Job ID = 14172488 SRX = SRX7628895 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 17574301 spots for SRR10963257/SRR10963257.sra Written 17574301 spots for SRR10963257/SRR10963257.sra fastq に変換しました。 bowtie でマッピング中... Your job 14173030 ("srTdm6") 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: 00:28:56 17574301 reads; of these: 17574301 (100.00%) were paired; of these: 962630 (5.48%) aligned concordantly 0 times 11587022 (65.93%) aligned concordantly exactly 1 time 5024649 (28.59%) aligned concordantly >1 times ---- 962630 pairs aligned concordantly 0 times; of these: 165148 (17.16%) aligned discordantly 1 time ---- 797482 pairs aligned 0 times concordantly or discordantly; of these: 1594964 mates make up the pairs; of these: 774962 (48.59%) aligned 0 times 454949 (28.52%) aligned exactly 1 time 365053 (22.89%) aligned >1 times 97.80% overall alignment rate Time searching: 00:28:56 Overall time: 00:28:56 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 16 files... [bam_rmdup_core] processing reference chr2L... [bam_rmdup_core] processing reference chr2LHet... [bam_rmdup_core] processing reference chr2R... [bam_rmdup_core] processing reference chr2RHet... [bam_rmdup_core] processing reference chr3L... [bam_rmdup_core] processing reference chr3LHet... [bam_rmdup_core] processing reference chr3R... [bam_rmdup_core] processing reference chr3RHet... [bam_rmdup_core] processing reference chr4... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrU... [bam_rmdup_core] processing reference chrUextra... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXHet... [bam_rmdup_core] processing reference chrYHet... [bam_rmdup_core] 1243645 / 16751335 = 0.0742 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 @ Sat, 11 Dec 2021 16:15:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628895/SRX7628895.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628895/SRX7628895.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628895/SRX7628895.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628895/SRX7628895.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Sat, 11 Dec 2021 16:15:37: #1 read tag files... INFO @ Sat, 11 Dec 2021 16:15:37: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 16:15:42: 1000000 INFO @ Sat, 11 Dec 2021 16:15:46: 2000000 INFO @ Sat, 11 Dec 2021 16:15:51: 3000000 INFO @ Sat, 11 Dec 2021 16:15:56: 4000000 INFO @ Sat, 11 Dec 2021 16:16:01: 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 @ Sat, 11 Dec 2021 16:16:05: 6000000 INFO @ Sat, 11 Dec 2021 16:16:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628895/SRX7628895.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628895/SRX7628895.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628895/SRX7628895.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628895/SRX7628895.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Sat, 11 Dec 2021 16:16:06: #1 read tag files... INFO @ Sat, 11 Dec 2021 16:16:06: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 16:16:10: 7000000 INFO @ Sat, 11 Dec 2021 16:16:12: 1000000 INFO @ Sat, 11 Dec 2021 16:16:15: 8000000 INFO @ Sat, 11 Dec 2021 16:16:18: 2000000 INFO @ Sat, 11 Dec 2021 16:16:20: 9000000 INFO @ Sat, 11 Dec 2021 16:16:23: 3000000 INFO @ Sat, 11 Dec 2021 16:16:26: 10000000 INFO @ Sat, 11 Dec 2021 16:16:29: 4000000 INFO @ Sat, 11 Dec 2021 16:16:31: 11000000 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 @ Sat, 11 Dec 2021 16:16:35: 5000000 INFO @ Sat, 11 Dec 2021 16:16:36: 12000000 INFO @ Sat, 11 Dec 2021 16:16:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628895/SRX7628895.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628895/SRX7628895.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628895/SRX7628895.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628895/SRX7628895.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Sat, 11 Dec 2021 16:16:36: #1 read tag files... INFO @ Sat, 11 Dec 2021 16:16:36: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 16:16:41: 13000000 INFO @ Sat, 11 Dec 2021 16:16:41: 6000000 INFO @ Sat, 11 Dec 2021 16:16:42: 1000000 INFO @ Sat, 11 Dec 2021 16:16:46: 14000000 INFO @ Sat, 11 Dec 2021 16:16:47: 7000000 INFO @ Sat, 11 Dec 2021 16:16:48: 2000000 INFO @ Sat, 11 Dec 2021 16:16:51: 15000000 INFO @ Sat, 11 Dec 2021 16:16:53: 8000000 INFO @ Sat, 11 Dec 2021 16:16:53: 3000000 INFO @ Sat, 11 Dec 2021 16:16:56: 16000000 INFO @ Sat, 11 Dec 2021 16:16:59: 9000000 INFO @ Sat, 11 Dec 2021 16:16:59: 4000000 INFO @ Sat, 11 Dec 2021 16:17:02: 17000000 INFO @ Sat, 11 Dec 2021 16:17:05: 5000000 INFO @ Sat, 11 Dec 2021 16:17:05: 10000000 INFO @ Sat, 11 Dec 2021 16:17:07: 18000000 INFO @ Sat, 11 Dec 2021 16:17:10: 6000000 INFO @ Sat, 11 Dec 2021 16:17:11: 11000000 INFO @ Sat, 11 Dec 2021 16:17:12: 19000000 INFO @ Sat, 11 Dec 2021 16:17:16: 7000000 INFO @ Sat, 11 Dec 2021 16:17:17: 20000000 INFO @ Sat, 11 Dec 2021 16:17:17: 12000000 INFO @ Sat, 11 Dec 2021 16:17:22: 8000000 INFO @ Sat, 11 Dec 2021 16:17:22: 21000000 INFO @ Sat, 11 Dec 2021 16:17:23: 13000000 INFO @ Sat, 11 Dec 2021 16:17:27: 9000000 INFO @ Sat, 11 Dec 2021 16:17:27: 22000000 INFO @ Sat, 11 Dec 2021 16:17:29: 14000000 INFO @ Sat, 11 Dec 2021 16:17:32: 10000000 INFO @ Sat, 11 Dec 2021 16:17:32: 23000000 INFO @ Sat, 11 Dec 2021 16:17:35: 15000000 INFO @ Sat, 11 Dec 2021 16:17:37: 24000000 INFO @ Sat, 11 Dec 2021 16:17:38: 11000000 INFO @ Sat, 11 Dec 2021 16:17:40: 16000000 INFO @ Sat, 11 Dec 2021 16:17:43: 25000000 INFO @ Sat, 11 Dec 2021 16:17:44: 12000000 INFO @ Sat, 11 Dec 2021 16:17:46: 17000000 INFO @ Sat, 11 Dec 2021 16:17:48: 26000000 INFO @ Sat, 11 Dec 2021 16:17:50: 13000000 INFO @ Sat, 11 Dec 2021 16:17:52: 18000000 INFO @ Sat, 11 Dec 2021 16:17:53: 27000000 INFO @ Sat, 11 Dec 2021 16:17:55: 14000000 INFO @ Sat, 11 Dec 2021 16:17:58: 28000000 INFO @ Sat, 11 Dec 2021 16:17:58: 19000000 INFO @ Sat, 11 Dec 2021 16:18:00: 15000000 INFO @ Sat, 11 Dec 2021 16:18:03: 29000000 INFO @ Sat, 11 Dec 2021 16:18:04: 20000000 INFO @ Sat, 11 Dec 2021 16:18:06: 16000000 INFO @ Sat, 11 Dec 2021 16:18:08: 30000000 INFO @ Sat, 11 Dec 2021 16:18:10: 21000000 INFO @ Sat, 11 Dec 2021 16:18:11: 17000000 INFO @ Sat, 11 Dec 2021 16:18:13: 31000000 INFO @ Sat, 11 Dec 2021 16:18:16: 22000000 INFO @ Sat, 11 Dec 2021 16:18:16: 18000000 INFO @ Sat, 11 Dec 2021 16:18:18: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 16:18:18: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 16:18:18: #1 total tags in treatment: 15369617 INFO @ Sat, 11 Dec 2021 16:18:18: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 16:18:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 16:18:18: #1 tags after filtering in treatment: 14036216 INFO @ Sat, 11 Dec 2021 16:18:18: #1 Redundant rate of treatment: 0.09 INFO @ Sat, 11 Dec 2021 16:18:18: #1 finished! INFO @ Sat, 11 Dec 2021 16:18:18: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 16:18:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 16:18:19: #2 number of paired peaks: 1434 INFO @ Sat, 11 Dec 2021 16:18:19: start model_add_line... INFO @ Sat, 11 Dec 2021 16:18:19: start X-correlation... INFO @ Sat, 11 Dec 2021 16:18:19: end of X-cor INFO @ Sat, 11 Dec 2021 16:18:19: #2 finished! INFO @ Sat, 11 Dec 2021 16:18:19: #2 predicted fragment length is 175 bps INFO @ Sat, 11 Dec 2021 16:18:19: #2 alternative fragment length(s) may be 4,175 bps INFO @ Sat, 11 Dec 2021 16:18:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628895/SRX7628895.05_model.r INFO @ Sat, 11 Dec 2021 16:18:19: #3 Call peaks... INFO @ Sat, 11 Dec 2021 16:18:19: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 16:18:21: 19000000 INFO @ Sat, 11 Dec 2021 16:18:21: 23000000 INFO @ Sat, 11 Dec 2021 16:18:26: 20000000 INFO @ Sat, 11 Dec 2021 16:18:27: 24000000 INFO @ Sat, 11 Dec 2021 16:18:31: 21000000 INFO @ Sat, 11 Dec 2021 16:18:33: 25000000 INFO @ Sat, 11 Dec 2021 16:18:36: 22000000 INFO @ Sat, 11 Dec 2021 16:18:39: 26000000 INFO @ Sat, 11 Dec 2021 16:18:41: 23000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 16:18:44: 27000000 INFO @ Sat, 11 Dec 2021 16:18:46: 24000000 INFO @ Sat, 11 Dec 2021 16:18:49: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 16:18:50: 28000000 INFO @ Sat, 11 Dec 2021 16:18:51: 25000000 INFO @ Sat, 11 Dec 2021 16:18:56: 29000000 INFO @ Sat, 11 Dec 2021 16:18:57: 26000000 INFO @ Sat, 11 Dec 2021 16:19:02: 27000000 INFO @ Sat, 11 Dec 2021 16:19:02: 30000000 INFO @ Sat, 11 Dec 2021 16:19:02: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628895/SRX7628895.05_peaks.xls INFO @ Sat, 11 Dec 2021 16:19:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628895/SRX7628895.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 16:19:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628895/SRX7628895.05_summits.bed INFO @ Sat, 11 Dec 2021 16:19:02: Done! pass1 - making usageList (15 chroms): 0 millis pass2 - checking and writing primary data (2476 records, 4 fields): 4 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 16:19:07: 28000000 INFO @ Sat, 11 Dec 2021 16:19:07: 31000000 INFO @ Sat, 11 Dec 2021 16:19:12: 29000000 INFO @ Sat, 11 Dec 2021 16:19:13: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 16:19:13: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 16:19:13: #1 total tags in treatment: 15369617 INFO @ Sat, 11 Dec 2021 16:19:13: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 16:19:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 16:19:13: #1 tags after filtering in treatment: 14036216 INFO @ Sat, 11 Dec 2021 16:19:13: #1 Redundant rate of treatment: 0.09 INFO @ Sat, 11 Dec 2021 16:19:13: #1 finished! INFO @ Sat, 11 Dec 2021 16:19:13: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 16:19:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 16:19:14: #2 number of paired peaks: 1434 INFO @ Sat, 11 Dec 2021 16:19:14: start model_add_line... INFO @ Sat, 11 Dec 2021 16:19:14: start X-correlation... INFO @ Sat, 11 Dec 2021 16:19:14: end of X-cor INFO @ Sat, 11 Dec 2021 16:19:14: #2 finished! INFO @ Sat, 11 Dec 2021 16:19:14: #2 predicted fragment length is 175 bps INFO @ Sat, 11 Dec 2021 16:19:14: #2 alternative fragment length(s) may be 4,175 bps INFO @ Sat, 11 Dec 2021 16:19:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628895/SRX7628895.10_model.r INFO @ Sat, 11 Dec 2021 16:19:14: #3 Call peaks... INFO @ Sat, 11 Dec 2021 16:19:14: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 16:19:17: 30000000 INFO @ Sat, 11 Dec 2021 16:19:21: 31000000 INFO @ Sat, 11 Dec 2021 16:19:26: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 16:19:26: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 16:19:26: #1 total tags in treatment: 15369617 INFO @ Sat, 11 Dec 2021 16:19:26: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 16:19:26: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 16:19:26: #1 tags after filtering in treatment: 14036216 INFO @ Sat, 11 Dec 2021 16:19:26: #1 Redundant rate of treatment: 0.09 INFO @ Sat, 11 Dec 2021 16:19:26: #1 finished! INFO @ Sat, 11 Dec 2021 16:19:26: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 16:19:26: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 16:19:27: #2 number of paired peaks: 1434 INFO @ Sat, 11 Dec 2021 16:19:27: start model_add_line... INFO @ Sat, 11 Dec 2021 16:19:27: start X-correlation... INFO @ Sat, 11 Dec 2021 16:19:27: end of X-cor INFO @ Sat, 11 Dec 2021 16:19:27: #2 finished! INFO @ Sat, 11 Dec 2021 16:19:27: #2 predicted fragment length is 175 bps INFO @ Sat, 11 Dec 2021 16:19:27: #2 alternative fragment length(s) may be 4,175 bps INFO @ Sat, 11 Dec 2021 16:19:27: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628895/SRX7628895.20_model.r INFO @ Sat, 11 Dec 2021 16:19:27: #3 Call peaks... INFO @ Sat, 11 Dec 2021 16:19:27: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 16:19:44: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 16:19:57: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628895/SRX7628895.10_peaks.xls INFO @ Sat, 11 Dec 2021 16:19:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628895/SRX7628895.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 16:19:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628895/SRX7628895.10_summits.bed INFO @ Sat, 11 Dec 2021 16:19:57: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (1606 records, 4 fields): 3 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 16:19:58: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 16:20:11: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628895/SRX7628895.20_peaks.xls INFO @ Sat, 11 Dec 2021 16:20:11: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628895/SRX7628895.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 16:20:11: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628895/SRX7628895.20_summits.bed INFO @ Sat, 11 Dec 2021 16:20:11: Done! pass1 - making usageList (14 chroms): 0 millis pass2 - checking and writing primary data (925 records, 4 fields): 3 millis CompletedMACS2peakCalling