Job ID = 14171983 SRX = SRX7889140 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 23474967 spots for SRR11283130/SRR11283130.sra Written 23474967 spots for SRR11283130/SRR11283130.sra fastq に変換しました。 bowtie でマッピング中... Your job 14172593 ("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: 00:48:53 23474967 reads; of these: 23474967 (100.00%) were paired; of these: 9521937 (40.56%) aligned concordantly 0 times 11300568 (48.14%) aligned concordantly exactly 1 time 2652462 (11.30%) aligned concordantly >1 times ---- 9521937 pairs aligned concordantly 0 times; of these: 1235921 (12.98%) aligned discordantly 1 time ---- 8286016 pairs aligned 0 times concordantly or discordantly; of these: 16572032 mates make up the pairs; of these: 14482024 (87.39%) aligned 0 times 1322777 (7.98%) aligned exactly 1 time 767231 (4.63%) aligned >1 times 69.15% overall alignment rate Time searching: 00:48:53 Overall time: 00:48:53 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 24 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] 3130888 / 14090231 = 0.2222 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 14:45:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7889140/SRX7889140.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7889140/SRX7889140.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7889140/SRX7889140.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7889140/SRX7889140.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 14:45:55: #1 read tag files... INFO @ Sat, 11 Dec 2021 14:45:55: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 14:46:04: 1000000 INFO @ Sat, 11 Dec 2021 14:46:12: 2000000 INFO @ Sat, 11 Dec 2021 14:46:19: 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 @ Sat, 11 Dec 2021 14:46:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7889140/SRX7889140.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7889140/SRX7889140.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7889140/SRX7889140.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7889140/SRX7889140.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 14:46:25: #1 read tag files... INFO @ Sat, 11 Dec 2021 14:46:25: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 14:46:27: 4000000 INFO @ Sat, 11 Dec 2021 14:46:35: 1000000 INFO @ Sat, 11 Dec 2021 14:46:36: 5000000 INFO @ Sat, 11 Dec 2021 14:46:45: 6000000 INFO @ Sat, 11 Dec 2021 14:46:46: 2000000 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 14:46:55: 7000000 INFO @ Sat, 11 Dec 2021 14:46:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7889140/SRX7889140.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7889140/SRX7889140.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7889140/SRX7889140.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7889140/SRX7889140.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 14:46:55: #1 read tag files... INFO @ Sat, 11 Dec 2021 14:46:55: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 14:46:57: 3000000 INFO @ Sat, 11 Dec 2021 14:47:04: 8000000 INFO @ Sat, 11 Dec 2021 14:47:06: 1000000 INFO @ Sat, 11 Dec 2021 14:47:08: 4000000 INFO @ Sat, 11 Dec 2021 14:47:13: 9000000 INFO @ Sat, 11 Dec 2021 14:47:17: 2000000 INFO @ Sat, 11 Dec 2021 14:47:19: 5000000 INFO @ Sat, 11 Dec 2021 14:47:23: 10000000 INFO @ Sat, 11 Dec 2021 14:47:28: 3000000 INFO @ Sat, 11 Dec 2021 14:47:30: 6000000 INFO @ Sat, 11 Dec 2021 14:47:32: 11000000 INFO @ Sat, 11 Dec 2021 14:47:39: 4000000 INFO @ Sat, 11 Dec 2021 14:47:41: 7000000 INFO @ Sat, 11 Dec 2021 14:47:42: 12000000 INFO @ Sat, 11 Dec 2021 14:47:50: 5000000 INFO @ Sat, 11 Dec 2021 14:47:51: 13000000 INFO @ Sat, 11 Dec 2021 14:47:52: 8000000 INFO @ Sat, 11 Dec 2021 14:48:01: 14000000 INFO @ Sat, 11 Dec 2021 14:48:01: 6000000 INFO @ Sat, 11 Dec 2021 14:48:04: 9000000 INFO @ Sat, 11 Dec 2021 14:48:10: 15000000 INFO @ Sat, 11 Dec 2021 14:48:12: 7000000 INFO @ Sat, 11 Dec 2021 14:48:15: 10000000 INFO @ Sat, 11 Dec 2021 14:48:20: 16000000 INFO @ Sat, 11 Dec 2021 14:48:23: 8000000 INFO @ Sat, 11 Dec 2021 14:48:26: 11000000 INFO @ Sat, 11 Dec 2021 14:48:29: 17000000 INFO @ Sat, 11 Dec 2021 14:48:34: 9000000 INFO @ Sat, 11 Dec 2021 14:48:37: 12000000 INFO @ Sat, 11 Dec 2021 14:48:39: 18000000 INFO @ Sat, 11 Dec 2021 14:48:45: 10000000 INFO @ Sat, 11 Dec 2021 14:48:48: 13000000 INFO @ Sat, 11 Dec 2021 14:48:49: 19000000 INFO @ Sat, 11 Dec 2021 14:48:56: 11000000 INFO @ Sat, 11 Dec 2021 14:48:59: 20000000 INFO @ Sat, 11 Dec 2021 14:48:59: 14000000 INFO @ Sat, 11 Dec 2021 14:49:07: 12000000 INFO @ Sat, 11 Dec 2021 14:49:08: 21000000 INFO @ Sat, 11 Dec 2021 14:49:10: 15000000 INFO @ Sat, 11 Dec 2021 14:49:17: 13000000 INFO @ Sat, 11 Dec 2021 14:49:18: 22000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 14:49:21: 16000000 INFO @ Sat, 11 Dec 2021 14:49:27: 23000000 INFO @ Sat, 11 Dec 2021 14:49:28: 14000000 INFO @ Sat, 11 Dec 2021 14:49:32: 17000000 INFO @ Sat, 11 Dec 2021 14:49:37: 24000000 INFO @ Sat, 11 Dec 2021 14:49:39: 15000000 INFO @ Sat, 11 Dec 2021 14:49:43: 18000000 INFO @ Sat, 11 Dec 2021 14:49:47: 25000000 INFO @ Sat, 11 Dec 2021 14:49:50: 16000000 INFO @ Sat, 11 Dec 2021 14:49:54: 19000000 INFO @ Sat, 11 Dec 2021 14:49:56: 26000000 INFO @ Sat, 11 Dec 2021 14:49:58: #1 tag size is determined as 125 bps INFO @ Sat, 11 Dec 2021 14:49:58: #1 tag size = 125 INFO @ Sat, 11 Dec 2021 14:49:58: #1 total tags in treatment: 11016179 INFO @ Sat, 11 Dec 2021 14:49:58: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 14:49:58: #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 14:49:58: #1 tags after filtering in treatment: 9997461 INFO @ Sat, 11 Dec 2021 14:49:58: #1 Redundant rate of treatment: 0.09 INFO @ Sat, 11 Dec 2021 14:49:58: #1 finished! INFO @ Sat, 11 Dec 2021 14:49:58: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 14:49:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 14:49:59: #2 number of paired peaks: 1572 INFO @ Sat, 11 Dec 2021 14:49:59: start model_add_line... INFO @ Sat, 11 Dec 2021 14:49:59: start X-correlation... INFO @ Sat, 11 Dec 2021 14:49:59: end of X-cor INFO @ Sat, 11 Dec 2021 14:49:59: #2 finished! INFO @ Sat, 11 Dec 2021 14:49:59: #2 predicted fragment length is 257 bps INFO @ Sat, 11 Dec 2021 14:49:59: #2 alternative fragment length(s) may be 257 bps INFO @ Sat, 11 Dec 2021 14:49:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7889140/SRX7889140.05_model.r INFO @ Sat, 11 Dec 2021 14:49:59: #3 Call peaks... INFO @ Sat, 11 Dec 2021 14:49:59: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 14:50:00: 17000000 INFO @ Sat, 11 Dec 2021 14:50:04: 20000000 INFO @ Sat, 11 Dec 2021 14:50:10: 18000000 BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 14:50:16: 21000000 INFO @ Sat, 11 Dec 2021 14:50:21: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 14:50:21: 19000000 INFO @ Sat, 11 Dec 2021 14:50:27: 22000000 INFO @ Sat, 11 Dec 2021 14:50:32: 20000000 INFO @ Sat, 11 Dec 2021 14:50:32: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7889140/SRX7889140.05_peaks.xls INFO @ Sat, 11 Dec 2021 14:50:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7889140/SRX7889140.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 14:50:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7889140/SRX7889140.05_summits.bed INFO @ Sat, 11 Dec 2021 14:50:33: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (7671 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 14:50:37: 23000000 INFO @ Sat, 11 Dec 2021 14:50:43: 21000000 INFO @ Sat, 11 Dec 2021 14:50:48: 24000000 INFO @ Sat, 11 Dec 2021 14:50:54: 22000000 INFO @ Sat, 11 Dec 2021 14:50:59: 25000000 INFO @ Sat, 11 Dec 2021 14:51:05: 23000000 INFO @ Sat, 11 Dec 2021 14:51:10: 26000000 INFO @ Sat, 11 Dec 2021 14:51:12: #1 tag size is determined as 125 bps INFO @ Sat, 11 Dec 2021 14:51:12: #1 tag size = 125 INFO @ Sat, 11 Dec 2021 14:51:12: #1 total tags in treatment: 11016179 INFO @ Sat, 11 Dec 2021 14:51:12: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 14:51:12: #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 14:51:12: #1 tags after filtering in treatment: 9997461 INFO @ Sat, 11 Dec 2021 14:51:12: #1 Redundant rate of treatment: 0.09 INFO @ Sat, 11 Dec 2021 14:51:12: #1 finished! INFO @ Sat, 11 Dec 2021 14:51:12: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 14:51:12: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 14:51:13: #2 number of paired peaks: 1572 INFO @ Sat, 11 Dec 2021 14:51:13: start model_add_line... INFO @ Sat, 11 Dec 2021 14:51:13: start X-correlation... INFO @ Sat, 11 Dec 2021 14:51:13: end of X-cor INFO @ Sat, 11 Dec 2021 14:51:13: #2 finished! INFO @ Sat, 11 Dec 2021 14:51:13: #2 predicted fragment length is 257 bps INFO @ Sat, 11 Dec 2021 14:51:13: #2 alternative fragment length(s) may be 257 bps INFO @ Sat, 11 Dec 2021 14:51:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7889140/SRX7889140.10_model.r INFO @ Sat, 11 Dec 2021 14:51:13: #3 Call peaks... INFO @ Sat, 11 Dec 2021 14:51:13: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 14:51:15: 24000000 INFO @ Sat, 11 Dec 2021 14:51:24: 25000000 INFO @ Sat, 11 Dec 2021 14:51:34: 26000000 INFO @ Sat, 11 Dec 2021 14:51:34: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 14:51:36: #1 tag size is determined as 125 bps INFO @ Sat, 11 Dec 2021 14:51:36: #1 tag size = 125 INFO @ Sat, 11 Dec 2021 14:51:36: #1 total tags in treatment: 11016179 INFO @ Sat, 11 Dec 2021 14:51:36: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 14:51:36: #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 14:51:36: #1 tags after filtering in treatment: 9997461 INFO @ Sat, 11 Dec 2021 14:51:36: #1 Redundant rate of treatment: 0.09 INFO @ Sat, 11 Dec 2021 14:51:36: #1 finished! INFO @ Sat, 11 Dec 2021 14:51:36: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 14:51:36: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 14:51:37: #2 number of paired peaks: 1572 INFO @ Sat, 11 Dec 2021 14:51:37: start model_add_line... INFO @ Sat, 11 Dec 2021 14:51:37: start X-correlation... INFO @ Sat, 11 Dec 2021 14:51:37: end of X-cor INFO @ Sat, 11 Dec 2021 14:51:37: #2 finished! INFO @ Sat, 11 Dec 2021 14:51:37: #2 predicted fragment length is 257 bps INFO @ Sat, 11 Dec 2021 14:51:37: #2 alternative fragment length(s) may be 257 bps INFO @ Sat, 11 Dec 2021 14:51:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7889140/SRX7889140.20_model.r INFO @ Sat, 11 Dec 2021 14:51:37: #3 Call peaks... INFO @ Sat, 11 Dec 2021 14:51:37: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 14:51:46: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7889140/SRX7889140.10_peaks.xls INFO @ Sat, 11 Dec 2021 14:51:46: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7889140/SRX7889140.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 14:51:46: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7889140/SRX7889140.10_summits.bed INFO @ Sat, 11 Dec 2021 14:51:46: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (5337 records, 4 fields): 6 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 14:51:59: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 14:52:11: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7889140/SRX7889140.20_peaks.xls INFO @ Sat, 11 Dec 2021 14:52:11: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7889140/SRX7889140.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 14:52:11: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7889140/SRX7889140.20_summits.bed INFO @ Sat, 11 Dec 2021 14:52:11: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (3418 records, 4 fields): 5 millis CompletedMACS2peakCalling