Job ID = 14159379 SRX = SRX8976688 Genome = ce10 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 16436153 spots for SRR12483292/SRR12483292.sra Written 16436153 spots for SRR12483292/SRR12483292.sra fastq に変換しました。 bowtie でマッピング中... Your job 14159614 ("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: 00:20:36 16436153 reads; of these: 16436153 (100.00%) were paired; of these: 1904734 (11.59%) aligned concordantly 0 times 11306874 (68.79%) aligned concordantly exactly 1 time 3224545 (19.62%) aligned concordantly >1 times ---- 1904734 pairs aligned concordantly 0 times; of these: 1137750 (59.73%) aligned discordantly 1 time ---- 766984 pairs aligned 0 times concordantly or discordantly; of these: 1533968 mates make up the pairs; of these: 487664 (31.79%) aligned 0 times 375139 (24.46%) aligned exactly 1 time 671165 (43.75%) aligned >1 times 98.52% overall alignment rate Time searching: 00:20:36 Overall time: 00:20:36 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] 1327082 / 15656655 = 0.0848 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 21:53:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8976688/SRX8976688.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8976688/SRX8976688.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8976688/SRX8976688.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8976688/SRX8976688.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 21:53:32: #1 read tag files... INFO @ Wed, 08 Dec 2021 21:53:32: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 21:53:40: 1000000 INFO @ Wed, 08 Dec 2021 21:53:47: 2000000 INFO @ Wed, 08 Dec 2021 21:53:55: 3000000 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 21:54:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8976688/SRX8976688.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8976688/SRX8976688.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8976688/SRX8976688.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8976688/SRX8976688.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 21:54:01: #1 read tag files... INFO @ Wed, 08 Dec 2021 21:54:01: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 21:54:02: 4000000 INFO @ Wed, 08 Dec 2021 21:54:11: 5000000 INFO @ Wed, 08 Dec 2021 21:54:11: 1000000 INFO @ Wed, 08 Dec 2021 21:54:18: 6000000 INFO @ Wed, 08 Dec 2021 21:54:21: 2000000 INFO @ Wed, 08 Dec 2021 21:54:25: 7000000 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 21:54:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8976688/SRX8976688.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8976688/SRX8976688.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8976688/SRX8976688.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8976688/SRX8976688.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 21:54:31: #1 read tag files... INFO @ Wed, 08 Dec 2021 21:54:31: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 21:54:32: 3000000 INFO @ Wed, 08 Dec 2021 21:54:33: 8000000 INFO @ Wed, 08 Dec 2021 21:54:39: 1000000 INFO @ Wed, 08 Dec 2021 21:54:40: 9000000 INFO @ Wed, 08 Dec 2021 21:54:42: 4000000 INFO @ Wed, 08 Dec 2021 21:54:48: 10000000 INFO @ Wed, 08 Dec 2021 21:54:48: 2000000 INFO @ Wed, 08 Dec 2021 21:54:52: 5000000 INFO @ Wed, 08 Dec 2021 21:54:55: 11000000 INFO @ Wed, 08 Dec 2021 21:54:57: 3000000 INFO @ Wed, 08 Dec 2021 21:55:02: 6000000 INFO @ Wed, 08 Dec 2021 21:55:04: 12000000 INFO @ Wed, 08 Dec 2021 21:55:06: 4000000 INFO @ Wed, 08 Dec 2021 21:55:12: 13000000 INFO @ Wed, 08 Dec 2021 21:55:13: 7000000 INFO @ Wed, 08 Dec 2021 21:55:15: 5000000 INFO @ Wed, 08 Dec 2021 21:55:20: 14000000 INFO @ Wed, 08 Dec 2021 21:55:23: 8000000 INFO @ Wed, 08 Dec 2021 21:55:23: 6000000 INFO @ Wed, 08 Dec 2021 21:55:28: 15000000 INFO @ Wed, 08 Dec 2021 21:55:32: 7000000 INFO @ Wed, 08 Dec 2021 21:55:34: 9000000 INFO @ Wed, 08 Dec 2021 21:55:37: 16000000 INFO @ Wed, 08 Dec 2021 21:55:41: 8000000 INFO @ Wed, 08 Dec 2021 21:55:44: 10000000 INFO @ Wed, 08 Dec 2021 21:55:45: 17000000 INFO @ Wed, 08 Dec 2021 21:55:50: 9000000 INFO @ Wed, 08 Dec 2021 21:55:53: 18000000 INFO @ Wed, 08 Dec 2021 21:55:54: 11000000 INFO @ Wed, 08 Dec 2021 21:55:59: 10000000 INFO @ Wed, 08 Dec 2021 21:56:01: 19000000 INFO @ Wed, 08 Dec 2021 21:56:05: 12000000 INFO @ Wed, 08 Dec 2021 21:56:08: 11000000 INFO @ Wed, 08 Dec 2021 21:56:09: 20000000 INFO @ Wed, 08 Dec 2021 21:56:15: 13000000 INFO @ Wed, 08 Dec 2021 21:56:17: 21000000 INFO @ Wed, 08 Dec 2021 21:56:17: 12000000 INFO @ Wed, 08 Dec 2021 21:56:25: 22000000 INFO @ Wed, 08 Dec 2021 21:56:25: 14000000 INFO @ Wed, 08 Dec 2021 21:56:26: 13000000 INFO @ Wed, 08 Dec 2021 21:56:32: 23000000 INFO @ Wed, 08 Dec 2021 21:56:34: 14000000 INFO @ Wed, 08 Dec 2021 21:56:36: 15000000 INFO @ Wed, 08 Dec 2021 21:56:40: 24000000 INFO @ Wed, 08 Dec 2021 21:56:43: 15000000 INFO @ Wed, 08 Dec 2021 21:56:45: 16000000 INFO @ Wed, 08 Dec 2021 21:56:48: 25000000 INFO @ Wed, 08 Dec 2021 21:56:52: 16000000 INFO @ Wed, 08 Dec 2021 21:56:55: 26000000 INFO @ Wed, 08 Dec 2021 21:56:56: 17000000 INFO @ Wed, 08 Dec 2021 21:57:01: 17000000 INFO @ Wed, 08 Dec 2021 21:57:04: 27000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 08 Dec 2021 21:57:06: 18000000 INFO @ Wed, 08 Dec 2021 21:57:10: 18000000 INFO @ Wed, 08 Dec 2021 21:57:12: 28000000 INFO @ Wed, 08 Dec 2021 21:57:17: 19000000 INFO @ Wed, 08 Dec 2021 21:57:18: 19000000 INFO @ Wed, 08 Dec 2021 21:57:19: 29000000 INFO @ Wed, 08 Dec 2021 21:57:25: #1 tag size is determined as 42 bps INFO @ Wed, 08 Dec 2021 21:57:25: #1 tag size = 42 INFO @ Wed, 08 Dec 2021 21:57:25: #1 total tags in treatment: 13271812 INFO @ Wed, 08 Dec 2021 21:57:25: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 21:57:25: #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 21:57:25: #1 tags after filtering in treatment: 11335223 INFO @ Wed, 08 Dec 2021 21:57:25: #1 Redundant rate of treatment: 0.15 INFO @ Wed, 08 Dec 2021 21:57:25: #1 finished! INFO @ Wed, 08 Dec 2021 21:57:25: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 21:57:25: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 21:57:26: #2 number of paired peaks: 1346 INFO @ Wed, 08 Dec 2021 21:57:26: start model_add_line... INFO @ Wed, 08 Dec 2021 21:57:27: start X-correlation... INFO @ Wed, 08 Dec 2021 21:57:27: end of X-cor INFO @ Wed, 08 Dec 2021 21:57:27: #2 finished! INFO @ Wed, 08 Dec 2021 21:57:27: #2 predicted fragment length is 193 bps INFO @ Wed, 08 Dec 2021 21:57:27: #2 alternative fragment length(s) may be 2,136,179,193 bps INFO @ Wed, 08 Dec 2021 21:57:27: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8976688/SRX8976688.05_model.r INFO @ Wed, 08 Dec 2021 21:57:27: #3 Call peaks... INFO @ Wed, 08 Dec 2021 21:57:27: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 21:57:27: 20000000 INFO @ Wed, 08 Dec 2021 21:57:28: 20000000 INFO @ Wed, 08 Dec 2021 21:57:37: 21000000 INFO @ Wed, 08 Dec 2021 21:57:38: 21000000 INFO @ Wed, 08 Dec 2021 21:57:46: 22000000 INFO @ Wed, 08 Dec 2021 21:57:48: 22000000 INFO @ Wed, 08 Dec 2021 21:57:55: 23000000 INFO @ Wed, 08 Dec 2021 21:57:58: 23000000 INFO @ Wed, 08 Dec 2021 21:58:03: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 21:58:03: 24000000 INFO @ Wed, 08 Dec 2021 21:58:08: 24000000 INFO @ Wed, 08 Dec 2021 21:58:12: 25000000 BigWig に変換しました。 INFO @ Wed, 08 Dec 2021 21:58:18: 25000000 INFO @ Wed, 08 Dec 2021 21:58:18: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8976688/SRX8976688.05_peaks.xls INFO @ Wed, 08 Dec 2021 21:58:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8976688/SRX8976688.05_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 21:58:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8976688/SRX8976688.05_summits.bed INFO @ Wed, 08 Dec 2021 21:58:18: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (871 records, 4 fields): 5 millis CompletedMACS2peakCalling INFO @ Wed, 08 Dec 2021 21:58:21: 26000000 INFO @ Wed, 08 Dec 2021 21:58:28: 26000000 INFO @ Wed, 08 Dec 2021 21:58:30: 27000000 INFO @ Wed, 08 Dec 2021 21:58:39: 27000000 INFO @ Wed, 08 Dec 2021 21:58:39: 28000000 INFO @ Wed, 08 Dec 2021 21:58:47: 29000000 INFO @ Wed, 08 Dec 2021 21:58:49: 28000000 INFO @ Wed, 08 Dec 2021 21:58:54: #1 tag size is determined as 42 bps INFO @ Wed, 08 Dec 2021 21:58:54: #1 tag size = 42 INFO @ Wed, 08 Dec 2021 21:58:54: #1 total tags in treatment: 13271812 INFO @ Wed, 08 Dec 2021 21:58:54: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 21:58:54: #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 21:58:54: #1 tags after filtering in treatment: 11335223 INFO @ Wed, 08 Dec 2021 21:58:54: #1 Redundant rate of treatment: 0.15 INFO @ Wed, 08 Dec 2021 21:58:54: #1 finished! INFO @ Wed, 08 Dec 2021 21:58:54: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 21:58:54: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 21:58:55: #2 number of paired peaks: 1346 INFO @ Wed, 08 Dec 2021 21:58:55: start model_add_line... INFO @ Wed, 08 Dec 2021 21:58:55: start X-correlation... INFO @ Wed, 08 Dec 2021 21:58:55: end of X-cor INFO @ Wed, 08 Dec 2021 21:58:55: #2 finished! INFO @ Wed, 08 Dec 2021 21:58:55: #2 predicted fragment length is 193 bps INFO @ Wed, 08 Dec 2021 21:58:55: #2 alternative fragment length(s) may be 2,136,179,193 bps INFO @ Wed, 08 Dec 2021 21:58:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8976688/SRX8976688.20_model.r INFO @ Wed, 08 Dec 2021 21:58:55: #3 Call peaks... INFO @ Wed, 08 Dec 2021 21:58:55: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 21:58:59: 29000000 INFO @ Wed, 08 Dec 2021 21:59:06: #1 tag size is determined as 42 bps INFO @ Wed, 08 Dec 2021 21:59:06: #1 tag size = 42 INFO @ Wed, 08 Dec 2021 21:59:06: #1 total tags in treatment: 13271812 INFO @ Wed, 08 Dec 2021 21:59:06: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 21:59:06: #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 21:59:06: #1 tags after filtering in treatment: 11335223 INFO @ Wed, 08 Dec 2021 21:59:06: #1 Redundant rate of treatment: 0.15 INFO @ Wed, 08 Dec 2021 21:59:06: #1 finished! INFO @ Wed, 08 Dec 2021 21:59:06: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 21:59:06: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 21:59:08: #2 number of paired peaks: 1346 INFO @ Wed, 08 Dec 2021 21:59:08: start model_add_line... INFO @ Wed, 08 Dec 2021 21:59:08: start X-correlation... INFO @ Wed, 08 Dec 2021 21:59:08: end of X-cor INFO @ Wed, 08 Dec 2021 21:59:08: #2 finished! INFO @ Wed, 08 Dec 2021 21:59:08: #2 predicted fragment length is 193 bps INFO @ Wed, 08 Dec 2021 21:59:08: #2 alternative fragment length(s) may be 2,136,179,193 bps INFO @ Wed, 08 Dec 2021 21:59:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8976688/SRX8976688.10_model.r INFO @ Wed, 08 Dec 2021 21:59:08: #3 Call peaks... INFO @ Wed, 08 Dec 2021 21:59:08: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 21:59:32: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 21:59:44: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 21:59:46: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8976688/SRX8976688.20_peaks.xls INFO @ Wed, 08 Dec 2021 21:59:46: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8976688/SRX8976688.20_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 21:59:46: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8976688/SRX8976688.20_summits.bed INFO @ Wed, 08 Dec 2021 21:59:46: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (207 records, 4 fields): 2 millis CompletedMACS2peakCalling INFO @ Wed, 08 Dec 2021 21:59:58: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8976688/SRX8976688.10_peaks.xls INFO @ Wed, 08 Dec 2021 21:59:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8976688/SRX8976688.10_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 21:59:58: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8976688/SRX8976688.10_summits.bed INFO @ Wed, 08 Dec 2021 21:59:58: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (405 records, 4 fields): 2 millis CompletedMACS2peakCalling