Job ID = 16439319 SRX = SRX15206497 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2022-08-02T05:53:05 prefetch.2.10.7: 1) Downloading 'SRR19139295'... 2022-08-02T05:53:05 prefetch.2.10.7: Downloading via HTTPS... 2022-08-02T05:53:23 prefetch.2.10.7: HTTPS download succeed 2022-08-02T05:53:23 prefetch.2.10.7: 'SRR19139295' is valid 2022-08-02T05:53:23 prefetch.2.10.7: 1) 'SRR19139295' was downloaded successfully 2022-08-02T05:53:23 prefetch.2.10.7: 'SRR19139295' has 0 unresolved dependencies Read 8784251 spots for SRR19139295/SRR19139295.sra Written 8784251 spots for SRR19139295/SRR19139295.sra 2022-08-02T05:54:10 prefetch.2.10.7: 1) Downloading 'SRR19139296'... 2022-08-02T05:54:10 prefetch.2.10.7: Downloading via HTTPS... 2022-08-02T05:54:30 prefetch.2.10.7: HTTPS download succeed 2022-08-02T05:54:31 prefetch.2.10.7: 'SRR19139296' is valid 2022-08-02T05:54:31 prefetch.2.10.7: 1) 'SRR19139296' was downloaded successfully 2022-08-02T05:54:31 prefetch.2.10.7: 'SRR19139296' has 0 unresolved dependencies Read 8784251 spots for SRR19139296/SRR19139296.sra Written 8784251 spots for SRR19139296/SRR19139296.sra fastq に変換しました。 bowtie でマッピング中... Your job 16439416 ("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: 00:08:21 17568502 reads; of these: 17568502 (100.00%) were unpaired; of these: 735854 (4.19%) aligned 0 times 15193494 (86.48%) aligned exactly 1 time 1639154 (9.33%) aligned >1 times 95.81% overall alignment rate Time searching: 00:08:21 Overall time: 00:08:21 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 8 files... [bam_rmdupse_core] 4037689 / 16832648 = 0.2399 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/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 15:09:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX15206497/SRX15206497.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX15206497/SRX15206497.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX15206497/SRX15206497.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX15206497/SRX15206497.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 @ Tue, 02 Aug 2022 15:09:48: #1 read tag files... INFO @ Tue, 02 Aug 2022 15:09:48: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 15:10:01: 1000000 INFO @ Tue, 02 Aug 2022 15:10:13: 2000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 15:10:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX15206497/SRX15206497.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX15206497/SRX15206497.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX15206497/SRX15206497.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX15206497/SRX15206497.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 @ Tue, 02 Aug 2022 15:10:18: #1 read tag files... INFO @ Tue, 02 Aug 2022 15:10:18: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 15:10:27: 3000000 INFO @ Tue, 02 Aug 2022 15:10:31: 1000000 INFO @ Tue, 02 Aug 2022 15:10:41: 4000000 INFO @ Tue, 02 Aug 2022 15:10:43: 2000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 15:10:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX15206497/SRX15206497.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX15206497/SRX15206497.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX15206497/SRX15206497.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX15206497/SRX15206497.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 @ Tue, 02 Aug 2022 15:10:48: #1 read tag files... INFO @ Tue, 02 Aug 2022 15:10:48: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 15:10:56: 5000000 INFO @ Tue, 02 Aug 2022 15:10:56: 3000000 INFO @ Tue, 02 Aug 2022 15:11:01: 1000000 INFO @ Tue, 02 Aug 2022 15:11:09: 4000000 INFO @ Tue, 02 Aug 2022 15:11:10: 6000000 INFO @ Tue, 02 Aug 2022 15:11:14: 2000000 INFO @ Tue, 02 Aug 2022 15:11:23: 5000000 INFO @ Tue, 02 Aug 2022 15:11:23: 7000000 INFO @ Tue, 02 Aug 2022 15:11:27: 3000000 INFO @ Tue, 02 Aug 2022 15:11:36: 6000000 INFO @ Tue, 02 Aug 2022 15:11:37: 8000000 INFO @ Tue, 02 Aug 2022 15:11:40: 4000000 INFO @ Tue, 02 Aug 2022 15:11:50: 7000000 INFO @ Tue, 02 Aug 2022 15:11:51: 9000000 INFO @ Tue, 02 Aug 2022 15:11:53: 5000000 INFO @ Tue, 02 Aug 2022 15:12:03: 8000000 INFO @ Tue, 02 Aug 2022 15:12:05: 10000000 INFO @ Tue, 02 Aug 2022 15:12:05: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 15:12:16: 9000000 INFO @ Tue, 02 Aug 2022 15:12:17: 7000000 INFO @ Tue, 02 Aug 2022 15:12:18: 11000000 INFO @ Tue, 02 Aug 2022 15:12:29: 10000000 INFO @ Tue, 02 Aug 2022 15:12:30: 8000000 INFO @ Tue, 02 Aug 2022 15:12:31: 12000000 INFO @ Tue, 02 Aug 2022 15:12:42: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 15:12:42: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 15:12:42: #1 total tags in treatment: 12794959 INFO @ Tue, 02 Aug 2022 15:12:42: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 15:12:42: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 15:12:42: 11000000 INFO @ Tue, 02 Aug 2022 15:12:42: #1 tags after filtering in treatment: 12794959 INFO @ Tue, 02 Aug 2022 15:12:42: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 15:12:42: #1 finished! INFO @ Tue, 02 Aug 2022 15:12:42: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 15:12:42: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 15:12:42: 9000000 INFO @ Tue, 02 Aug 2022 15:12:43: #2 number of paired peaks: 3056 INFO @ Tue, 02 Aug 2022 15:12:43: start model_add_line... INFO @ Tue, 02 Aug 2022 15:12:43: start X-correlation... INFO @ Tue, 02 Aug 2022 15:12:44: end of X-cor INFO @ Tue, 02 Aug 2022 15:12:44: #2 finished! INFO @ Tue, 02 Aug 2022 15:12:44: #2 predicted fragment length is 195 bps INFO @ Tue, 02 Aug 2022 15:12:44: #2 alternative fragment length(s) may be 195 bps INFO @ Tue, 02 Aug 2022 15:12:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX15206497/SRX15206497.05_model.r INFO @ Tue, 02 Aug 2022 15:12:44: #3 Call peaks... INFO @ Tue, 02 Aug 2022 15:12:44: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 15:12:54: 10000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 15:12:55: 12000000 INFO @ Tue, 02 Aug 2022 15:13:05: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 15:13:05: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 15:13:05: #1 total tags in treatment: 12794959 INFO @ Tue, 02 Aug 2022 15:13:05: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 15:13:05: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 15:13:05: #1 tags after filtering in treatment: 12794959 INFO @ Tue, 02 Aug 2022 15:13:05: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 15:13:05: #1 finished! INFO @ Tue, 02 Aug 2022 15:13:05: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 15:13:05: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 15:13:06: 11000000 INFO @ Tue, 02 Aug 2022 15:13:06: #2 number of paired peaks: 3056 INFO @ Tue, 02 Aug 2022 15:13:06: start model_add_line... INFO @ Tue, 02 Aug 2022 15:13:06: start X-correlation... INFO @ Tue, 02 Aug 2022 15:13:07: end of X-cor INFO @ Tue, 02 Aug 2022 15:13:07: #2 finished! INFO @ Tue, 02 Aug 2022 15:13:07: #2 predicted fragment length is 195 bps INFO @ Tue, 02 Aug 2022 15:13:07: #2 alternative fragment length(s) may be 195 bps INFO @ Tue, 02 Aug 2022 15:13:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX15206497/SRX15206497.10_model.r INFO @ Tue, 02 Aug 2022 15:13:07: #3 Call peaks... INFO @ Tue, 02 Aug 2022 15:13:07: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 15:13:16: 12000000 INFO @ Tue, 02 Aug 2022 15:13:25: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 15:13:25: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 15:13:25: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 15:13:25: #1 total tags in treatment: 12794959 INFO @ Tue, 02 Aug 2022 15:13:25: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 15:13:25: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 15:13:25: #1 tags after filtering in treatment: 12794959 INFO @ Tue, 02 Aug 2022 15:13:25: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 15:13:25: #1 finished! INFO @ Tue, 02 Aug 2022 15:13:25: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 15:13:25: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 15:13:27: #2 number of paired peaks: 3056 INFO @ Tue, 02 Aug 2022 15:13:27: start model_add_line... INFO @ Tue, 02 Aug 2022 15:13:27: start X-correlation... INFO @ Tue, 02 Aug 2022 15:13:27: end of X-cor INFO @ Tue, 02 Aug 2022 15:13:27: #2 finished! INFO @ Tue, 02 Aug 2022 15:13:27: #2 predicted fragment length is 195 bps INFO @ Tue, 02 Aug 2022 15:13:27: #2 alternative fragment length(s) may be 195 bps INFO @ Tue, 02 Aug 2022 15:13:27: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX15206497/SRX15206497.20_model.r INFO @ Tue, 02 Aug 2022 15:13:27: #3 Call peaks... INFO @ Tue, 02 Aug 2022 15:13:27: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 15:13:46: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX15206497/SRX15206497.05_peaks.xls INFO @ Tue, 02 Aug 2022 15:13:46: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX15206497/SRX15206497.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 15:13:46: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX15206497/SRX15206497.05_summits.bed INFO @ Tue, 02 Aug 2022 15:13:46: Done! pass1 - making usageList (14 chroms): 4 millis pass2 - checking and writing primary data (6984 records, 4 fields): 32 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 15:13:49: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 15:14:10: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX15206497/SRX15206497.10_peaks.xls INFO @ Tue, 02 Aug 2022 15:14:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX15206497/SRX15206497.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 15:14:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX15206497/SRX15206497.10_summits.bed INFO @ Tue, 02 Aug 2022 15:14:10: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (5487 records, 4 fields): 20 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 15:14:12: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 15:14:35: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX15206497/SRX15206497.20_peaks.xls INFO @ Tue, 02 Aug 2022 15:14:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX15206497/SRX15206497.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 15:14:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX15206497/SRX15206497.20_summits.bed INFO @ Tue, 02 Aug 2022 15:14:35: Done! pass1 - making usageList (14 chroms): 3 millis pass2 - checking and writing primary data (4025 records, 4 fields): 27 millis CompletedMACS2peakCalling