Job ID = 14172485 SRX = SRX7628892 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 18702225 spots for SRR10963254/SRR10963254.sra Written 18702225 spots for SRR10963254/SRR10963254.sra fastq に変換しました。 bowtie でマッピング中... Your job 14173022 ("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: 00:27:39 18702225 reads; of these: 18702225 (100.00%) were paired; of these: 4530769 (24.23%) aligned concordantly 0 times 10784801 (57.67%) aligned concordantly exactly 1 time 3386655 (18.11%) aligned concordantly >1 times ---- 4530769 pairs aligned concordantly 0 times; of these: 391115 (8.63%) aligned discordantly 1 time ---- 4139654 pairs aligned 0 times concordantly or discordantly; of these: 8279308 mates make up the pairs; of these: 6819138 (82.36%) aligned 0 times 618530 (7.47%) aligned exactly 1 time 841640 (10.17%) aligned >1 times 81.77% overall alignment rate Time searching: 00:27:39 Overall time: 00:27:39 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 12 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] 1046422 / 14554863 = 0.0719 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 16:11:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628892/SRX7628892.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628892/SRX7628892.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628892/SRX7628892.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628892/SRX7628892.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 16:11:46: #1 read tag files... INFO @ Sat, 11 Dec 2021 16:11:46: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 16:11:51: 1000000 INFO @ Sat, 11 Dec 2021 16:11:55: 2000000 INFO @ Sat, 11 Dec 2021 16:12:00: 3000000 INFO @ Sat, 11 Dec 2021 16:12:04: 4000000 INFO @ Sat, 11 Dec 2021 16:12:09: 5000000 INFO @ Sat, 11 Dec 2021 16:12:14: 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 @ Sat, 11 Dec 2021 16:12:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628892/SRX7628892.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628892/SRX7628892.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628892/SRX7628892.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628892/SRX7628892.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 16:12:16: #1 read tag files... INFO @ Sat, 11 Dec 2021 16:12:16: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 16:12:19: 7000000 INFO @ Sat, 11 Dec 2021 16:12:22: 1000000 INFO @ Sat, 11 Dec 2021 16:12:24: 8000000 INFO @ Sat, 11 Dec 2021 16:12:29: 2000000 INFO @ Sat, 11 Dec 2021 16:12:30: 9000000 INFO @ Sat, 11 Dec 2021 16:12:36: 10000000 INFO @ Sat, 11 Dec 2021 16:12:36: 3000000 INFO @ Sat, 11 Dec 2021 16:12:41: 11000000 INFO @ Sat, 11 Dec 2021 16:12:42: 4000000 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 16:12:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7628892/SRX7628892.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7628892/SRX7628892.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7628892/SRX7628892.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7628892/SRX7628892.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 16:12:46: #1 read tag files... INFO @ Sat, 11 Dec 2021 16:12:46: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 16:12:47: 12000000 INFO @ Sat, 11 Dec 2021 16:12:49: 5000000 INFO @ Sat, 11 Dec 2021 16:12:52: 1000000 INFO @ Sat, 11 Dec 2021 16:12:52: 13000000 INFO @ Sat, 11 Dec 2021 16:12:55: 6000000 INFO @ Sat, 11 Dec 2021 16:12:58: 14000000 INFO @ Sat, 11 Dec 2021 16:12:59: 2000000 INFO @ Sat, 11 Dec 2021 16:13:02: 7000000 INFO @ Sat, 11 Dec 2021 16:13:04: 15000000 INFO @ Sat, 11 Dec 2021 16:13:05: 3000000 INFO @ Sat, 11 Dec 2021 16:13:08: 8000000 INFO @ Sat, 11 Dec 2021 16:13:09: 16000000 INFO @ Sat, 11 Dec 2021 16:13:11: 4000000 INFO @ Sat, 11 Dec 2021 16:13:15: 9000000 INFO @ Sat, 11 Dec 2021 16:13:15: 17000000 INFO @ Sat, 11 Dec 2021 16:13:18: 5000000 INFO @ Sat, 11 Dec 2021 16:13:21: 18000000 INFO @ Sat, 11 Dec 2021 16:13:21: 10000000 INFO @ Sat, 11 Dec 2021 16:13:24: 6000000 INFO @ Sat, 11 Dec 2021 16:13:26: 19000000 INFO @ Sat, 11 Dec 2021 16:13:28: 11000000 INFO @ Sat, 11 Dec 2021 16:13:30: 7000000 INFO @ Sat, 11 Dec 2021 16:13:32: 20000000 INFO @ Sat, 11 Dec 2021 16:13:34: 12000000 INFO @ Sat, 11 Dec 2021 16:13:36: 8000000 INFO @ Sat, 11 Dec 2021 16:13:38: 21000000 INFO @ Sat, 11 Dec 2021 16:13:41: 13000000 INFO @ Sat, 11 Dec 2021 16:13:43: 9000000 INFO @ Sat, 11 Dec 2021 16:13:43: 22000000 INFO @ Sat, 11 Dec 2021 16:13:47: 14000000 INFO @ Sat, 11 Dec 2021 16:13:49: 10000000 INFO @ Sat, 11 Dec 2021 16:13:49: 23000000 INFO @ Sat, 11 Dec 2021 16:13:54: 15000000 INFO @ Sat, 11 Dec 2021 16:13:55: 24000000 INFO @ Sat, 11 Dec 2021 16:13:55: 11000000 INFO @ Sat, 11 Dec 2021 16:14:00: 16000000 INFO @ Sat, 11 Dec 2021 16:14:01: 25000000 INFO @ Sat, 11 Dec 2021 16:14:02: 12000000 INFO @ Sat, 11 Dec 2021 16:14:06: 26000000 INFO @ Sat, 11 Dec 2021 16:14:07: 17000000 INFO @ Sat, 11 Dec 2021 16:14:08: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 16:14:12: 27000000 INFO @ Sat, 11 Dec 2021 16:14:13: 18000000 INFO @ Sat, 11 Dec 2021 16:14:14: 14000000 INFO @ Sat, 11 Dec 2021 16:14:18: 28000000 INFO @ Sat, 11 Dec 2021 16:14:19: 19000000 INFO @ Sat, 11 Dec 2021 16:14:21: 15000000 INFO @ Sat, 11 Dec 2021 16:14:21: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 16:14:21: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 16:14:21: #1 total tags in treatment: 13136008 INFO @ Sat, 11 Dec 2021 16:14:21: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 16:14:21: #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 16:14:21: #1 tags after filtering in treatment: 7184505 INFO @ Sat, 11 Dec 2021 16:14:21: #1 Redundant rate of treatment: 0.45 INFO @ Sat, 11 Dec 2021 16:14:21: #1 finished! INFO @ Sat, 11 Dec 2021 16:14:21: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 16:14:21: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 16:14:22: #2 number of paired peaks: 10166 INFO @ Sat, 11 Dec 2021 16:14:22: start model_add_line... INFO @ Sat, 11 Dec 2021 16:14:22: start X-correlation... INFO @ Sat, 11 Dec 2021 16:14:22: end of X-cor INFO @ Sat, 11 Dec 2021 16:14:22: #2 finished! INFO @ Sat, 11 Dec 2021 16:14:22: #2 predicted fragment length is 222 bps INFO @ Sat, 11 Dec 2021 16:14:22: #2 alternative fragment length(s) may be 222 bps INFO @ Sat, 11 Dec 2021 16:14:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628892/SRX7628892.05_model.r INFO @ Sat, 11 Dec 2021 16:14:22: #3 Call peaks... INFO @ Sat, 11 Dec 2021 16:14:22: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 16:14:26: 20000000 INFO @ Sat, 11 Dec 2021 16:14:27: 16000000 BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 16:14:32: 21000000 INFO @ Sat, 11 Dec 2021 16:14:33: 17000000 INFO @ Sat, 11 Dec 2021 16:14:39: 22000000 INFO @ Sat, 11 Dec 2021 16:14:39: 18000000 INFO @ Sat, 11 Dec 2021 16:14:45: 23000000 INFO @ Sat, 11 Dec 2021 16:14:46: 19000000 INFO @ Sat, 11 Dec 2021 16:14:47: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 16:14:51: 24000000 INFO @ Sat, 11 Dec 2021 16:14:52: 20000000 INFO @ Sat, 11 Dec 2021 16:14:56: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628892/SRX7628892.05_peaks.xls INFO @ Sat, 11 Dec 2021 16:14:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628892/SRX7628892.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 16:14:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628892/SRX7628892.05_summits.bed INFO @ Sat, 11 Dec 2021 16:14:56: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (8580 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 16:14:58: 25000000 INFO @ Sat, 11 Dec 2021 16:14:58: 21000000 INFO @ Sat, 11 Dec 2021 16:15:04: 26000000 INFO @ Sat, 11 Dec 2021 16:15:04: 22000000 INFO @ Sat, 11 Dec 2021 16:15:11: 27000000 INFO @ Sat, 11 Dec 2021 16:15:11: 23000000 INFO @ Sat, 11 Dec 2021 16:15:17: 28000000 INFO @ Sat, 11 Dec 2021 16:15:17: 24000000 INFO @ Sat, 11 Dec 2021 16:15:20: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 16:15:20: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 16:15:20: #1 total tags in treatment: 13136008 INFO @ Sat, 11 Dec 2021 16:15:20: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 16:15:20: #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 16:15:20: #1 tags after filtering in treatment: 7184505 INFO @ Sat, 11 Dec 2021 16:15:20: #1 Redundant rate of treatment: 0.45 INFO @ Sat, 11 Dec 2021 16:15:20: #1 finished! INFO @ Sat, 11 Dec 2021 16:15:20: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 16:15:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 16:15:22: #2 number of paired peaks: 10166 INFO @ Sat, 11 Dec 2021 16:15:22: start model_add_line... INFO @ Sat, 11 Dec 2021 16:15:22: start X-correlation... INFO @ Sat, 11 Dec 2021 16:15:22: end of X-cor INFO @ Sat, 11 Dec 2021 16:15:22: #2 finished! INFO @ Sat, 11 Dec 2021 16:15:22: #2 predicted fragment length is 222 bps INFO @ Sat, 11 Dec 2021 16:15:22: #2 alternative fragment length(s) may be 222 bps INFO @ Sat, 11 Dec 2021 16:15:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628892/SRX7628892.10_model.r INFO @ Sat, 11 Dec 2021 16:15:22: #3 Call peaks... INFO @ Sat, 11 Dec 2021 16:15:22: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 16:15:23: 25000000 INFO @ Sat, 11 Dec 2021 16:15:29: 26000000 INFO @ Sat, 11 Dec 2021 16:15:35: 27000000 INFO @ Sat, 11 Dec 2021 16:15:42: 28000000 INFO @ Sat, 11 Dec 2021 16:15:44: #1 tag size is determined as 42 bps INFO @ Sat, 11 Dec 2021 16:15:44: #1 tag size = 42 INFO @ Sat, 11 Dec 2021 16:15:44: #1 total tags in treatment: 13136008 INFO @ Sat, 11 Dec 2021 16:15:44: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 16:15:44: #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 16:15:45: #1 tags after filtering in treatment: 7184505 INFO @ Sat, 11 Dec 2021 16:15:45: #1 Redundant rate of treatment: 0.45 INFO @ Sat, 11 Dec 2021 16:15:45: #1 finished! INFO @ Sat, 11 Dec 2021 16:15:45: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 16:15:45: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 16:15:46: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 16:15:46: #2 number of paired peaks: 10166 INFO @ Sat, 11 Dec 2021 16:15:46: start model_add_line... INFO @ Sat, 11 Dec 2021 16:15:46: start X-correlation... INFO @ Sat, 11 Dec 2021 16:15:46: end of X-cor INFO @ Sat, 11 Dec 2021 16:15:46: #2 finished! INFO @ Sat, 11 Dec 2021 16:15:46: #2 predicted fragment length is 222 bps INFO @ Sat, 11 Dec 2021 16:15:46: #2 alternative fragment length(s) may be 222 bps INFO @ Sat, 11 Dec 2021 16:15:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7628892/SRX7628892.20_model.r INFO @ Sat, 11 Dec 2021 16:15:46: #3 Call peaks... INFO @ Sat, 11 Dec 2021 16:15:46: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 16:15:54: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628892/SRX7628892.10_peaks.xls INFO @ Sat, 11 Dec 2021 16:15:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628892/SRX7628892.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 16:15:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628892/SRX7628892.10_summits.bed INFO @ Sat, 11 Dec 2021 16:15:54: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (7722 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 16:16:10: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 16:16:18: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7628892/SRX7628892.20_peaks.xls INFO @ Sat, 11 Dec 2021 16:16:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7628892/SRX7628892.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 16:16:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7628892/SRX7628892.20_summits.bed INFO @ Sat, 11 Dec 2021 16:16:18: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (6664 records, 4 fields): 8 millis CompletedMACS2peakCalling