Job ID = 14168825 SRX = ERX3978891 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 29863928 spots for ERR3975960/ERR3975960.sra Written 29863928 spots for ERR3975960/ERR3975960.sra fastq に変換しました。 bowtie でマッピング中... Your job 14169946 ("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: 01:11:47 29863928 reads; of these: 29863928 (100.00%) were paired; of these: 3330782 (11.15%) aligned concordantly 0 times 21158490 (70.85%) aligned concordantly exactly 1 time 5374656 (18.00%) aligned concordantly >1 times ---- 3330782 pairs aligned concordantly 0 times; of these: 638347 (19.17%) aligned discordantly 1 time ---- 2692435 pairs aligned 0 times concordantly or discordantly; of these: 5384870 mates make up the pairs; of these: 2942198 (54.64%) aligned 0 times 1127792 (20.94%) aligned exactly 1 time 1314880 (24.42%) aligned >1 times 95.07% overall alignment rate Time searching: 01:11:47 Overall time: 01:11:47 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] 18934428 / 27070243 = 0.6995 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 22:10:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX3978891/ERX3978891.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX3978891/ERX3978891.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX3978891/ERX3978891.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX3978891/ERX3978891.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 22:10:39: #1 read tag files... INFO @ Fri, 10 Dec 2021 22:10:39: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 22:10:43: 1000000 INFO @ Fri, 10 Dec 2021 22:10:48: 2000000 INFO @ Fri, 10 Dec 2021 22:10:52: 3000000 INFO @ Fri, 10 Dec 2021 22:10:57: 4000000 INFO @ Fri, 10 Dec 2021 22:11:02: 5000000 INFO @ Fri, 10 Dec 2021 22:11:06: 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 22:11:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX3978891/ERX3978891.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX3978891/ERX3978891.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX3978891/ERX3978891.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX3978891/ERX3978891.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 22:11:08: #1 read tag files... INFO @ Fri, 10 Dec 2021 22:11:08: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 22:11:11: 7000000 INFO @ Fri, 10 Dec 2021 22:11:14: 1000000 INFO @ Fri, 10 Dec 2021 22:11:16: 8000000 INFO @ Fri, 10 Dec 2021 22:11:19: 2000000 INFO @ Fri, 10 Dec 2021 22:11:21: 9000000 INFO @ Fri, 10 Dec 2021 22:11:25: 3000000 INFO @ Fri, 10 Dec 2021 22:11:25: 10000000 INFO @ Fri, 10 Dec 2021 22:11:30: 11000000 INFO @ Fri, 10 Dec 2021 22:11:31: 4000000 INFO @ Fri, 10 Dec 2021 22:11:35: 12000000 INFO @ Fri, 10 Dec 2021 22:11:36: 5000000 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 22:11:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/ERX3978891/ERX3978891.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/ERX3978891/ERX3978891.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/ERX3978891/ERX3978891.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/ERX3978891/ERX3978891.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 22:11:38: #1 read tag files... INFO @ Fri, 10 Dec 2021 22:11:38: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 22:11:40: 13000000 INFO @ Fri, 10 Dec 2021 22:11:42: 6000000 INFO @ Fri, 10 Dec 2021 22:11:44: 1000000 INFO @ Fri, 10 Dec 2021 22:11:45: 14000000 INFO @ Fri, 10 Dec 2021 22:11:48: 7000000 INFO @ Fri, 10 Dec 2021 22:11:49: 2000000 INFO @ Fri, 10 Dec 2021 22:11:50: 15000000 INFO @ Fri, 10 Dec 2021 22:11:53: 8000000 INFO @ Fri, 10 Dec 2021 22:11:55: 16000000 INFO @ Fri, 10 Dec 2021 22:11:55: 3000000 INFO @ Fri, 10 Dec 2021 22:11:59: 9000000 INFO @ Fri, 10 Dec 2021 22:12:00: 17000000 INFO @ Fri, 10 Dec 2021 22:12:01: 4000000 INFO @ Fri, 10 Dec 2021 22:12:04: 18000000 INFO @ Fri, 10 Dec 2021 22:12:05: 10000000 INFO @ Fri, 10 Dec 2021 22:12:06: 5000000 INFO @ Fri, 10 Dec 2021 22:12:09: #1 tag size is determined as 80 bps INFO @ Fri, 10 Dec 2021 22:12:09: #1 tag size = 80 INFO @ Fri, 10 Dec 2021 22:12:09: #1 total tags in treatment: 7997727 INFO @ Fri, 10 Dec 2021 22:12:09: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 22:12:09: #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 22:12:09: #1 tags after filtering in treatment: 7225847 INFO @ Fri, 10 Dec 2021 22:12:09: #1 Redundant rate of treatment: 0.10 INFO @ Fri, 10 Dec 2021 22:12:09: #1 finished! INFO @ Fri, 10 Dec 2021 22:12:09: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 22:12:09: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 22:12:10: #2 number of paired peaks: 4748 INFO @ Fri, 10 Dec 2021 22:12:10: start model_add_line... INFO @ Fri, 10 Dec 2021 22:12:10: start X-correlation... INFO @ Fri, 10 Dec 2021 22:12:10: end of X-cor INFO @ Fri, 10 Dec 2021 22:12:10: #2 finished! INFO @ Fri, 10 Dec 2021 22:12:10: #2 predicted fragment length is 194 bps INFO @ Fri, 10 Dec 2021 22:12:10: #2 alternative fragment length(s) may be 194 bps INFO @ Fri, 10 Dec 2021 22:12:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/ERX3978891/ERX3978891.05_model.r INFO @ Fri, 10 Dec 2021 22:12:10: #3 Call peaks... INFO @ Fri, 10 Dec 2021 22:12:10: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 22:12:10: 11000000 INFO @ Fri, 10 Dec 2021 22:12:12: 6000000 INFO @ Fri, 10 Dec 2021 22:12:16: 12000000 INFO @ Fri, 10 Dec 2021 22:12:17: 7000000 INFO @ Fri, 10 Dec 2021 22:12:22: 13000000 INFO @ Fri, 10 Dec 2021 22:12:23: 8000000 INFO @ Fri, 10 Dec 2021 22:12:26: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 22:12:27: 14000000 INFO @ Fri, 10 Dec 2021 22:12:28: 9000000 INFO @ Fri, 10 Dec 2021 22:12:33: 15000000 INFO @ Fri, 10 Dec 2021 22:12:34: 10000000 INFO @ Fri, 10 Dec 2021 22:12:34: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/ERX3978891/ERX3978891.05_peaks.xls INFO @ Fri, 10 Dec 2021 22:12:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/ERX3978891/ERX3978891.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 22:12:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/ERX3978891/ERX3978891.05_summits.bed INFO @ Fri, 10 Dec 2021 22:12:35: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (10786 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 22:12:39: 16000000 INFO @ Fri, 10 Dec 2021 22:12:39: 11000000 INFO @ Fri, 10 Dec 2021 22:12:45: 17000000 INFO @ Fri, 10 Dec 2021 22:12:45: 12000000 INFO @ Fri, 10 Dec 2021 22:12:51: 18000000 INFO @ Fri, 10 Dec 2021 22:12:51: 13000000 INFO @ Fri, 10 Dec 2021 22:12:56: #1 tag size is determined as 80 bps INFO @ Fri, 10 Dec 2021 22:12:56: #1 tag size = 80 INFO @ Fri, 10 Dec 2021 22:12:56: #1 total tags in treatment: 7997727 INFO @ Fri, 10 Dec 2021 22:12:56: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 22:12:56: #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 22:12:56: #1 tags after filtering in treatment: 7225847 INFO @ Fri, 10 Dec 2021 22:12:56: #1 Redundant rate of treatment: 0.10 INFO @ Fri, 10 Dec 2021 22:12:56: #1 finished! INFO @ Fri, 10 Dec 2021 22:12:56: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 22:12:56: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 22:12:56: 14000000 INFO @ Fri, 10 Dec 2021 22:12:57: #2 number of paired peaks: 4748 INFO @ Fri, 10 Dec 2021 22:12:57: start model_add_line... INFO @ Fri, 10 Dec 2021 22:12:57: start X-correlation... INFO @ Fri, 10 Dec 2021 22:12:57: end of X-cor INFO @ Fri, 10 Dec 2021 22:12:57: #2 finished! INFO @ Fri, 10 Dec 2021 22:12:57: #2 predicted fragment length is 194 bps INFO @ Fri, 10 Dec 2021 22:12:57: #2 alternative fragment length(s) may be 194 bps INFO @ Fri, 10 Dec 2021 22:12:57: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/ERX3978891/ERX3978891.10_model.r INFO @ Fri, 10 Dec 2021 22:12:57: #3 Call peaks... INFO @ Fri, 10 Dec 2021 22:12:57: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 22:13:02: 15000000 INFO @ Fri, 10 Dec 2021 22:13:08: 16000000 INFO @ Fri, 10 Dec 2021 22:13:13: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 22:13:14: 17000000 INFO @ Fri, 10 Dec 2021 22:13:19: 18000000 INFO @ Fri, 10 Dec 2021 22:13:21: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/ERX3978891/ERX3978891.10_peaks.xls INFO @ Fri, 10 Dec 2021 22:13:21: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/ERX3978891/ERX3978891.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 22:13:21: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/ERX3978891/ERX3978891.10_summits.bed INFO @ Fri, 10 Dec 2021 22:13:21: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (7652 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 22:13:24: #1 tag size is determined as 80 bps INFO @ Fri, 10 Dec 2021 22:13:24: #1 tag size = 80 INFO @ Fri, 10 Dec 2021 22:13:24: #1 total tags in treatment: 7997727 INFO @ Fri, 10 Dec 2021 22:13:24: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 22:13:24: #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 22:13:24: #1 tags after filtering in treatment: 7225847 INFO @ Fri, 10 Dec 2021 22:13:24: #1 Redundant rate of treatment: 0.10 INFO @ Fri, 10 Dec 2021 22:13:24: #1 finished! INFO @ Fri, 10 Dec 2021 22:13:24: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 22:13:24: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 22:13:25: #2 number of paired peaks: 4748 INFO @ Fri, 10 Dec 2021 22:13:25: start model_add_line... INFO @ Fri, 10 Dec 2021 22:13:25: start X-correlation... INFO @ Fri, 10 Dec 2021 22:13:25: end of X-cor INFO @ Fri, 10 Dec 2021 22:13:25: #2 finished! INFO @ Fri, 10 Dec 2021 22:13:25: #2 predicted fragment length is 194 bps INFO @ Fri, 10 Dec 2021 22:13:25: #2 alternative fragment length(s) may be 194 bps INFO @ Fri, 10 Dec 2021 22:13:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/ERX3978891/ERX3978891.20_model.r INFO @ Fri, 10 Dec 2021 22:13:25: #3 Call peaks... INFO @ Fri, 10 Dec 2021 22:13:25: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 22:13:42: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 22:13:51: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/ERX3978891/ERX3978891.20_peaks.xls INFO @ Fri, 10 Dec 2021 22:13:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/ERX3978891/ERX3978891.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 22:13:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/ERX3978891/ERX3978891.20_summits.bed INFO @ Fri, 10 Dec 2021 22:13:51: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (5007 records, 4 fields): 22 millis CompletedMACS2peakCalling