Job ID = 14519008 SRX = ERX2745105 Genome = rn6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 56028721 spots for ERR2731880/ERR2731880.sra Written 56028721 spots for ERR2731880/ERR2731880.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: 00:00:02 Time loading mirror index: 00:00:01 Multiseed full-index search: 00:35:06 56028721 reads; of these: 56028721 (100.00%) were unpaired; of these: 1777307 (3.17%) aligned 0 times 47976758 (85.63%) aligned exactly 1 time 6274656 (11.20%) aligned >1 times 96.83% overall alignment rate Time searching: 00:35:11 Overall time: 00:35:11 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 24 files... [bam_rmdupse_core] 11499324 / 54251414 = 0.2120 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 14:54:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX2745105/ERX2745105.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX2745105/ERX2745105.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX2745105/ERX2745105.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX2745105/ERX2745105.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 14:54:24: #1 read tag files... INFO @ Sat, 15 Jan 2022 14:54:24: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 14:54:30: 1000000 INFO @ Sat, 15 Jan 2022 14:54:36: 2000000 INFO @ Sat, 15 Jan 2022 14:54:42: 3000000 INFO @ Sat, 15 Jan 2022 14:54:48: 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 14:54:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX2745105/ERX2745105.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX2745105/ERX2745105.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX2745105/ERX2745105.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX2745105/ERX2745105.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 14:54:54: #1 read tag files... INFO @ Sat, 15 Jan 2022 14:54:54: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 14:54:54: 5000000 INFO @ Sat, 15 Jan 2022 14:55:00: 1000000 INFO @ Sat, 15 Jan 2022 14:55:00: 6000000 INFO @ Sat, 15 Jan 2022 14:55:06: 2000000 INFO @ Sat, 15 Jan 2022 14:55:07: 7000000 INFO @ Sat, 15 Jan 2022 14:55:13: 3000000 INFO @ Sat, 15 Jan 2022 14:55:13: 8000000 INFO @ Sat, 15 Jan 2022 14:55:19: 4000000 INFO @ Sat, 15 Jan 2022 14:55:19: 9000000 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 14:55:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX2745105/ERX2745105.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX2745105/ERX2745105.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX2745105/ERX2745105.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX2745105/ERX2745105.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 14:55:24: #1 read tag files... INFO @ Sat, 15 Jan 2022 14:55:24: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 14:55:25: 5000000 INFO @ Sat, 15 Jan 2022 14:55:26: 10000000 INFO @ Sat, 15 Jan 2022 14:55:30: 1000000 INFO @ Sat, 15 Jan 2022 14:55:32: 6000000 INFO @ Sat, 15 Jan 2022 14:55:33: 11000000 INFO @ Sat, 15 Jan 2022 14:55:37: 2000000 INFO @ Sat, 15 Jan 2022 14:55:38: 7000000 INFO @ Sat, 15 Jan 2022 14:55:40: 12000000 INFO @ Sat, 15 Jan 2022 14:55:44: 3000000 INFO @ Sat, 15 Jan 2022 14:55:45: 8000000 INFO @ Sat, 15 Jan 2022 14:55:47: 13000000 INFO @ Sat, 15 Jan 2022 14:55:51: 4000000 INFO @ Sat, 15 Jan 2022 14:55:52: 9000000 INFO @ Sat, 15 Jan 2022 14:55:54: 14000000 INFO @ Sat, 15 Jan 2022 14:55:57: 5000000 INFO @ Sat, 15 Jan 2022 14:55:58: 10000000 INFO @ Sat, 15 Jan 2022 14:56:00: 15000000 INFO @ Sat, 15 Jan 2022 14:56:04: 6000000 INFO @ Sat, 15 Jan 2022 14:56:05: 11000000 INFO @ Sat, 15 Jan 2022 14:56:07: 16000000 INFO @ Sat, 15 Jan 2022 14:56:11: 7000000 INFO @ Sat, 15 Jan 2022 14:56:12: 12000000 INFO @ Sat, 15 Jan 2022 14:56:14: 17000000 INFO @ Sat, 15 Jan 2022 14:56:17: 8000000 INFO @ Sat, 15 Jan 2022 14:56:18: 13000000 INFO @ Sat, 15 Jan 2022 14:56:20: 18000000 INFO @ Sat, 15 Jan 2022 14:56:24: 9000000 INFO @ Sat, 15 Jan 2022 14:56:25: 14000000 INFO @ Sat, 15 Jan 2022 14:56:27: 19000000 INFO @ Sat, 15 Jan 2022 14:56:30: 10000000 INFO @ Sat, 15 Jan 2022 14:56:31: 15000000 INFO @ Sat, 15 Jan 2022 14:56:34: 20000000 INFO @ Sat, 15 Jan 2022 14:56:37: 11000000 INFO @ Sat, 15 Jan 2022 14:56:38: 16000000 INFO @ Sat, 15 Jan 2022 14:56:40: 21000000 INFO @ Sat, 15 Jan 2022 14:56:44: 12000000 INFO @ Sat, 15 Jan 2022 14:56:44: 17000000 INFO @ Sat, 15 Jan 2022 14:56:47: 22000000 INFO @ Sat, 15 Jan 2022 14:56:50: 13000000 INFO @ Sat, 15 Jan 2022 14:56:51: 18000000 INFO @ Sat, 15 Jan 2022 14:56:53: 23000000 INFO @ Sat, 15 Jan 2022 14:56:57: 14000000 INFO @ Sat, 15 Jan 2022 14:56:57: 19000000 INFO @ Sat, 15 Jan 2022 14:57:00: 24000000 INFO @ Sat, 15 Jan 2022 14:57:03: 15000000 INFO @ Sat, 15 Jan 2022 14:57:04: 20000000 INFO @ Sat, 15 Jan 2022 14:57:06: 25000000 INFO @ Sat, 15 Jan 2022 14:57:10: 16000000 INFO @ Sat, 15 Jan 2022 14:57:10: 21000000 INFO @ Sat, 15 Jan 2022 14:57:13: 26000000 INFO @ Sat, 15 Jan 2022 14:57:16: 17000000 INFO @ Sat, 15 Jan 2022 14:57:16: 22000000 INFO @ Sat, 15 Jan 2022 14:57:19: 27000000 INFO @ Sat, 15 Jan 2022 14:57:22: 18000000 INFO @ Sat, 15 Jan 2022 14:57:23: 23000000 INFO @ Sat, 15 Jan 2022 14:57:26: 28000000 INFO @ Sat, 15 Jan 2022 14:57:29: 19000000 INFO @ Sat, 15 Jan 2022 14:57:30: 24000000 INFO @ Sat, 15 Jan 2022 14:57:33: 29000000 INFO @ Sat, 15 Jan 2022 14:57:36: 20000000 INFO @ Sat, 15 Jan 2022 14:57:36: 25000000 INFO @ Sat, 15 Jan 2022 14:57:40: 30000000 INFO @ Sat, 15 Jan 2022 14:57:43: 21000000 INFO @ Sat, 15 Jan 2022 14:57:43: 26000000 INFO @ Sat, 15 Jan 2022 14:57:47: 31000000 INFO @ Sat, 15 Jan 2022 14:57:49: 22000000 INFO @ Sat, 15 Jan 2022 14:57:50: 27000000 INFO @ Sat, 15 Jan 2022 14:57:53: 32000000 INFO @ Sat, 15 Jan 2022 14:57:56: 23000000 INFO @ Sat, 15 Jan 2022 14:57:56: 28000000 INFO @ Sat, 15 Jan 2022 14:58:00: 33000000 INFO @ Sat, 15 Jan 2022 14:58:03: 24000000 INFO @ Sat, 15 Jan 2022 14:58:03: 29000000 INFO @ Sat, 15 Jan 2022 14:58:07: 34000000 INFO @ Sat, 15 Jan 2022 14:58:10: 30000000 INFO @ Sat, 15 Jan 2022 14:58:10: 25000000 INFO @ Sat, 15 Jan 2022 14:58:14: 35000000 INFO @ Sat, 15 Jan 2022 14:58:16: 31000000 INFO @ Sat, 15 Jan 2022 14:58:17: 26000000 INFO @ Sat, 15 Jan 2022 14:58:20: 36000000 INFO @ Sat, 15 Jan 2022 14:58:23: 32000000 INFO @ Sat, 15 Jan 2022 14:58:23: 27000000 INFO @ Sat, 15 Jan 2022 14:58:27: 37000000 INFO @ Sat, 15 Jan 2022 14:58:30: 33000000 INFO @ Sat, 15 Jan 2022 14:58:30: 28000000 INFO @ Sat, 15 Jan 2022 14:58:34: 38000000 INFO @ Sat, 15 Jan 2022 14:58:37: 34000000 INFO @ Sat, 15 Jan 2022 14:58:37: 29000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 14:58:42: 39000000 INFO @ Sat, 15 Jan 2022 14:58:44: 35000000 INFO @ Sat, 15 Jan 2022 14:58:44: 30000000 INFO @ Sat, 15 Jan 2022 14:58:49: 40000000 INFO @ Sat, 15 Jan 2022 14:58:51: 36000000 INFO @ Sat, 15 Jan 2022 14:58:51: 31000000 INFO @ Sat, 15 Jan 2022 14:58:56: 41000000 INFO @ Sat, 15 Jan 2022 14:58:57: 37000000 INFO @ Sat, 15 Jan 2022 14:58:58: 32000000 INFO @ Sat, 15 Jan 2022 14:59:03: 42000000 INFO @ Sat, 15 Jan 2022 14:59:04: 38000000 INFO @ Sat, 15 Jan 2022 14:59:05: 33000000 INFO @ Sat, 15 Jan 2022 14:59:08: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 14:59:08: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 14:59:08: #1 total tags in treatment: 42752090 INFO @ Sat, 15 Jan 2022 14:59:08: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 14:59:08: #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 14:59:09: #1 tags after filtering in treatment: 42751922 INFO @ Sat, 15 Jan 2022 14:59:09: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 14:59:09: #1 finished! INFO @ Sat, 15 Jan 2022 14:59:09: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 14:59:09: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 14:59:11: 39000000 INFO @ Sat, 15 Jan 2022 14:59:11: 34000000 INFO @ Sat, 15 Jan 2022 14:59:16: #2 number of paired peaks: 114619 INFO @ Sat, 15 Jan 2022 14:59:16: start model_add_line... INFO @ Sat, 15 Jan 2022 14:59:17: start X-correlation... INFO @ Sat, 15 Jan 2022 14:59:17: end of X-cor INFO @ Sat, 15 Jan 2022 14:59:17: #2 finished! INFO @ Sat, 15 Jan 2022 14:59:17: #2 predicted fragment length is 211 bps INFO @ Sat, 15 Jan 2022 14:59:17: #2 alternative fragment length(s) may be 211 bps INFO @ Sat, 15 Jan 2022 14:59:17: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745105/ERX2745105.05_model.r INFO @ Sat, 15 Jan 2022 14:59:17: #3 Call peaks... INFO @ Sat, 15 Jan 2022 14:59:17: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 14:59:18: 40000000 INFO @ Sat, 15 Jan 2022 14:59:18: 35000000 INFO @ Sat, 15 Jan 2022 14:59:24: 41000000 INFO @ Sat, 15 Jan 2022 14:59:25: 36000000 INFO @ Sat, 15 Jan 2022 14:59:31: 42000000 INFO @ Sat, 15 Jan 2022 14:59:32: 37000000 INFO @ Sat, 15 Jan 2022 14:59:36: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 14:59:36: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 14:59:36: #1 total tags in treatment: 42752090 INFO @ Sat, 15 Jan 2022 14:59:36: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 14:59:36: #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 14:59:37: #1 tags after filtering in treatment: 42751922 INFO @ Sat, 15 Jan 2022 14:59:37: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 14:59:37: #1 finished! INFO @ Sat, 15 Jan 2022 14:59:37: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 14:59:37: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 14:59:38: 38000000 INFO @ Sat, 15 Jan 2022 14:59:44: #2 number of paired peaks: 114619 INFO @ Sat, 15 Jan 2022 14:59:44: start model_add_line... INFO @ Sat, 15 Jan 2022 14:59:45: 39000000 INFO @ Sat, 15 Jan 2022 14:59:45: start X-correlation... INFO @ Sat, 15 Jan 2022 14:59:45: end of X-cor INFO @ Sat, 15 Jan 2022 14:59:45: #2 finished! INFO @ Sat, 15 Jan 2022 14:59:45: #2 predicted fragment length is 211 bps INFO @ Sat, 15 Jan 2022 14:59:45: #2 alternative fragment length(s) may be 211 bps INFO @ Sat, 15 Jan 2022 14:59:45: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745105/ERX2745105.10_model.r INFO @ Sat, 15 Jan 2022 14:59:45: #3 Call peaks... INFO @ Sat, 15 Jan 2022 14:59:45: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 14:59:51: 40000000 INFO @ Sat, 15 Jan 2022 14:59:57: 41000000 INFO @ Sat, 15 Jan 2022 15:00:03: 42000000 INFO @ Sat, 15 Jan 2022 15:00:07: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 15:00:07: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 15:00:07: #1 total tags in treatment: 42752090 INFO @ Sat, 15 Jan 2022 15:00:07: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 15:00:07: #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 15:00:08: #1 tags after filtering in treatment: 42751922 INFO @ Sat, 15 Jan 2022 15:00:08: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 15:00:08: #1 finished! INFO @ Sat, 15 Jan 2022 15:00:08: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 15:00:08: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 15:00:15: #2 number of paired peaks: 114619 INFO @ Sat, 15 Jan 2022 15:00:15: start model_add_line... INFO @ Sat, 15 Jan 2022 15:00:16: start X-correlation... INFO @ Sat, 15 Jan 2022 15:00:16: end of X-cor INFO @ Sat, 15 Jan 2022 15:00:16: #2 finished! INFO @ Sat, 15 Jan 2022 15:00:16: #2 predicted fragment length is 211 bps INFO @ Sat, 15 Jan 2022 15:00:16: #2 alternative fragment length(s) may be 211 bps INFO @ Sat, 15 Jan 2022 15:00:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745105/ERX2745105.20_model.r INFO @ Sat, 15 Jan 2022 15:00:16: #3 Call peaks... INFO @ Sat, 15 Jan 2022 15:00:16: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 15:01:05: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 15:01:23: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 15:01:53: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 15:02:01: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745105/ERX2745105.05_peaks.xls INFO @ Sat, 15 Jan 2022 15:02:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745105/ERX2745105.05_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 15:02:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745105/ERX2745105.05_summits.bed INFO @ Sat, 15 Jan 2022 15:02:02: Done! pass1 - making usageList (137 chroms): 6 millis pass2 - checking and writing primary data (38892 records, 4 fields): 39 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 15:02:18: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745105/ERX2745105.10_peaks.xls INFO @ Sat, 15 Jan 2022 15:02:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745105/ERX2745105.10_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 15:02:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745105/ERX2745105.10_summits.bed INFO @ Sat, 15 Jan 2022 15:02:18: Done! pass1 - making usageList (107 chroms): 4 millis pass2 - checking and writing primary data (24016 records, 4 fields): 25 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 15:02:47: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745105/ERX2745105.20_peaks.xls INFO @ Sat, 15 Jan 2022 15:02:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745105/ERX2745105.20_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 15:02:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745105/ERX2745105.20_summits.bed INFO @ Sat, 15 Jan 2022 15:02:47: Done! pass1 - making usageList (75 chroms): 2 millis pass2 - checking and writing primary data (14430 records, 4 fields): 16 millis CompletedMACS2peakCalling