Job ID = 14159131 SRX = SRX8976744 Genome = ce10 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 19563967 spots for SRR12483288/SRR12483288.sra Written 19563967 spots for SRR12483288/SRR12483288.sra fastq に変換しました。 bowtie でマッピング中... Your job 14159411 ("srTce11") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:18:23 19563967 reads; of these: 19563967 (100.00%) were paired; of these: 2187924 (11.18%) aligned concordantly 0 times 12363374 (63.19%) aligned concordantly exactly 1 time 5012669 (25.62%) aligned concordantly >1 times ---- 2187924 pairs aligned concordantly 0 times; of these: 1196944 (54.71%) aligned discordantly 1 time ---- 990980 pairs aligned 0 times concordantly or discordantly; of these: 1981960 mates make up the pairs; of these: 455714 (22.99%) aligned 0 times 486566 (24.55%) aligned exactly 1 time 1039680 (52.46%) aligned >1 times 98.84% overall alignment rate Time searching: 00:18:24 Overall time: 00:18:24 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] 1530026 / 18557088 = 0.0824 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 20:12:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8976744/SRX8976744.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8976744/SRX8976744.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8976744/SRX8976744.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8976744/SRX8976744.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 20:12:14: #1 read tag files... INFO @ Wed, 08 Dec 2021 20:12:14: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 20:12:19: 1000000 INFO @ Wed, 08 Dec 2021 20:12:24: 2000000 INFO @ Wed, 08 Dec 2021 20:12:30: 3000000 INFO @ Wed, 08 Dec 2021 20:12:35: 4000000 INFO @ Wed, 08 Dec 2021 20:12:40: 5000000 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 20:12:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8976744/SRX8976744.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8976744/SRX8976744.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8976744/SRX8976744.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8976744/SRX8976744.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 20:12:43: #1 read tag files... INFO @ Wed, 08 Dec 2021 20:12:43: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 20:12:46: 6000000 INFO @ Wed, 08 Dec 2021 20:12:48: 1000000 INFO @ Wed, 08 Dec 2021 20:12:53: 7000000 INFO @ Wed, 08 Dec 2021 20:12:53: 2000000 INFO @ Wed, 08 Dec 2021 20:12:58: 3000000 INFO @ Wed, 08 Dec 2021 20:12:59: 8000000 INFO @ Wed, 08 Dec 2021 20:13:03: 4000000 INFO @ Wed, 08 Dec 2021 20:13:05: 9000000 INFO @ Wed, 08 Dec 2021 20:13:08: 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 20:13:12: 10000000 INFO @ Wed, 08 Dec 2021 20:13:13: 6000000 INFO @ Wed, 08 Dec 2021 20:13:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8976744/SRX8976744.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8976744/SRX8976744.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8976744/SRX8976744.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8976744/SRX8976744.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 20:13:13: #1 read tag files... INFO @ Wed, 08 Dec 2021 20:13:13: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 20:13:18: 7000000 INFO @ Wed, 08 Dec 2021 20:13:18: 1000000 INFO @ Wed, 08 Dec 2021 20:13:18: 11000000 INFO @ Wed, 08 Dec 2021 20:13:23: 8000000 INFO @ Wed, 08 Dec 2021 20:13:23: 2000000 INFO @ Wed, 08 Dec 2021 20:13:25: 12000000 INFO @ Wed, 08 Dec 2021 20:13:28: 9000000 INFO @ Wed, 08 Dec 2021 20:13:28: 3000000 INFO @ Wed, 08 Dec 2021 20:13:31: 13000000 INFO @ Wed, 08 Dec 2021 20:13:33: 10000000 INFO @ Wed, 08 Dec 2021 20:13:33: 4000000 INFO @ Wed, 08 Dec 2021 20:13:37: 14000000 INFO @ Wed, 08 Dec 2021 20:13:38: 11000000 INFO @ Wed, 08 Dec 2021 20:13:38: 5000000 INFO @ Wed, 08 Dec 2021 20:13:43: 12000000 INFO @ Wed, 08 Dec 2021 20:13:43: 6000000 INFO @ Wed, 08 Dec 2021 20:13:44: 15000000 INFO @ Wed, 08 Dec 2021 20:13:48: 13000000 INFO @ Wed, 08 Dec 2021 20:13:48: 7000000 INFO @ Wed, 08 Dec 2021 20:13:50: 16000000 INFO @ Wed, 08 Dec 2021 20:13:53: 14000000 INFO @ Wed, 08 Dec 2021 20:13:53: 8000000 INFO @ Wed, 08 Dec 2021 20:13:57: 17000000 INFO @ Wed, 08 Dec 2021 20:13:58: 9000000 INFO @ Wed, 08 Dec 2021 20:13:58: 15000000 INFO @ Wed, 08 Dec 2021 20:14:03: 10000000 INFO @ Wed, 08 Dec 2021 20:14:03: 18000000 INFO @ Wed, 08 Dec 2021 20:14:03: 16000000 INFO @ Wed, 08 Dec 2021 20:14:08: 11000000 INFO @ Wed, 08 Dec 2021 20:14:08: 17000000 INFO @ Wed, 08 Dec 2021 20:14:09: 19000000 INFO @ Wed, 08 Dec 2021 20:14:13: 12000000 INFO @ Wed, 08 Dec 2021 20:14:13: 18000000 INFO @ Wed, 08 Dec 2021 20:14:16: 20000000 INFO @ Wed, 08 Dec 2021 20:14:18: 13000000 INFO @ Wed, 08 Dec 2021 20:14:18: 19000000 INFO @ Wed, 08 Dec 2021 20:14:23: 21000000 INFO @ Wed, 08 Dec 2021 20:14:23: 14000000 INFO @ Wed, 08 Dec 2021 20:14:24: 20000000 INFO @ Wed, 08 Dec 2021 20:14:28: 15000000 INFO @ Wed, 08 Dec 2021 20:14:29: 21000000 INFO @ Wed, 08 Dec 2021 20:14:29: 22000000 INFO @ Wed, 08 Dec 2021 20:14:33: 16000000 INFO @ Wed, 08 Dec 2021 20:14:34: 22000000 INFO @ Wed, 08 Dec 2021 20:14:35: 23000000 INFO @ Wed, 08 Dec 2021 20:14:38: 17000000 INFO @ Wed, 08 Dec 2021 20:14:39: 23000000 INFO @ Wed, 08 Dec 2021 20:14:42: 24000000 INFO @ Wed, 08 Dec 2021 20:14:43: 18000000 INFO @ Wed, 08 Dec 2021 20:14:44: 24000000 INFO @ Wed, 08 Dec 2021 20:14:48: 19000000 INFO @ Wed, 08 Dec 2021 20:14:49: 25000000 INFO @ Wed, 08 Dec 2021 20:14:49: 25000000 INFO @ Wed, 08 Dec 2021 20:14:53: 20000000 INFO @ Wed, 08 Dec 2021 20:14:55: 26000000 INFO @ Wed, 08 Dec 2021 20:14:55: 26000000 INFO @ Wed, 08 Dec 2021 20:14:58: 21000000 INFO @ Wed, 08 Dec 2021 20:15:00: 27000000 INFO @ Wed, 08 Dec 2021 20:15:02: 27000000 INFO @ Wed, 08 Dec 2021 20:15:03: 22000000 INFO @ Wed, 08 Dec 2021 20:15:05: 28000000 INFO @ Wed, 08 Dec 2021 20:15:08: 23000000 INFO @ Wed, 08 Dec 2021 20:15:08: 28000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 08 Dec 2021 20:15:10: 29000000 INFO @ Wed, 08 Dec 2021 20:15:13: 24000000 INFO @ Wed, 08 Dec 2021 20:15:15: 30000000 INFO @ Wed, 08 Dec 2021 20:15:15: 29000000 INFO @ Wed, 08 Dec 2021 20:15:18: 25000000 INFO @ Wed, 08 Dec 2021 20:15:20: 31000000 INFO @ Wed, 08 Dec 2021 20:15:22: 30000000 INFO @ Wed, 08 Dec 2021 20:15:24: 26000000 INFO @ Wed, 08 Dec 2021 20:15:25: 32000000 INFO @ Wed, 08 Dec 2021 20:15:28: 31000000 INFO @ Wed, 08 Dec 2021 20:15:29: 27000000 INFO @ Wed, 08 Dec 2021 20:15:31: 33000000 INFO @ Wed, 08 Dec 2021 20:15:34: 28000000 INFO @ Wed, 08 Dec 2021 20:15:35: 32000000 INFO @ Wed, 08 Dec 2021 20:15:36: 34000000 INFO @ Wed, 08 Dec 2021 20:15:39: 29000000 INFO @ Wed, 08 Dec 2021 20:15:41: 35000000 INFO @ Wed, 08 Dec 2021 20:15:41: 33000000 INFO @ Wed, 08 Dec 2021 20:15:44: 30000000 INFO @ Wed, 08 Dec 2021 20:15:44: #1 tag size is determined as 42 bps INFO @ Wed, 08 Dec 2021 20:15:44: #1 tag size = 42 INFO @ Wed, 08 Dec 2021 20:15:44: #1 total tags in treatment: 15904004 INFO @ Wed, 08 Dec 2021 20:15:44: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 20:15:44: #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 20:15:44: #1 tags after filtering in treatment: 12178962 INFO @ Wed, 08 Dec 2021 20:15:44: #1 Redundant rate of treatment: 0.23 INFO @ Wed, 08 Dec 2021 20:15:44: #1 finished! INFO @ Wed, 08 Dec 2021 20:15:44: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 20:15:44: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 20:15:46: #2 number of paired peaks: 4052 INFO @ Wed, 08 Dec 2021 20:15:46: start model_add_line... INFO @ Wed, 08 Dec 2021 20:15:46: start X-correlation... INFO @ Wed, 08 Dec 2021 20:15:46: end of X-cor INFO @ Wed, 08 Dec 2021 20:15:46: #2 finished! INFO @ Wed, 08 Dec 2021 20:15:46: #2 predicted fragment length is 237 bps INFO @ Wed, 08 Dec 2021 20:15:46: #2 alternative fragment length(s) may be 1,237 bps INFO @ Wed, 08 Dec 2021 20:15:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8976744/SRX8976744.10_model.r INFO @ Wed, 08 Dec 2021 20:15:46: #3 Call peaks... INFO @ Wed, 08 Dec 2021 20:15:46: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 20:15:48: 34000000 INFO @ Wed, 08 Dec 2021 20:15:49: 31000000 BigWig に変換しました。 INFO @ Wed, 08 Dec 2021 20:15:54: 35000000 INFO @ Wed, 08 Dec 2021 20:15:54: 32000000 INFO @ Wed, 08 Dec 2021 20:15:58: #1 tag size is determined as 42 bps INFO @ Wed, 08 Dec 2021 20:15:58: #1 tag size = 42 INFO @ Wed, 08 Dec 2021 20:15:58: #1 total tags in treatment: 15904004 INFO @ Wed, 08 Dec 2021 20:15:58: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 20:15:58: #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 20:15:58: #1 tags after filtering in treatment: 12178962 INFO @ Wed, 08 Dec 2021 20:15:58: #1 Redundant rate of treatment: 0.23 INFO @ Wed, 08 Dec 2021 20:15:58: #1 finished! INFO @ Wed, 08 Dec 2021 20:15:58: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 20:15:58: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 20:15:59: 33000000 INFO @ Wed, 08 Dec 2021 20:15:59: #2 number of paired peaks: 4052 INFO @ Wed, 08 Dec 2021 20:15:59: start model_add_line... INFO @ Wed, 08 Dec 2021 20:15:59: start X-correlation... INFO @ Wed, 08 Dec 2021 20:15:59: end of X-cor INFO @ Wed, 08 Dec 2021 20:15:59: #2 finished! INFO @ Wed, 08 Dec 2021 20:15:59: #2 predicted fragment length is 237 bps INFO @ Wed, 08 Dec 2021 20:15:59: #2 alternative fragment length(s) may be 1,237 bps INFO @ Wed, 08 Dec 2021 20:15:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8976744/SRX8976744.05_model.r INFO @ Wed, 08 Dec 2021 20:15:59: #3 Call peaks... INFO @ Wed, 08 Dec 2021 20:15:59: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 20:16:04: 34000000 INFO @ Wed, 08 Dec 2021 20:16:09: 35000000 INFO @ Wed, 08 Dec 2021 20:16:12: #1 tag size is determined as 42 bps INFO @ Wed, 08 Dec 2021 20:16:12: #1 tag size = 42 INFO @ Wed, 08 Dec 2021 20:16:12: #1 total tags in treatment: 15904004 INFO @ Wed, 08 Dec 2021 20:16:12: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 20:16:12: #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 20:16:12: #1 tags after filtering in treatment: 12178962 INFO @ Wed, 08 Dec 2021 20:16:12: #1 Redundant rate of treatment: 0.23 INFO @ Wed, 08 Dec 2021 20:16:12: #1 finished! INFO @ Wed, 08 Dec 2021 20:16:12: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 20:16:12: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 20:16:13: #2 number of paired peaks: 4052 INFO @ Wed, 08 Dec 2021 20:16:13: start model_add_line... INFO @ Wed, 08 Dec 2021 20:16:13: start X-correlation... INFO @ Wed, 08 Dec 2021 20:16:13: end of X-cor INFO @ Wed, 08 Dec 2021 20:16:13: #2 finished! INFO @ Wed, 08 Dec 2021 20:16:13: #2 predicted fragment length is 237 bps INFO @ Wed, 08 Dec 2021 20:16:13: #2 alternative fragment length(s) may be 1,237 bps INFO @ Wed, 08 Dec 2021 20:16:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8976744/SRX8976744.20_model.r INFO @ Wed, 08 Dec 2021 20:16:14: #3 Call peaks... INFO @ Wed, 08 Dec 2021 20:16:14: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 20:16:21: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 20:16:33: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8976744/SRX8976744.10_peaks.xls INFO @ Wed, 08 Dec 2021 20:16:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8976744/SRX8976744.10_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 20:16:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8976744/SRX8976744.10_summits.bed INFO @ Wed, 08 Dec 2021 20:16:33: Done! pass1 - making usageList (7 chroms): 0 millis pass2 - checking and writing primary data (960 records, 4 fields): 58 millis CompletedMACS2peakCalling INFO @ Wed, 08 Dec 2021 20:16:37: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 20:16:48: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 20:16:49: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8976744/SRX8976744.05_peaks.xls INFO @ Wed, 08 Dec 2021 20:16:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8976744/SRX8976744.05_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 20:16:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8976744/SRX8976744.05_summits.bed INFO @ Wed, 08 Dec 2021 20:16:49: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (2227 records, 4 fields): 73 millis CompletedMACS2peakCalling INFO @ Wed, 08 Dec 2021 20:16:59: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8976744/SRX8976744.20_peaks.xls INFO @ Wed, 08 Dec 2021 20:16:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8976744/SRX8976744.20_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 20:16:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8976744/SRX8976744.20_summits.bed INFO @ Wed, 08 Dec 2021 20:16:59: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (381 records, 4 fields): 21 millis CompletedMACS2peakCalling