Job ID = 14167220 SRX = SRX9047374 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 22968059 spots for SRR12558902/SRR12558902.sra Written 22968059 spots for SRR12558902/SRR12558902.sra fastq に変換しました。 bowtie でマッピング中... Your job 14167930 ("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: 00:38:23 22968059 reads; of these: 22968059 (100.00%) were paired; of these: 4453458 (19.39%) aligned concordantly 0 times 14258508 (62.08%) aligned concordantly exactly 1 time 4256093 (18.53%) aligned concordantly >1 times ---- 4453458 pairs aligned concordantly 0 times; of these: 1264427 (28.39%) aligned discordantly 1 time ---- 3189031 pairs aligned 0 times concordantly or discordantly; of these: 6378062 mates make up the pairs; of these: 4283850 (67.17%) aligned 0 times 867295 (13.60%) aligned exactly 1 time 1226917 (19.24%) aligned >1 times 90.67% overall alignment rate Time searching: 00:38:23 Overall time: 00:38:23 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] 2075291 / 19744853 = 0.1051 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 @ Fri, 10 Dec 2021 11:54:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9047374/SRX9047374.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9047374/SRX9047374.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9047374/SRX9047374.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9047374/SRX9047374.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 @ Fri, 10 Dec 2021 11:54:41: #1 read tag files... INFO @ Fri, 10 Dec 2021 11:54:41: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 11:54:45: 1000000 INFO @ Fri, 10 Dec 2021 11:54:49: 2000000 INFO @ Fri, 10 Dec 2021 11:54:54: 3000000 INFO @ Fri, 10 Dec 2021 11:54:58: 4000000 INFO @ Fri, 10 Dec 2021 11:55:02: 5000000 INFO @ Fri, 10 Dec 2021 11:55:07: 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 @ Fri, 10 Dec 2021 11:55:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9047374/SRX9047374.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9047374/SRX9047374.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9047374/SRX9047374.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9047374/SRX9047374.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 @ Fri, 10 Dec 2021 11:55:11: #1 read tag files... INFO @ Fri, 10 Dec 2021 11:55:11: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 11:55:11: 7000000 INFO @ Fri, 10 Dec 2021 11:55:15: 1000000 INFO @ Fri, 10 Dec 2021 11:55:15: 8000000 INFO @ Fri, 10 Dec 2021 11:55:20: 2000000 INFO @ Fri, 10 Dec 2021 11:55:20: 9000000 INFO @ Fri, 10 Dec 2021 11:55:24: 3000000 INFO @ Fri, 10 Dec 2021 11:55:24: 10000000 INFO @ Fri, 10 Dec 2021 11:55:29: 4000000 INFO @ Fri, 10 Dec 2021 11:55:29: 11000000 INFO @ Fri, 10 Dec 2021 11:55:33: 5000000 INFO @ Fri, 10 Dec 2021 11:55:33: 12000000 INFO @ Fri, 10 Dec 2021 11:55:38: 6000000 INFO @ Fri, 10 Dec 2021 11:55:38: 13000000 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 @ Fri, 10 Dec 2021 11:55:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9047374/SRX9047374.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9047374/SRX9047374.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9047374/SRX9047374.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9047374/SRX9047374.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 @ Fri, 10 Dec 2021 11:55:41: #1 read tag files... INFO @ Fri, 10 Dec 2021 11:55:41: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 11:55:42: 7000000 INFO @ Fri, 10 Dec 2021 11:55:42: 14000000 INFO @ Fri, 10 Dec 2021 11:55:46: 1000000 INFO @ Fri, 10 Dec 2021 11:55:47: 8000000 INFO @ Fri, 10 Dec 2021 11:55:47: 15000000 INFO @ Fri, 10 Dec 2021 11:55:51: 9000000 INFO @ Fri, 10 Dec 2021 11:55:52: 16000000 INFO @ Fri, 10 Dec 2021 11:55:52: 2000000 INFO @ Fri, 10 Dec 2021 11:55:56: 10000000 INFO @ Fri, 10 Dec 2021 11:55:56: 17000000 INFO @ Fri, 10 Dec 2021 11:55:56: 3000000 INFO @ Fri, 10 Dec 2021 11:56:01: 11000000 INFO @ Fri, 10 Dec 2021 11:56:01: 18000000 INFO @ Fri, 10 Dec 2021 11:56:01: 4000000 INFO @ Fri, 10 Dec 2021 11:56:05: 12000000 INFO @ Fri, 10 Dec 2021 11:56:05: 19000000 INFO @ Fri, 10 Dec 2021 11:56:06: 5000000 INFO @ Fri, 10 Dec 2021 11:56:10: 13000000 INFO @ Fri, 10 Dec 2021 11:56:10: 20000000 INFO @ Fri, 10 Dec 2021 11:56:10: 6000000 INFO @ Fri, 10 Dec 2021 11:56:14: 14000000 INFO @ Fri, 10 Dec 2021 11:56:14: 21000000 INFO @ Fri, 10 Dec 2021 11:56:15: 7000000 INFO @ Fri, 10 Dec 2021 11:56:19: 15000000 INFO @ Fri, 10 Dec 2021 11:56:19: 22000000 INFO @ Fri, 10 Dec 2021 11:56:19: 8000000 INFO @ Fri, 10 Dec 2021 11:56:23: 16000000 INFO @ Fri, 10 Dec 2021 11:56:24: 23000000 INFO @ Fri, 10 Dec 2021 11:56:24: 9000000 INFO @ Fri, 10 Dec 2021 11:56:28: 17000000 INFO @ Fri, 10 Dec 2021 11:56:28: 10000000 INFO @ Fri, 10 Dec 2021 11:56:28: 24000000 INFO @ Fri, 10 Dec 2021 11:56:32: 18000000 INFO @ Fri, 10 Dec 2021 11:56:33: 11000000 INFO @ Fri, 10 Dec 2021 11:56:33: 25000000 INFO @ Fri, 10 Dec 2021 11:56:37: 19000000 INFO @ Fri, 10 Dec 2021 11:56:37: 12000000 INFO @ Fri, 10 Dec 2021 11:56:37: 26000000 INFO @ Fri, 10 Dec 2021 11:56:42: 20000000 INFO @ Fri, 10 Dec 2021 11:56:42: 13000000 INFO @ Fri, 10 Dec 2021 11:56:42: 27000000 INFO @ Fri, 10 Dec 2021 11:56:46: 14000000 INFO @ Fri, 10 Dec 2021 11:56:46: 21000000 INFO @ Fri, 10 Dec 2021 11:56:46: 28000000 INFO @ Fri, 10 Dec 2021 11:56:51: 15000000 INFO @ Fri, 10 Dec 2021 11:56:51: 22000000 INFO @ Fri, 10 Dec 2021 11:56:51: 29000000 INFO @ Fri, 10 Dec 2021 11:56:55: 16000000 INFO @ Fri, 10 Dec 2021 11:56:55: 23000000 INFO @ Fri, 10 Dec 2021 11:56:56: 30000000 INFO @ Fri, 10 Dec 2021 11:57:00: 17000000 INFO @ Fri, 10 Dec 2021 11:57:00: 24000000 INFO @ Fri, 10 Dec 2021 11:57:00: 31000000 INFO @ Fri, 10 Dec 2021 11:57:04: 18000000 INFO @ Fri, 10 Dec 2021 11:57:04: 25000000 INFO @ Fri, 10 Dec 2021 11:57:05: 32000000 INFO @ Fri, 10 Dec 2021 11:57:08: 19000000 INFO @ Fri, 10 Dec 2021 11:57:09: 26000000 INFO @ Fri, 10 Dec 2021 11:57:09: 33000000 INFO @ Fri, 10 Dec 2021 11:57:13: 20000000 INFO @ Fri, 10 Dec 2021 11:57:13: 27000000 INFO @ Fri, 10 Dec 2021 11:57:14: 34000000 INFO @ Fri, 10 Dec 2021 11:57:17: 21000000 INFO @ Fri, 10 Dec 2021 11:57:18: 28000000 INFO @ Fri, 10 Dec 2021 11:57:18: 35000000 INFO @ Fri, 10 Dec 2021 11:57:22: 22000000 INFO @ Fri, 10 Dec 2021 11:57:22: 29000000 INFO @ Fri, 10 Dec 2021 11:57:23: 36000000 INFO @ Fri, 10 Dec 2021 11:57:26: 23000000 INFO @ Fri, 10 Dec 2021 11:57:27: 30000000 INFO @ Fri, 10 Dec 2021 11:57:27: 37000000 INFO @ Fri, 10 Dec 2021 11:57:29: #1 tag size is determined as 42 bps INFO @ Fri, 10 Dec 2021 11:57:29: #1 tag size = 42 INFO @ Fri, 10 Dec 2021 11:57:29: #1 total tags in treatment: 16517649 INFO @ Fri, 10 Dec 2021 11:57:29: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 11:57:29: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 11:57:30: #1 tags after filtering in treatment: 12640160 INFO @ Fri, 10 Dec 2021 11:57:30: #1 Redundant rate of treatment: 0.23 INFO @ Fri, 10 Dec 2021 11:57:30: #1 finished! INFO @ Fri, 10 Dec 2021 11:57:30: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 11:57:30: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 11:57:31: 24000000 INFO @ Fri, 10 Dec 2021 11:57:31: #2 number of paired peaks: 2698 INFO @ Fri, 10 Dec 2021 11:57:31: start model_add_line... INFO @ Fri, 10 Dec 2021 11:57:31: start X-correlation... INFO @ Fri, 10 Dec 2021 11:57:31: end of X-cor INFO @ Fri, 10 Dec 2021 11:57:31: #2 finished! INFO @ Fri, 10 Dec 2021 11:57:31: #2 predicted fragment length is 269 bps INFO @ Fri, 10 Dec 2021 11:57:31: #2 alternative fragment length(s) may be 269 bps INFO @ Fri, 10 Dec 2021 11:57:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9047374/SRX9047374.05_model.r INFO @ Fri, 10 Dec 2021 11:57:31: #3 Call peaks... INFO @ Fri, 10 Dec 2021 11:57:31: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 11:57:31: 31000000 INFO @ Fri, 10 Dec 2021 11:57:35: 25000000 INFO @ Fri, 10 Dec 2021 11:57:36: 32000000 INFO @ Fri, 10 Dec 2021 11:57:39: 26000000 INFO @ Fri, 10 Dec 2021 11:57:40: 33000000 INFO @ Fri, 10 Dec 2021 11:57:44: 27000000 INFO @ Fri, 10 Dec 2021 11:57:44: 34000000 INFO @ Fri, 10 Dec 2021 11:57:48: 28000000 INFO @ Fri, 10 Dec 2021 11:57:49: 35000000 INFO @ Fri, 10 Dec 2021 11:57:53: 29000000 INFO @ Fri, 10 Dec 2021 11:57:53: 36000000 INFO @ Fri, 10 Dec 2021 11:57:57: 30000000 INFO @ Fri, 10 Dec 2021 11:57:58: 37000000 INFO @ Fri, 10 Dec 2021 11:58:00: #1 tag size is determined as 42 bps INFO @ Fri, 10 Dec 2021 11:58:00: #1 tag size = 42 INFO @ Fri, 10 Dec 2021 11:58:00: #1 total tags in treatment: 16517649 INFO @ Fri, 10 Dec 2021 11:58:00: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 11:58:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 11:58:00: #1 tags after filtering in treatment: 12640160 INFO @ Fri, 10 Dec 2021 11:58:00: #1 Redundant rate of treatment: 0.23 INFO @ Fri, 10 Dec 2021 11:58:00: #1 finished! INFO @ Fri, 10 Dec 2021 11:58:00: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 11:58:00: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 11:58:01: 31000000 INFO @ Fri, 10 Dec 2021 11:58:01: #2 number of paired peaks: 2698 INFO @ Fri, 10 Dec 2021 11:58:01: start model_add_line... INFO @ Fri, 10 Dec 2021 11:58:02: start X-correlation... INFO @ Fri, 10 Dec 2021 11:58:02: end of X-cor INFO @ Fri, 10 Dec 2021 11:58:02: #2 finished! INFO @ Fri, 10 Dec 2021 11:58:02: #2 predicted fragment length is 269 bps INFO @ Fri, 10 Dec 2021 11:58:02: #2 alternative fragment length(s) may be 269 bps INFO @ Fri, 10 Dec 2021 11:58:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9047374/SRX9047374.10_model.r INFO @ Fri, 10 Dec 2021 11:58:02: #3 Call peaks... INFO @ Fri, 10 Dec 2021 11:58:02: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 11:58:05: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 11:58:06: 32000000 INFO @ Fri, 10 Dec 2021 11:58:10: 33000000 INFO @ Fri, 10 Dec 2021 11:58:14: 34000000 INFO @ Fri, 10 Dec 2021 11:58:18: 35000000 INFO @ Fri, 10 Dec 2021 11:58:19: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9047374/SRX9047374.05_peaks.xls INFO @ Fri, 10 Dec 2021 11:58:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9047374/SRX9047374.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 11:58:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9047374/SRX9047374.05_summits.bed INFO @ Fri, 10 Dec 2021 11:58:19: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (7473 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 11:58:22: 36000000 INFO @ Fri, 10 Dec 2021 11:58:27: 37000000 INFO @ Fri, 10 Dec 2021 11:58:29: #1 tag size is determined as 42 bps INFO @ Fri, 10 Dec 2021 11:58:29: #1 tag size = 42 INFO @ Fri, 10 Dec 2021 11:58:29: #1 total tags in treatment: 16517649 INFO @ Fri, 10 Dec 2021 11:58:29: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 11:58:29: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 11:58:29: #1 tags after filtering in treatment: 12640160 INFO @ Fri, 10 Dec 2021 11:58:29: #1 Redundant rate of treatment: 0.23 INFO @ Fri, 10 Dec 2021 11:58:29: #1 finished! INFO @ Fri, 10 Dec 2021 11:58:29: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 11:58:29: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 11:58:30: #2 number of paired peaks: 2698 INFO @ Fri, 10 Dec 2021 11:58:30: start model_add_line... INFO @ Fri, 10 Dec 2021 11:58:30: start X-correlation... INFO @ Fri, 10 Dec 2021 11:58:30: end of X-cor INFO @ Fri, 10 Dec 2021 11:58:30: #2 finished! INFO @ Fri, 10 Dec 2021 11:58:30: #2 predicted fragment length is 269 bps INFO @ Fri, 10 Dec 2021 11:58:30: #2 alternative fragment length(s) may be 269 bps INFO @ Fri, 10 Dec 2021 11:58:30: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9047374/SRX9047374.20_model.r INFO @ Fri, 10 Dec 2021 11:58:30: #3 Call peaks... INFO @ Fri, 10 Dec 2021 11:58:30: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 11:58:36: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 11:58:50: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9047374/SRX9047374.10_peaks.xls INFO @ Fri, 10 Dec 2021 11:58:50: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9047374/SRX9047374.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 11:58:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9047374/SRX9047374.10_summits.bed INFO @ Fri, 10 Dec 2021 11:58:50: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (5518 records, 4 fields): 7 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 11:59:04: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 11:59:18: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9047374/SRX9047374.20_peaks.xls INFO @ Fri, 10 Dec 2021 11:59:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9047374/SRX9047374.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 11:59:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9047374/SRX9047374.20_summits.bed INFO @ Fri, 10 Dec 2021 11:59:18: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (3698 records, 4 fields): 5 millis CompletedMACS2peakCalling