Job ID = 14159434 SRX = SRX8976694 Genome = ce10 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 14040347 spots for SRR12483298/SRR12483298.sra Written 14040347 spots for SRR12483298/SRR12483298.sra fastq に変換しました。 bowtie でマッピング中... Your job 14159633 ("srTce11") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:12:18 14040347 reads; of these: 14040347 (100.00%) were paired; of these: 2195711 (15.64%) aligned concordantly 0 times 9636378 (68.63%) aligned concordantly exactly 1 time 2208258 (15.73%) aligned concordantly >1 times ---- 2195711 pairs aligned concordantly 0 times; of these: 1320054 (60.12%) aligned discordantly 1 time ---- 875657 pairs aligned 0 times concordantly or discordantly; of these: 1751314 mates make up the pairs; of these: 1024509 (58.50%) aligned 0 times 264433 (15.10%) aligned exactly 1 time 462372 (26.40%) aligned >1 times 96.35% overall alignment rate Time searching: 00:12:18 Overall time: 00:12:18 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_sort_core] merging from 12 files... [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] 2599156 / 13159210 = 0.1975 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 @ Wed, 08 Dec 2021 22:03:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8976694/SRX8976694.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8976694/SRX8976694.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8976694/SRX8976694.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8976694/SRX8976694.bam'] # control file = None # effective genome size = 9.00e+07 # 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 @ Wed, 08 Dec 2021 22:03:17: #1 read tag files... INFO @ Wed, 08 Dec 2021 22:03:17: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 22:03:22: 1000000 INFO @ Wed, 08 Dec 2021 22:03:26: 2000000 INFO @ Wed, 08 Dec 2021 22:03:30: 3000000 INFO @ Wed, 08 Dec 2021 22:03:34: 4000000 INFO @ Wed, 08 Dec 2021 22:03:39: 5000000 INFO @ Wed, 08 Dec 2021 22:03:43: 6000000 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 @ Wed, 08 Dec 2021 22:03:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8976694/SRX8976694.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8976694/SRX8976694.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8976694/SRX8976694.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8976694/SRX8976694.bam'] # control file = None # effective genome size = 9.00e+07 # 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 @ Wed, 08 Dec 2021 22:03:47: #1 read tag files... INFO @ Wed, 08 Dec 2021 22:03:47: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 22:03:47: 7000000 INFO @ Wed, 08 Dec 2021 22:03:52: 1000000 INFO @ Wed, 08 Dec 2021 22:03:52: 8000000 INFO @ Wed, 08 Dec 2021 22:03:57: 9000000 INFO @ Wed, 08 Dec 2021 22:03:57: 2000000 INFO @ Wed, 08 Dec 2021 22:04:02: 10000000 INFO @ Wed, 08 Dec 2021 22:04:02: 3000000 INFO @ Wed, 08 Dec 2021 22:04:07: 11000000 INFO @ Wed, 08 Dec 2021 22:04:08: 4000000 INFO @ Wed, 08 Dec 2021 22:04:12: 12000000 INFO @ Wed, 08 Dec 2021 22:04:13: 5000000 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 @ Wed, 08 Dec 2021 22:04:16: 13000000 INFO @ Wed, 08 Dec 2021 22:04:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8976694/SRX8976694.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8976694/SRX8976694.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8976694/SRX8976694.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8976694/SRX8976694.bam'] # control file = None # effective genome size = 9.00e+07 # 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 @ Wed, 08 Dec 2021 22:04:17: #1 read tag files... INFO @ Wed, 08 Dec 2021 22:04:17: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 22:04:19: 6000000 INFO @ Wed, 08 Dec 2021 22:04:21: 14000000 INFO @ Wed, 08 Dec 2021 22:04:22: 1000000 INFO @ Wed, 08 Dec 2021 22:04:25: 7000000 INFO @ Wed, 08 Dec 2021 22:04:26: 15000000 INFO @ Wed, 08 Dec 2021 22:04:28: 2000000 INFO @ Wed, 08 Dec 2021 22:04:30: 8000000 INFO @ Wed, 08 Dec 2021 22:04:31: 16000000 INFO @ Wed, 08 Dec 2021 22:04:33: 3000000 INFO @ Wed, 08 Dec 2021 22:04:36: 9000000 INFO @ Wed, 08 Dec 2021 22:04:36: 17000000 INFO @ Wed, 08 Dec 2021 22:04:39: 4000000 INFO @ Wed, 08 Dec 2021 22:04:41: 18000000 INFO @ Wed, 08 Dec 2021 22:04:41: 10000000 INFO @ Wed, 08 Dec 2021 22:04:45: 5000000 INFO @ Wed, 08 Dec 2021 22:04:46: 19000000 INFO @ Wed, 08 Dec 2021 22:04:47: 11000000 INFO @ Wed, 08 Dec 2021 22:04:50: 6000000 INFO @ Wed, 08 Dec 2021 22:04:51: 20000000 INFO @ Wed, 08 Dec 2021 22:04:53: 12000000 INFO @ Wed, 08 Dec 2021 22:04:56: 21000000 INFO @ Wed, 08 Dec 2021 22:04:56: 7000000 INFO @ Wed, 08 Dec 2021 22:04:58: 13000000 INFO @ Wed, 08 Dec 2021 22:05:00: #1 tag size is determined as 42 bps INFO @ Wed, 08 Dec 2021 22:05:00: #1 tag size = 42 INFO @ Wed, 08 Dec 2021 22:05:00: #1 total tags in treatment: 9444903 INFO @ Wed, 08 Dec 2021 22:05:00: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 22:05:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 08 Dec 2021 22:05:00: #1 tags after filtering in treatment: 8471839 INFO @ Wed, 08 Dec 2021 22:05:00: #1 Redundant rate of treatment: 0.10 INFO @ Wed, 08 Dec 2021 22:05:00: #1 finished! INFO @ Wed, 08 Dec 2021 22:05:00: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 22:05:00: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 22:05:01: #2 number of paired peaks: 1854 INFO @ Wed, 08 Dec 2021 22:05:01: start model_add_line... INFO @ Wed, 08 Dec 2021 22:05:01: start X-correlation... INFO @ Wed, 08 Dec 2021 22:05:01: end of X-cor INFO @ Wed, 08 Dec 2021 22:05:01: #2 finished! INFO @ Wed, 08 Dec 2021 22:05:01: #2 predicted fragment length is 214 bps INFO @ Wed, 08 Dec 2021 22:05:01: #2 alternative fragment length(s) may be 2,195,214,232 bps INFO @ Wed, 08 Dec 2021 22:05:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8976694/SRX8976694.05_model.r INFO @ Wed, 08 Dec 2021 22:05:01: #3 Call peaks... INFO @ Wed, 08 Dec 2021 22:05:01: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 22:05:01: 8000000 INFO @ Wed, 08 Dec 2021 22:05:04: 14000000 INFO @ Wed, 08 Dec 2021 22:05:07: 9000000 INFO @ Wed, 08 Dec 2021 22:05:09: 15000000 INFO @ Wed, 08 Dec 2021 22:05:12: 10000000 INFO @ Wed, 08 Dec 2021 22:05:15: 16000000 INFO @ Wed, 08 Dec 2021 22:05:18: 11000000 INFO @ Wed, 08 Dec 2021 22:05:20: 17000000 INFO @ Wed, 08 Dec 2021 22:05:23: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 22:05:24: 12000000 INFO @ Wed, 08 Dec 2021 22:05:25: 18000000 INFO @ Wed, 08 Dec 2021 22:05:29: 13000000 INFO @ Wed, 08 Dec 2021 22:05:31: 19000000 INFO @ Wed, 08 Dec 2021 22:05:31: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8976694/SRX8976694.05_peaks.xls INFO @ Wed, 08 Dec 2021 22:05:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8976694/SRX8976694.05_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 22:05:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8976694/SRX8976694.05_summits.bed INFO @ Wed, 08 Dec 2021 22:05:31: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (1220 records, 4 fields): 2 millis CompletedMACS2peakCalling INFO @ Wed, 08 Dec 2021 22:05:35: 14000000 INFO @ Wed, 08 Dec 2021 22:05:36: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 08 Dec 2021 22:05:40: 15000000 INFO @ Wed, 08 Dec 2021 22:05:42: 21000000 INFO @ Wed, 08 Dec 2021 22:05:46: 16000000 INFO @ Wed, 08 Dec 2021 22:05:47: #1 tag size is determined as 42 bps INFO @ Wed, 08 Dec 2021 22:05:47: #1 tag size = 42 INFO @ Wed, 08 Dec 2021 22:05:47: #1 total tags in treatment: 9444903 INFO @ Wed, 08 Dec 2021 22:05:47: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 22:05:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 08 Dec 2021 22:05:47: #1 tags after filtering in treatment: 8471839 INFO @ Wed, 08 Dec 2021 22:05:47: #1 Redundant rate of treatment: 0.10 INFO @ Wed, 08 Dec 2021 22:05:47: #1 finished! INFO @ Wed, 08 Dec 2021 22:05:47: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 22:05:47: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 22:05:48: #2 number of paired peaks: 1854 INFO @ Wed, 08 Dec 2021 22:05:48: start model_add_line... INFO @ Wed, 08 Dec 2021 22:05:48: start X-correlation... INFO @ Wed, 08 Dec 2021 22:05:48: end of X-cor INFO @ Wed, 08 Dec 2021 22:05:48: #2 finished! INFO @ Wed, 08 Dec 2021 22:05:48: #2 predicted fragment length is 214 bps INFO @ Wed, 08 Dec 2021 22:05:48: #2 alternative fragment length(s) may be 2,195,214,232 bps INFO @ Wed, 08 Dec 2021 22:05:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8976694/SRX8976694.10_model.r INFO @ Wed, 08 Dec 2021 22:05:48: #3 Call peaks... INFO @ Wed, 08 Dec 2021 22:05:48: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 22:05:51: 17000000 INFO @ Wed, 08 Dec 2021 22:05:56: 18000000 INFO @ Wed, 08 Dec 2021 22:06:01: 19000000 INFO @ Wed, 08 Dec 2021 22:06:06: 20000000 INFO @ Wed, 08 Dec 2021 22:06:09: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 22:06:12: 21000000 INFO @ Wed, 08 Dec 2021 22:06:16: #1 tag size is determined as 42 bps INFO @ Wed, 08 Dec 2021 22:06:16: #1 tag size = 42 INFO @ Wed, 08 Dec 2021 22:06:16: #1 total tags in treatment: 9444903 INFO @ Wed, 08 Dec 2021 22:06:16: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 22:06:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 08 Dec 2021 22:06:16: #1 tags after filtering in treatment: 8471839 INFO @ Wed, 08 Dec 2021 22:06:16: #1 Redundant rate of treatment: 0.10 INFO @ Wed, 08 Dec 2021 22:06:16: #1 finished! INFO @ Wed, 08 Dec 2021 22:06:16: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 22:06:16: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Wed, 08 Dec 2021 22:06:17: #2 number of paired peaks: 1854 INFO @ Wed, 08 Dec 2021 22:06:17: start model_add_line... INFO @ Wed, 08 Dec 2021 22:06:17: start X-correlation... INFO @ Wed, 08 Dec 2021 22:06:17: end of X-cor INFO @ Wed, 08 Dec 2021 22:06:17: #2 finished! INFO @ Wed, 08 Dec 2021 22:06:17: #2 predicted fragment length is 214 bps INFO @ Wed, 08 Dec 2021 22:06:17: #2 alternative fragment length(s) may be 2,195,214,232 bps INFO @ Wed, 08 Dec 2021 22:06:17: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8976694/SRX8976694.20_model.r INFO @ Wed, 08 Dec 2021 22:06:17: #3 Call peaks... INFO @ Wed, 08 Dec 2021 22:06:17: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 22:06:18: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8976694/SRX8976694.10_peaks.xls INFO @ Wed, 08 Dec 2021 22:06:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8976694/SRX8976694.10_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 22:06:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8976694/SRX8976694.10_summits.bed INFO @ Wed, 08 Dec 2021 22:06:18: Done! pass1 - making usageList (7 chroms): 0 millis pass2 - checking and writing primary data (649 records, 4 fields): 2 millis CompletedMACS2peakCalling INFO @ Wed, 08 Dec 2021 22:06:38: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 22:06:47: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8976694/SRX8976694.20_peaks.xls INFO @ Wed, 08 Dec 2021 22:06:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8976694/SRX8976694.20_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 22:06:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8976694/SRX8976694.20_summits.bed INFO @ Wed, 08 Dec 2021 22:06:47: Done! pass1 - making usageList (7 chroms): 0 millis pass2 - checking and writing primary data (249 records, 4 fields): 2 millis CompletedMACS2peakCalling