFO @ Sat, 15 Jan 2022 17:39:29: #3 Call peaks... INFO @ Sat, 15 Jan 2022 17:39:29: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 17:39:34: 20000000 INFO @ Sat, 15 Jan 2022 17:39:36: 16000000 INFO @ Sat, 15 Jan 2022 17:39:41: 21000000 INFO @ Sat, 15 Jan 2022 17:39:43: 17000000 INFO @ Sat, 15 Jan 2022 17:39:47: 22000000 INFO @ Sat, 15 Jan 2022 17:39:50: 18000000 INFO @ Sat, 15 Jan 2022 17:39:54: 23000000 INFO @ Sat, 15 Jan 2022 17:39:57: 19000000 INFO @ Sat, 15 Jan 2022 17:40:01: 24000000 INFO @ Sat, 15 Jan 2022 17:40:04: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 17:40:08: 25000000 INFO @ Sat, 15 Jan 2022 17:40:10: 21000000 INFO @ Sat, 15 Jan 2022 17:40:14: 26000000 INFO @ Sat, 15 Jan 2022 17:40:17: 22000000 INFO @ Sat, 15 Jan 2022 17:40:18: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 17:40:18: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 17:40:18: #1 total tags in treatment: 26534092 INFO @ Sat, 15 Jan 2022 17:40:18: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:40:18: #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 17:40:19: #1 tags after filtering in treatment: 26533973 INFO @ Sat, 15 Jan 2022 17:40:19: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 17:40:19: #1 finished! INFO @ Sat, 15 Jan 2022 17:40:19: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:40:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:40:21: #2 number of paired peaks: 16985 INFO @ Sat, 15 Jan 2022 17:40:21: start model_add_line... INFO @ Sat, 15 Jan 2022 17:40:22: start X-correlation... INFO @ Sat, 15 Jan 2022 17:40:22: end of X-cor INFO @ Sat, 15 Jan 2022 17:40:22: #2 finished! INFO @ Sat, 15 Jan 2022 17:40:22: #2 predicted fragment length is 177 bps INFO @ Sat, 15 Jan 2022 17:40:22: #2 alternative fragment length(s) may be 177 bps INFO @ Sat, 15 Jan 2022 17:40:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX6581727/SRX6581727.10_model.r INFO @ Sat, 15 Jan 2022 17:40:22: #3 Call peaks... INFO @ Sat, 15 Jan 2022 17:40:22: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 17:40:24: 23000000 INFO @ Sat, 15 Jan 2022 17:40:26: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 17:40:30: 24000000 INFO @ Sat, 15 Jan 2022 17:40:37: 25000000 INFO @ Sat, 15 Jan 2022 17:40:43: 26000000 INFO @ Sat, 15 Jan 2022 17:40:47: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 17:40:47: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 17:40:47: #1 total tags in treatment: 26534092 INFO @ Sat, 15 Jan 2022 17:40:47: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:40:47: #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 17:40:48: #1 tags after filtering in treatment: 26533973 INFO @ Sat, 15 Jan 2022 17:40:48: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 17:40:48: #1 finished! INFO @ Sat, 15 Jan 2022 17:40:48: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:40:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:40:50: #2 number of paired peaks: 16985 INFO @ Sat, 15 Jan 2022 17:40:50: start model_add_line... INFO @ Sat, 15 Jan 2022 17:40:50: start X-correlation... INFO @ Sat, 15 Jan 2022 17:40:50: end of X-cor INFO @ Sat, 15 Jan 2022 17:40:50: #2 finished! INFO @ Sat, 15 Jan 2022 17:40:50: #2 predicted fragment length is 177 bps INFO @ Sat, 15 Jan 2022 17:40:50: #2 alternative fragment length(s) may be 177 bps INFO @ Sat, 15 Jan 2022 17:40:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX6581727/SRX6581727.20_model.r INFO @ Sat, 15 Jan 2022 17:40:50: #3 Call peaks... INFO @ Sat, 15 Jan 2022 17:40:50: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 17:40:55: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX6581727/SRX6581727.05_peaks.xls INFO @ Sat, 15 Jan 2022 17:40:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX6581727/SRX6581727.05_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 17:40:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX6581727/SRX6581727.05_summits.bed INFO @ Sat, 15 Jan 2022 17:40:56: Done! pass1 - making usageList (87 chroms): 2 millis pass2 - checking and writing primary data (11067 records, 4 fields): 13 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 17:41:18: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 17:41:46: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX6581727/SRX6581727.10_peaks.xls INFO @ Sat, 15 Jan 2022 17:41:46: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX6581727/SRX6581727.10_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 17:41:46: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX6581727/SRX6581727.10_summits.bed INFO @ Sat, 15 Jan 2022 17:41:47: Done! pass1 - making usageList (64 chroms): 1 millis pass2 - checking and writing primary data (7495 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:41:48: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 17:42:16: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX6581727/SRX6581727.20_peaks.xls INFO @ Sat, 15 Jan 2022 17:42:16: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX6581727/SRX6581727.20_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 17:42:16: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX6581727/SRX6581727.20_summits.bed INFO @ Sat, 15 Jan 2022 17:42:16: Done! pass1 - making usageList (48 chroms): 2 millis pass2 - checking and writing primary data (3609 records, 4 fields): 6 millis CompletedMACS2peakCalling