Job ID = 14158145 SRX = SRX10342570 Genome = ce10 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 9657310 spots for SRR13964596/SRR13964596.sra Written 9657310 spots for SRR13964596/SRR13964596.sra Read 9659510 spots for SRR13964597/SRR13964597.sra Written 9659510 spots for SRR13964597/SRR13964597.sra fastq に変換しました。 bowtie でマッピング中... Your job 14158667 ("srTce11") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:01 Multiseed full-index search: 00:36:42 19316820 reads; of these: 19316820 (100.00%) were paired; of these: 5984073 (30.98%) aligned concordantly 0 times 5102083 (26.41%) aligned concordantly exactly 1 time 8230664 (42.61%) aligned concordantly >1 times ---- 5984073 pairs aligned concordantly 0 times; of these: 917226 (15.33%) aligned discordantly 1 time ---- 5066847 pairs aligned 0 times concordantly or discordantly; of these: 10133694 mates make up the pairs; of these: 6938867 (68.47%) aligned 0 times 2025694 (19.99%) aligned exactly 1 time 1169133 (11.54%) aligned >1 times 82.04% overall alignment rate Time searching: 00:36:43 Overall time: 00:36:43 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 16 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] 2691751 / 13792831 = 0.1952 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 15:18:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10342570/SRX10342570.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10342570/SRX10342570.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10342570/SRX10342570.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10342570/SRX10342570.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 15:18:07: #1 read tag files... INFO @ Wed, 08 Dec 2021 15:18:07: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 15:18:12: 1000000 INFO @ Wed, 08 Dec 2021 15:18:17: 2000000 INFO @ Wed, 08 Dec 2021 15:18:21: 3000000 INFO @ Wed, 08 Dec 2021 15:18:26: 4000000 INFO @ Wed, 08 Dec 2021 15:18:30: 5000000 INFO @ Wed, 08 Dec 2021 15:18:35: 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 15:18:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10342570/SRX10342570.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10342570/SRX10342570.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10342570/SRX10342570.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10342570/SRX10342570.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 15:18:37: #1 read tag files... INFO @ Wed, 08 Dec 2021 15:18:37: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 15:18:39: 7000000 INFO @ Wed, 08 Dec 2021 15:18:42: 1000000 INFO @ Wed, 08 Dec 2021 15:18:43: 8000000 INFO @ Wed, 08 Dec 2021 15:18:46: 2000000 INFO @ Wed, 08 Dec 2021 15:18:48: 9000000 INFO @ Wed, 08 Dec 2021 15:18:50: 3000000 INFO @ Wed, 08 Dec 2021 15:18:53: 10000000 INFO @ Wed, 08 Dec 2021 15:18:54: 4000000 INFO @ Wed, 08 Dec 2021 15:18:58: 11000000 INFO @ Wed, 08 Dec 2021 15:18:59: 5000000 INFO @ Wed, 08 Dec 2021 15:19:02: 12000000 INFO @ Wed, 08 Dec 2021 15:19:04: 6000000 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 15:19:07: 13000000 INFO @ Wed, 08 Dec 2021 15:19:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX10342570/SRX10342570.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX10342570/SRX10342570.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX10342570/SRX10342570.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX10342570/SRX10342570.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 15:19:07: #1 read tag files... INFO @ Wed, 08 Dec 2021 15:19:07: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 15:19:09: 7000000 INFO @ Wed, 08 Dec 2021 15:19:11: 14000000 INFO @ Wed, 08 Dec 2021 15:19:12: 1000000 INFO @ Wed, 08 Dec 2021 15:19:15: 8000000 INFO @ Wed, 08 Dec 2021 15:19:15: 15000000 INFO @ Wed, 08 Dec 2021 15:19:17: 2000000 INFO @ Wed, 08 Dec 2021 15:19:19: 9000000 INFO @ Wed, 08 Dec 2021 15:19:19: 16000000 INFO @ Wed, 08 Dec 2021 15:19:22: 3000000 INFO @ Wed, 08 Dec 2021 15:19:23: 10000000 INFO @ Wed, 08 Dec 2021 15:19:24: 17000000 INFO @ Wed, 08 Dec 2021 15:19:27: 4000000 INFO @ Wed, 08 Dec 2021 15:19:28: 11000000 INFO @ Wed, 08 Dec 2021 15:19:28: 18000000 INFO @ Wed, 08 Dec 2021 15:19:31: 5000000 INFO @ Wed, 08 Dec 2021 15:19:32: 19000000 INFO @ Wed, 08 Dec 2021 15:19:33: 12000000 INFO @ Wed, 08 Dec 2021 15:19:35: 6000000 INFO @ Wed, 08 Dec 2021 15:19:36: 20000000 INFO @ Wed, 08 Dec 2021 15:19:38: 13000000 INFO @ Wed, 08 Dec 2021 15:19:40: 7000000 INFO @ Wed, 08 Dec 2021 15:19:41: 21000000 INFO @ Wed, 08 Dec 2021 15:19:43: 14000000 INFO @ Wed, 08 Dec 2021 15:19:44: 8000000 INFO @ Wed, 08 Dec 2021 15:19:45: 22000000 INFO @ Wed, 08 Dec 2021 15:19:48: 15000000 INFO @ Wed, 08 Dec 2021 15:19:49: 9000000 INFO @ Wed, 08 Dec 2021 15:19:49: 23000000 INFO @ Wed, 08 Dec 2021 15:19:53: 16000000 INFO @ Wed, 08 Dec 2021 15:19:55: 24000000 INFO @ Wed, 08 Dec 2021 15:19:55: 10000000 INFO @ Wed, 08 Dec 2021 15:19:58: 17000000 INFO @ Wed, 08 Dec 2021 15:20:00: 25000000 INFO @ Wed, 08 Dec 2021 15:20:03: 11000000 INFO @ Wed, 08 Dec 2021 15:20:03: 18000000 INFO @ Wed, 08 Dec 2021 15:20:04: 26000000 INFO @ Wed, 08 Dec 2021 15:20:06: #1 tag size is determined as 51 bps INFO @ Wed, 08 Dec 2021 15:20:06: #1 tag size = 51 INFO @ Wed, 08 Dec 2021 15:20:06: #1 total tags in treatment: 10689281 INFO @ Wed, 08 Dec 2021 15:20:06: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 15:20:06: #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 15:20:06: #1 tags after filtering in treatment: 4770543 INFO @ Wed, 08 Dec 2021 15:20:06: #1 Redundant rate of treatment: 0.55 INFO @ Wed, 08 Dec 2021 15:20:06: #1 finished! INFO @ Wed, 08 Dec 2021 15:20:06: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 15:20:06: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 15:20:06: #2 number of paired peaks: 2363 INFO @ Wed, 08 Dec 2021 15:20:06: start model_add_line... INFO @ Wed, 08 Dec 2021 15:20:07: start X-correlation... INFO @ Wed, 08 Dec 2021 15:20:07: end of X-cor INFO @ Wed, 08 Dec 2021 15:20:07: #2 finished! INFO @ Wed, 08 Dec 2021 15:20:07: #2 predicted fragment length is 157 bps INFO @ Wed, 08 Dec 2021 15:20:07: #2 alternative fragment length(s) may be 4,157 bps INFO @ Wed, 08 Dec 2021 15:20:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10342570/SRX10342570.05_model.r INFO @ Wed, 08 Dec 2021 15:20:07: #3 Call peaks... INFO @ Wed, 08 Dec 2021 15:20:07: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 15:20:09: 19000000 INFO @ Wed, 08 Dec 2021 15:20:09: 12000000 INFO @ Wed, 08 Dec 2021 15:20:14: 20000000 INFO @ Wed, 08 Dec 2021 15:20:14: 13000000 INFO @ Wed, 08 Dec 2021 15:20:19: 21000000 INFO @ Wed, 08 Dec 2021 15:20:21: 14000000 INFO @ Wed, 08 Dec 2021 15:20:21: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 15:20:24: 22000000 INFO @ Wed, 08 Dec 2021 15:20:26: 15000000 INFO @ Wed, 08 Dec 2021 15:20:26: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10342570/SRX10342570.05_peaks.xls INFO @ Wed, 08 Dec 2021 15:20:26: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10342570/SRX10342570.05_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 15:20:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10342570/SRX10342570.05_summits.bed INFO @ Wed, 08 Dec 2021 15:20:26: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (3322 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Wed, 08 Dec 2021 15:20:30: 23000000 INFO @ Wed, 08 Dec 2021 15:20:32: 16000000 INFO @ Wed, 08 Dec 2021 15:20:35: 24000000 INFO @ Wed, 08 Dec 2021 15:20:37: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 08 Dec 2021 15:20:40: 25000000 INFO @ Wed, 08 Dec 2021 15:20:42: 18000000 INFO @ Wed, 08 Dec 2021 15:20:45: 26000000 INFO @ Wed, 08 Dec 2021 15:20:47: 19000000 INFO @ Wed, 08 Dec 2021 15:20:47: #1 tag size is determined as 51 bps INFO @ Wed, 08 Dec 2021 15:20:47: #1 tag size = 51 INFO @ Wed, 08 Dec 2021 15:20:47: #1 total tags in treatment: 10689281 INFO @ Wed, 08 Dec 2021 15:20:47: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 15:20:47: #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 15:20:47: #1 tags after filtering in treatment: 4770543 INFO @ Wed, 08 Dec 2021 15:20:47: #1 Redundant rate of treatment: 0.55 INFO @ Wed, 08 Dec 2021 15:20:47: #1 finished! INFO @ Wed, 08 Dec 2021 15:20:47: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 15:20:47: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 15:20:48: #2 number of paired peaks: 2363 INFO @ Wed, 08 Dec 2021 15:20:48: start model_add_line... INFO @ Wed, 08 Dec 2021 15:20:48: start X-correlation... INFO @ Wed, 08 Dec 2021 15:20:48: end of X-cor INFO @ Wed, 08 Dec 2021 15:20:48: #2 finished! INFO @ Wed, 08 Dec 2021 15:20:48: #2 predicted fragment length is 157 bps INFO @ Wed, 08 Dec 2021 15:20:48: #2 alternative fragment length(s) may be 4,157 bps INFO @ Wed, 08 Dec 2021 15:20:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10342570/SRX10342570.10_model.r INFO @ Wed, 08 Dec 2021 15:20:48: #3 Call peaks... INFO @ Wed, 08 Dec 2021 15:20:48: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 15:20:51: 20000000 INFO @ Wed, 08 Dec 2021 15:20:56: 21000000 INFO @ Wed, 08 Dec 2021 15:21:01: 22000000 INFO @ Wed, 08 Dec 2021 15:21:03: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 15:21:05: 23000000 INFO @ Wed, 08 Dec 2021 15:21:09: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10342570/SRX10342570.10_peaks.xls INFO @ Wed, 08 Dec 2021 15:21:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10342570/SRX10342570.10_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 15:21:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10342570/SRX10342570.10_summits.bed INFO @ Wed, 08 Dec 2021 15:21:09: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (1974 records, 4 fields): 5 millis CompletedMACS2peakCalling INFO @ Wed, 08 Dec 2021 15:21:10: 24000000 BigWig に変換しました。 INFO @ Wed, 08 Dec 2021 15:21:15: 25000000 INFO @ Wed, 08 Dec 2021 15:21:19: 26000000 INFO @ Wed, 08 Dec 2021 15:21:20: #1 tag size is determined as 51 bps INFO @ Wed, 08 Dec 2021 15:21:20: #1 tag size = 51 INFO @ Wed, 08 Dec 2021 15:21:20: #1 total tags in treatment: 10689281 INFO @ Wed, 08 Dec 2021 15:21:20: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 15:21:20: #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 15:21:21: #1 tags after filtering in treatment: 4770543 INFO @ Wed, 08 Dec 2021 15:21:21: #1 Redundant rate of treatment: 0.55 INFO @ Wed, 08 Dec 2021 15:21:21: #1 finished! INFO @ Wed, 08 Dec 2021 15:21:21: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 15:21:21: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 15:21:21: #2 number of paired peaks: 2363 INFO @ Wed, 08 Dec 2021 15:21:21: start model_add_line... INFO @ Wed, 08 Dec 2021 15:21:21: start X-correlation... INFO @ Wed, 08 Dec 2021 15:21:21: end of X-cor INFO @ Wed, 08 Dec 2021 15:21:21: #2 finished! INFO @ Wed, 08 Dec 2021 15:21:21: #2 predicted fragment length is 157 bps INFO @ Wed, 08 Dec 2021 15:21:21: #2 alternative fragment length(s) may be 4,157 bps INFO @ Wed, 08 Dec 2021 15:21:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX10342570/SRX10342570.20_model.r INFO @ Wed, 08 Dec 2021 15:21:21: #3 Call peaks... INFO @ Wed, 08 Dec 2021 15:21:21: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 15:21:35: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 15:21:40: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX10342570/SRX10342570.20_peaks.xls INFO @ Wed, 08 Dec 2021 15:21:40: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX10342570/SRX10342570.20_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 15:21:40: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX10342570/SRX10342570.20_summits.bed INFO @ Wed, 08 Dec 2021 15:21:40: Done! pass1 - making usageList (7 chroms): 26 millis pass2 - checking and writing primary data (1211 records, 4 fields): 3 millis CompletedMACS2peakCalling