Job ID = 14159429 SRX = SRX8976690 Genome = ce10 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 15674404 spots for SRR12483294/SRR12483294.sra Written 15674404 spots for SRR12483294/SRR12483294.sra fastq に変換しました。 bowtie でマッピング中... Your job 14159632 ("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: 00:14:38 15674404 reads; of these: 15674404 (100.00%) were paired; of these: 1848252 (11.79%) aligned concordantly 0 times 10116753 (64.54%) aligned concordantly exactly 1 time 3709399 (23.67%) aligned concordantly >1 times ---- 1848252 pairs aligned concordantly 0 times; of these: 1054295 (57.04%) aligned discordantly 1 time ---- 793957 pairs aligned 0 times concordantly or discordantly; of these: 1587914 mates make up the pairs; of these: 472335 (29.75%) aligned 0 times 374822 (23.60%) aligned exactly 1 time 740757 (46.65%) aligned >1 times 98.49% overall alignment rate Time searching: 00:14:38 Overall time: 00:14:38 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] 1235619 / 14869785 = 0.0831 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 22:03:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8976690/SRX8976690.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8976690/SRX8976690.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8976690/SRX8976690.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8976690/SRX8976690.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 22:03:15: #1 read tag files... INFO @ Wed, 08 Dec 2021 22:03:15: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 22:03:19: 1000000 INFO @ Wed, 08 Dec 2021 22:03:23: 2000000 INFO @ Wed, 08 Dec 2021 22:03:28: 3000000 INFO @ Wed, 08 Dec 2021 22:03:32: 4000000 INFO @ Wed, 08 Dec 2021 22:03:36: 5000000 INFO @ Wed, 08 Dec 2021 22:03:40: 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 22:03:44: 7000000 INFO @ Wed, 08 Dec 2021 22:03:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8976690/SRX8976690.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8976690/SRX8976690.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8976690/SRX8976690.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8976690/SRX8976690.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 22:03:45: #1 read tag files... INFO @ Wed, 08 Dec 2021 22:03:45: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 22:03:49: 8000000 INFO @ Wed, 08 Dec 2021 22:03:49: 1000000 INFO @ Wed, 08 Dec 2021 22:03:53: 9000000 INFO @ Wed, 08 Dec 2021 22:03:54: 2000000 INFO @ Wed, 08 Dec 2021 22:03:58: 10000000 INFO @ Wed, 08 Dec 2021 22:03:59: 3000000 INFO @ Wed, 08 Dec 2021 22:04:02: 11000000 INFO @ Wed, 08 Dec 2021 22:04:03: 4000000 INFO @ Wed, 08 Dec 2021 22:04:07: 12000000 INFO @ Wed, 08 Dec 2021 22:04:08: 5000000 INFO @ Wed, 08 Dec 2021 22:04:11: 13000000 INFO @ Wed, 08 Dec 2021 22:04:12: 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 22:04:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8976690/SRX8976690.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8976690/SRX8976690.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8976690/SRX8976690.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8976690/SRX8976690.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 22:04:15: #1 read tag files... INFO @ Wed, 08 Dec 2021 22:04:15: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 22:04:16: 14000000 INFO @ Wed, 08 Dec 2021 22:04:17: 7000000 INFO @ Wed, 08 Dec 2021 22:04:19: 1000000 INFO @ Wed, 08 Dec 2021 22:04:20: 15000000 INFO @ Wed, 08 Dec 2021 22:04:21: 8000000 INFO @ Wed, 08 Dec 2021 22:04:24: 2000000 INFO @ Wed, 08 Dec 2021 22:04:25: 16000000 INFO @ Wed, 08 Dec 2021 22:04:26: 9000000 INFO @ Wed, 08 Dec 2021 22:04:29: 3000000 INFO @ Wed, 08 Dec 2021 22:04:29: 17000000 INFO @ Wed, 08 Dec 2021 22:04:30: 10000000 INFO @ Wed, 08 Dec 2021 22:04:33: 4000000 INFO @ Wed, 08 Dec 2021 22:04:34: 18000000 INFO @ Wed, 08 Dec 2021 22:04:35: 11000000 INFO @ Wed, 08 Dec 2021 22:04:37: 5000000 INFO @ Wed, 08 Dec 2021 22:04:38: 19000000 INFO @ Wed, 08 Dec 2021 22:04:39: 12000000 INFO @ Wed, 08 Dec 2021 22:04:42: 6000000 INFO @ Wed, 08 Dec 2021 22:04:43: 20000000 INFO @ Wed, 08 Dec 2021 22:04:44: 13000000 INFO @ Wed, 08 Dec 2021 22:04:46: 7000000 INFO @ Wed, 08 Dec 2021 22:04:47: 21000000 INFO @ Wed, 08 Dec 2021 22:04:48: 14000000 INFO @ Wed, 08 Dec 2021 22:04:51: 8000000 INFO @ Wed, 08 Dec 2021 22:04:52: 22000000 INFO @ Wed, 08 Dec 2021 22:04:53: 15000000 INFO @ Wed, 08 Dec 2021 22:04:56: 9000000 INFO @ Wed, 08 Dec 2021 22:04:56: 23000000 INFO @ Wed, 08 Dec 2021 22:04:57: 16000000 INFO @ Wed, 08 Dec 2021 22:05:00: 10000000 INFO @ Wed, 08 Dec 2021 22:05:00: 24000000 INFO @ Wed, 08 Dec 2021 22:05:02: 17000000 INFO @ Wed, 08 Dec 2021 22:05:05: 11000000 INFO @ Wed, 08 Dec 2021 22:05:05: 25000000 INFO @ Wed, 08 Dec 2021 22:05:07: 18000000 INFO @ Wed, 08 Dec 2021 22:05:09: 12000000 INFO @ Wed, 08 Dec 2021 22:05:09: 26000000 INFO @ Wed, 08 Dec 2021 22:05:11: 19000000 INFO @ Wed, 08 Dec 2021 22:05:14: 13000000 INFO @ Wed, 08 Dec 2021 22:05:14: 27000000 INFO @ Wed, 08 Dec 2021 22:05:16: 20000000 INFO @ Wed, 08 Dec 2021 22:05:18: 14000000 INFO @ Wed, 08 Dec 2021 22:05:18: 28000000 INFO @ Wed, 08 Dec 2021 22:05:20: 21000000 INFO @ Wed, 08 Dec 2021 22:05:20: #1 tag size is determined as 42 bps INFO @ Wed, 08 Dec 2021 22:05:20: #1 tag size = 42 INFO @ Wed, 08 Dec 2021 22:05:20: #1 total tags in treatment: 12647738 INFO @ Wed, 08 Dec 2021 22:05:20: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 22:05:20: #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 22:05:20: #1 tags after filtering in treatment: 10206202 INFO @ Wed, 08 Dec 2021 22:05:20: #1 Redundant rate of treatment: 0.19 INFO @ Wed, 08 Dec 2021 22:05:20: #1 finished! INFO @ Wed, 08 Dec 2021 22:05:20: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 22:05:20: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 22:05:21: #2 number of paired peaks: 3801 INFO @ Wed, 08 Dec 2021 22:05:21: start model_add_line... INFO @ Wed, 08 Dec 2021 22:05:21: start X-correlation... INFO @ Wed, 08 Dec 2021 22:05:21: end of X-cor INFO @ Wed, 08 Dec 2021 22:05:21: #2 finished! INFO @ Wed, 08 Dec 2021 22:05:21: #2 predicted fragment length is 246 bps INFO @ Wed, 08 Dec 2021 22:05:21: #2 alternative fragment length(s) may be 1,216,246,250,272 bps INFO @ Wed, 08 Dec 2021 22:05:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8976690/SRX8976690.05_model.r INFO @ Wed, 08 Dec 2021 22:05:21: #3 Call peaks... INFO @ Wed, 08 Dec 2021 22:05:21: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 22:05:23: 15000000 INFO @ Wed, 08 Dec 2021 22:05:25: 22000000 INFO @ Wed, 08 Dec 2021 22:05:27: 16000000 INFO @ Wed, 08 Dec 2021 22:05:29: 23000000 INFO @ Wed, 08 Dec 2021 22:05:32: 17000000 INFO @ Wed, 08 Dec 2021 22:05:34: 24000000 INFO @ Wed, 08 Dec 2021 22:05:36: 18000000 INFO @ Wed, 08 Dec 2021 22:05:38: 25000000 INFO @ Wed, 08 Dec 2021 22:05:40: 19000000 INFO @ Wed, 08 Dec 2021 22:05:43: 26000000 INFO @ Wed, 08 Dec 2021 22:05:45: 20000000 INFO @ Wed, 08 Dec 2021 22:05:47: 27000000 INFO @ Wed, 08 Dec 2021 22:05:49: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 08 Dec 2021 22:05:51: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 22:05:52: 28000000 INFO @ Wed, 08 Dec 2021 22:05:53: #1 tag size is determined as 42 bps INFO @ Wed, 08 Dec 2021 22:05:53: #1 tag size = 42 INFO @ Wed, 08 Dec 2021 22:05:53: #1 total tags in treatment: 12647738 INFO @ Wed, 08 Dec 2021 22:05:53: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 22:05:53: #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 22:05:54: 22000000 INFO @ Wed, 08 Dec 2021 22:05:54: #1 tags after filtering in treatment: 10206202 INFO @ Wed, 08 Dec 2021 22:05:54: #1 Redundant rate of treatment: 0.19 INFO @ Wed, 08 Dec 2021 22:05:54: #1 finished! INFO @ Wed, 08 Dec 2021 22:05:54: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 22:05:54: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 22:05:55: #2 number of paired peaks: 3801 INFO @ Wed, 08 Dec 2021 22:05:55: start model_add_line... INFO @ Wed, 08 Dec 2021 22:05:55: start X-correlation... INFO @ Wed, 08 Dec 2021 22:05:55: end of X-cor INFO @ Wed, 08 Dec 2021 22:05:55: #2 finished! INFO @ Wed, 08 Dec 2021 22:05:55: #2 predicted fragment length is 246 bps INFO @ Wed, 08 Dec 2021 22:05:55: #2 alternative fragment length(s) may be 1,216,246,250,272 bps INFO @ Wed, 08 Dec 2021 22:05:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8976690/SRX8976690.10_model.r INFO @ Wed, 08 Dec 2021 22:05:55: #3 Call peaks... INFO @ Wed, 08 Dec 2021 22:05:55: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 22:05:58: 23000000 INFO @ Wed, 08 Dec 2021 22:06:02: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8976690/SRX8976690.05_peaks.xls INFO @ Wed, 08 Dec 2021 22:06:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8976690/SRX8976690.05_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 22:06:02: 24000000 INFO @ Wed, 08 Dec 2021 22:06:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8976690/SRX8976690.05_summits.bed INFO @ Wed, 08 Dec 2021 22:06:02: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (1739 records, 4 fields): 3 millis CompletedMACS2peakCalling INFO @ Wed, 08 Dec 2021 22:06:06: 25000000 INFO @ Wed, 08 Dec 2021 22:06:11: 26000000 INFO @ Wed, 08 Dec 2021 22:06:15: 27000000 INFO @ Wed, 08 Dec 2021 22:06:19: 28000000 INFO @ Wed, 08 Dec 2021 22:06:21: #1 tag size is determined as 42 bps INFO @ Wed, 08 Dec 2021 22:06:21: #1 tag size = 42 INFO @ Wed, 08 Dec 2021 22:06:21: #1 total tags in treatment: 12647738 INFO @ Wed, 08 Dec 2021 22:06:21: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 22:06:21: #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 22:06:21: #1 tags after filtering in treatment: 10206202 INFO @ Wed, 08 Dec 2021 22:06:21: #1 Redundant rate of treatment: 0.19 INFO @ Wed, 08 Dec 2021 22:06:21: #1 finished! INFO @ Wed, 08 Dec 2021 22:06:21: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 22:06:21: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 22:06:22: #2 number of paired peaks: 3801 INFO @ Wed, 08 Dec 2021 22:06:22: start model_add_line... INFO @ Wed, 08 Dec 2021 22:06:22: start X-correlation... INFO @ Wed, 08 Dec 2021 22:06:22: end of X-cor INFO @ Wed, 08 Dec 2021 22:06:22: #2 finished! INFO @ Wed, 08 Dec 2021 22:06:22: #2 predicted fragment length is 246 bps INFO @ Wed, 08 Dec 2021 22:06:22: #2 alternative fragment length(s) may be 1,216,246,250,272 bps INFO @ Wed, 08 Dec 2021 22:06:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8976690/SRX8976690.20_model.r INFO @ Wed, 08 Dec 2021 22:06:22: #3 Call peaks... INFO @ Wed, 08 Dec 2021 22:06:22: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 22:06:25: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Wed, 08 Dec 2021 22:06:36: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8976690/SRX8976690.10_peaks.xls INFO @ Wed, 08 Dec 2021 22:06:36: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8976690/SRX8976690.10_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 22:06:36: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8976690/SRX8976690.10_summits.bed INFO @ Wed, 08 Dec 2021 22:06:36: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (727 records, 4 fields): 2 millis CompletedMACS2peakCalling INFO @ Wed, 08 Dec 2021 22:06:52: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 22:07:03: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8976690/SRX8976690.20_peaks.xls INFO @ Wed, 08 Dec 2021 22:07:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8976690/SRX8976690.20_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 22:07:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8976690/SRX8976690.20_summits.bed INFO @ Wed, 08 Dec 2021 22:07:03: Done! pass1 - making usageList (7 chroms): 0 millis pass2 - checking and writing primary data (299 records, 4 fields): 2 millis CompletedMACS2peakCalling