Job ID = 14518871 SRX = ERX5409217 Genome = rn6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 34190982 spots for ERR5693763/ERR5693763.sra Written 34190982 spots for ERR5693763/ERR5693763.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:02 Time loading forward index: 00:00:02 Time loading mirror index: 00:00:01 Multiseed full-index search: 00:33:36 34190982 reads; of these: 34190982 (100.00%) were unpaired; of these: 1283954 (3.76%) aligned 0 times 28441928 (83.19%) aligned exactly 1 time 4465100 (13.06%) aligned >1 times 96.24% overall alignment rate Time searching: 00:33:42 Overall time: 00:33:44 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] 5627859 / 32907028 = 0.1710 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 13:23:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX5409217/ERX5409217.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX5409217/ERX5409217.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX5409217/ERX5409217.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX5409217/ERX5409217.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 13:23:59: #1 read tag files... INFO @ Sat, 15 Jan 2022 13:23:59: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 13:24:07: 1000000 INFO @ Sat, 15 Jan 2022 13:24:16: 2000000 INFO @ Sat, 15 Jan 2022 13:24:24: 3000000 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 13:24:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX5409217/ERX5409217.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX5409217/ERX5409217.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX5409217/ERX5409217.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX5409217/ERX5409217.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 13:24:29: #1 read tag files... INFO @ Sat, 15 Jan 2022 13:24:29: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 13:24:33: 4000000 INFO @ Sat, 15 Jan 2022 13:24:38: 1000000 INFO @ Sat, 15 Jan 2022 13:24:41: 5000000 INFO @ Sat, 15 Jan 2022 13:24:47: 2000000 INFO @ Sat, 15 Jan 2022 13:24:50: 6000000 INFO @ Sat, 15 Jan 2022 13:24:56: 3000000 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 13:24:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX5409217/ERX5409217.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX5409217/ERX5409217.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX5409217/ERX5409217.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX5409217/ERX5409217.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 13:24:59: #1 read tag files... INFO @ Sat, 15 Jan 2022 13:24:59: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 13:24:59: 7000000 INFO @ Sat, 15 Jan 2022 13:25:06: 4000000 INFO @ Sat, 15 Jan 2022 13:25:08: 8000000 INFO @ Sat, 15 Jan 2022 13:25:10: 1000000 INFO @ Sat, 15 Jan 2022 13:25:15: 5000000 INFO @ Sat, 15 Jan 2022 13:25:17: 9000000 INFO @ Sat, 15 Jan 2022 13:25:21: 2000000 INFO @ Sat, 15 Jan 2022 13:25:24: 6000000 INFO @ Sat, 15 Jan 2022 13:25:26: 10000000 INFO @ Sat, 15 Jan 2022 13:25:32: 3000000 INFO @ Sat, 15 Jan 2022 13:25:33: 7000000 INFO @ Sat, 15 Jan 2022 13:25:34: 11000000 INFO @ Sat, 15 Jan 2022 13:25:43: 8000000 INFO @ Sat, 15 Jan 2022 13:25:43: 4000000 INFO @ Sat, 15 Jan 2022 13:25:43: 12000000 INFO @ Sat, 15 Jan 2022 13:25:52: 9000000 INFO @ Sat, 15 Jan 2022 13:25:53: 13000000 INFO @ Sat, 15 Jan 2022 13:25:54: 5000000 INFO @ Sat, 15 Jan 2022 13:26:01: 10000000 INFO @ Sat, 15 Jan 2022 13:26:01: 14000000 INFO @ Sat, 15 Jan 2022 13:26:05: 6000000 INFO @ Sat, 15 Jan 2022 13:26:10: 11000000 INFO @ Sat, 15 Jan 2022 13:26:10: 15000000 INFO @ Sat, 15 Jan 2022 13:26:16: 7000000 INFO @ Sat, 15 Jan 2022 13:26:19: 16000000 INFO @ Sat, 15 Jan 2022 13:26:20: 12000000 INFO @ Sat, 15 Jan 2022 13:26:28: 8000000 INFO @ Sat, 15 Jan 2022 13:26:28: 17000000 INFO @ Sat, 15 Jan 2022 13:26:30: 13000000 INFO @ Sat, 15 Jan 2022 13:26:38: 18000000 INFO @ Sat, 15 Jan 2022 13:26:38: 9000000 INFO @ Sat, 15 Jan 2022 13:26:39: 14000000 INFO @ Sat, 15 Jan 2022 13:26:46: 19000000 INFO @ Sat, 15 Jan 2022 13:26:49: 15000000 INFO @ Sat, 15 Jan 2022 13:26:50: 10000000 INFO @ Sat, 15 Jan 2022 13:26:55: 20000000 INFO @ Sat, 15 Jan 2022 13:26:59: 16000000 INFO @ Sat, 15 Jan 2022 13:27:00: 11000000 INFO @ Sat, 15 Jan 2022 13:27:03: 21000000 INFO @ Sat, 15 Jan 2022 13:27:08: 17000000 INFO @ Sat, 15 Jan 2022 13:27:11: 12000000 INFO @ Sat, 15 Jan 2022 13:27:12: 22000000 INFO @ Sat, 15 Jan 2022 13:27:17: 18000000 INFO @ Sat, 15 Jan 2022 13:27:21: 23000000 INFO @ Sat, 15 Jan 2022 13:27:22: 13000000 INFO @ Sat, 15 Jan 2022 13:27:27: 19000000 INFO @ Sat, 15 Jan 2022 13:27:30: 24000000 INFO @ Sat, 15 Jan 2022 13:27:33: 14000000 INFO @ Sat, 15 Jan 2022 13:27:36: 20000000 INFO @ Sat, 15 Jan 2022 13:27:39: 25000000 INFO @ Sat, 15 Jan 2022 13:27:44: 15000000 INFO @ Sat, 15 Jan 2022 13:27:45: 21000000 INFO @ Sat, 15 Jan 2022 13:27:47: 26000000 INFO @ Sat, 15 Jan 2022 13:27:54: 22000000 INFO @ Sat, 15 Jan 2022 13:27:55: 16000000 INFO @ Sat, 15 Jan 2022 13:27:57: 27000000 INFO @ Sat, 15 Jan 2022 13:28:00: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 13:28:00: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 13:28:00: #1 total tags in treatment: 27279169 INFO @ Sat, 15 Jan 2022 13:28:00: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 13:28:00: #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 13:28:00: #1 tags after filtering in treatment: 27279006 INFO @ Sat, 15 Jan 2022 13:28:00: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 13:28:00: #1 finished! INFO @ Sat, 15 Jan 2022 13:28:00: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 13:28:00: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 13:28:04: 23000000 INFO @ Sat, 15 Jan 2022 13:28:06: 17000000 INFO @ Sat, 15 Jan 2022 13:28:07: #2 number of paired peaks: 85853 INFO @ Sat, 15 Jan 2022 13:28:07: start model_add_line... INFO @ Sat, 15 Jan 2022 13:28:08: start X-correlation... INFO @ Sat, 15 Jan 2022 13:28:08: end of X-cor INFO @ Sat, 15 Jan 2022 13:28:08: #2 finished! INFO @ Sat, 15 Jan 2022 13:28:08: #2 predicted fragment length is 229 bps INFO @ Sat, 15 Jan 2022 13:28:08: #2 alternative fragment length(s) may be 229 bps INFO @ Sat, 15 Jan 2022 13:28:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX5409217/ERX5409217.05_model.r INFO @ Sat, 15 Jan 2022 13:28:08: #3 Call peaks... INFO @ Sat, 15 Jan 2022 13:28:08: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 13:28:13: 24000000 INFO @ Sat, 15 Jan 2022 13:28:17: 18000000 INFO @ Sat, 15 Jan 2022 13:28:23: 25000000 INFO @ Sat, 15 Jan 2022 13:28:28: 19000000 INFO @ Sat, 15 Jan 2022 13:28:32: 26000000 INFO @ Sat, 15 Jan 2022 13:28:39: 20000000 INFO @ Sat, 15 Jan 2022 13:28:42: 27000000 INFO @ Sat, 15 Jan 2022 13:28:45: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 13:28:45: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 13:28:45: #1 total tags in treatment: 27279169 INFO @ Sat, 15 Jan 2022 13:28:45: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 13:28:45: #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 13:28:46: #1 tags after filtering in treatment: 27279006 INFO @ Sat, 15 Jan 2022 13:28:46: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 13:28:46: #1 finished! INFO @ Sat, 15 Jan 2022 13:28:46: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 13:28:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 13:28:49: 21000000 INFO @ Sat, 15 Jan 2022 13:28:52: #2 number of paired peaks: 85853 INFO @ Sat, 15 Jan 2022 13:28:52: start model_add_line... INFO @ Sat, 15 Jan 2022 13:28:53: start X-correlation... INFO @ Sat, 15 Jan 2022 13:28:53: end of X-cor INFO @ Sat, 15 Jan 2022 13:28:53: #2 finished! INFO @ Sat, 15 Jan 2022 13:28:53: #2 predicted fragment length is 229 bps INFO @ Sat, 15 Jan 2022 13:28:53: #2 alternative fragment length(s) may be 229 bps INFO @ Sat, 15 Jan 2022 13:28:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX5409217/ERX5409217.10_model.r INFO @ Sat, 15 Jan 2022 13:28:53: #3 Call peaks... INFO @ Sat, 15 Jan 2022 13:28:53: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 13:28:59: 22000000 INFO @ Sat, 15 Jan 2022 13:29:10: 23000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 13:29:20: 24000000 INFO @ Sat, 15 Jan 2022 13:29:31: 25000000 INFO @ Sat, 15 Jan 2022 13:29:41: 26000000 INFO @ Sat, 15 Jan 2022 13:29:43: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 13:29:53: 27000000 INFO @ Sat, 15 Jan 2022 13:29:56: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 13:29:56: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 13:29:56: #1 total tags in treatment: 27279169 INFO @ Sat, 15 Jan 2022 13:29:56: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 13:29:56: #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 13:29:56: #1 tags after filtering in treatment: 27279006 INFO @ Sat, 15 Jan 2022 13:29:56: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 13:29:56: #1 finished! INFO @ Sat, 15 Jan 2022 13:29:56: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 13:29:56: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 13:30:03: #2 number of paired peaks: 85853 INFO @ Sat, 15 Jan 2022 13:30:03: start model_add_line... INFO @ Sat, 15 Jan 2022 13:30:04: start X-correlation... INFO @ Sat, 15 Jan 2022 13:30:04: end of X-cor INFO @ Sat, 15 Jan 2022 13:30:04: #2 finished! INFO @ Sat, 15 Jan 2022 13:30:04: #2 predicted fragment length is 229 bps INFO @ Sat, 15 Jan 2022 13:30:04: #2 alternative fragment length(s) may be 229 bps INFO @ Sat, 15 Jan 2022 13:30:04: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX5409217/ERX5409217.20_model.r INFO @ Sat, 15 Jan 2022 13:30:04: #3 Call peaks... INFO @ Sat, 15 Jan 2022 13:30:04: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 13:30:30: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 13:30:34: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX5409217/ERX5409217.05_peaks.xls INFO @ Sat, 15 Jan 2022 13:30:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX5409217/ERX5409217.05_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 13:30:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX5409217/ERX5409217.05_summits.bed INFO @ Sat, 15 Jan 2022 13:30:35: Done! pass1 - making usageList (121 chroms): 11 millis pass2 - checking and writing primary data (35451 records, 4 fields): 104 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 13:31:23: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX5409217/ERX5409217.10_peaks.xls INFO @ Sat, 15 Jan 2022 13:31:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX5409217/ERX5409217.10_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 13:31:23: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX5409217/ERX5409217.10_summits.bed INFO @ Sat, 15 Jan 2022 13:31:24: Done! pass1 - making usageList (90 chroms): 5 millis pass2 - checking and writing primary data (24530 records, 4 fields): 60 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 13:31:40: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 13:32:32: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX5409217/ERX5409217.20_peaks.xls INFO @ Sat, 15 Jan 2022 13:32:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX5409217/ERX5409217.20_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 13:32:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX5409217/ERX5409217.20_summits.bed INFO @ Sat, 15 Jan 2022 13:32:33: Done! pass1 - making usageList (72 chroms): 7 millis pass2 - checking and writing primary data (15206 records, 4 fields): 24 millis CompletedMACS2peakCalling