Job ID = 16439008 SRX = SRX15206443 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2022-08-02T05:23:49 prefetch.2.10.7: 1) Downloading 'SRR19139367'... 2022-08-02T05:23:49 prefetch.2.10.7: Downloading via HTTPS... 2022-08-02T05:24:12 prefetch.2.10.7: HTTPS download succeed 2022-08-02T05:24:13 prefetch.2.10.7: 'SRR19139367' is valid 2022-08-02T05:24:13 prefetch.2.10.7: 1) 'SRR19139367' was downloaded successfully 2022-08-02T05:24:13 prefetch.2.10.7: 'SRR19139367' has 0 unresolved dependencies Read 20435754 spots for SRR19139367/SRR19139367.sra Written 20435754 spots for SRR19139367/SRR19139367.sra fastq に変換しました。 bowtie でマッピング中... Your job 16439156 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:01 Multiseed full-index search: 00:07:35 20435754 reads; of these: 20435754 (100.00%) were unpaired; of these: 2792811 (13.67%) aligned 0 times 9465103 (46.32%) aligned exactly 1 time 8177840 (40.02%) aligned >1 times 86.33% overall alignment rate Time searching: 00:07:36 Overall time: 00:07:36 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] 8308435 / 17642943 = 0.4709 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 14:37:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX15206443/SRX15206443.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX15206443/SRX15206443.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX15206443/SRX15206443.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX15206443/SRX15206443.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 14:37:54: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:37:54: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 14:38:05: 1000000 INFO @ Tue, 02 Aug 2022 14:38:15: 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 14:38:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX15206443/SRX15206443.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX15206443/SRX15206443.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX15206443/SRX15206443.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX15206443/SRX15206443.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 14:38:22: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:38:22: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 14:38:26: 3000000 INFO @ Tue, 02 Aug 2022 14:38:32: 1000000 INFO @ Tue, 02 Aug 2022 14:38:37: 4000000 INFO @ Tue, 02 Aug 2022 14:38:41: 2000000 INFO @ Tue, 02 Aug 2022 14:38:47: 5000000 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 14:38:50: 3000000 INFO @ Tue, 02 Aug 2022 14:38:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX15206443/SRX15206443.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX15206443/SRX15206443.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX15206443/SRX15206443.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX15206443/SRX15206443.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 14:38:52: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:38:52: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 14:38:58: 6000000 INFO @ Tue, 02 Aug 2022 14:39:00: 4000000 INFO @ Tue, 02 Aug 2022 14:39:02: 1000000 INFO @ Tue, 02 Aug 2022 14:39:09: 7000000 INFO @ Tue, 02 Aug 2022 14:39:10: 5000000 INFO @ Tue, 02 Aug 2022 14:39:13: 2000000 INFO @ Tue, 02 Aug 2022 14:39:20: 8000000 INFO @ Tue, 02 Aug 2022 14:39:20: 6000000 INFO @ Tue, 02 Aug 2022 14:39:22: 3000000 INFO @ Tue, 02 Aug 2022 14:39:31: 7000000 INFO @ Tue, 02 Aug 2022 14:39:31: 9000000 INFO @ Tue, 02 Aug 2022 14:39:33: 4000000 INFO @ Tue, 02 Aug 2022 14:39:35: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 14:39:35: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 14:39:35: #1 total tags in treatment: 9334508 INFO @ Tue, 02 Aug 2022 14:39:35: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 14:39:35: #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 14:39:35: #1 tags after filtering in treatment: 9334508 INFO @ Tue, 02 Aug 2022 14:39:35: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 14:39:35: #1 finished! INFO @ Tue, 02 Aug 2022 14:39:35: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 14:39:35: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 14:39:36: #2 number of paired peaks: 4779 INFO @ Tue, 02 Aug 2022 14:39:36: start model_add_line... INFO @ Tue, 02 Aug 2022 14:39:37: start X-correlation... INFO @ Tue, 02 Aug 2022 14:39:37: end of X-cor INFO @ Tue, 02 Aug 2022 14:39:37: #2 finished! INFO @ Tue, 02 Aug 2022 14:39:37: #2 predicted fragment length is 133 bps INFO @ Tue, 02 Aug 2022 14:39:37: #2 alternative fragment length(s) may be 133 bps INFO @ Tue, 02 Aug 2022 14:39:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX15206443/SRX15206443.05_model.r INFO @ Tue, 02 Aug 2022 14:39:37: #3 Call peaks... INFO @ Tue, 02 Aug 2022 14:39:37: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 14:39:41: 8000000 INFO @ Tue, 02 Aug 2022 14:39:43: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 14:39:51: 9000000 INFO @ Tue, 02 Aug 2022 14:39:52: 6000000 INFO @ Tue, 02 Aug 2022 14:39:54: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 14:39:54: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 14:39:54: #1 total tags in treatment: 9334508 INFO @ Tue, 02 Aug 2022 14:39:54: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 14:39:54: #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 14:39:54: #1 tags after filtering in treatment: 9334508 INFO @ Tue, 02 Aug 2022 14:39:54: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 14:39:54: #1 finished! INFO @ Tue, 02 Aug 2022 14:39:54: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 14:39:54: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 14:39:55: #2 number of paired peaks: 4779 INFO @ Tue, 02 Aug 2022 14:39:55: start model_add_line... INFO @ Tue, 02 Aug 2022 14:39:55: start X-correlation... INFO @ Tue, 02 Aug 2022 14:39:55: end of X-cor INFO @ Tue, 02 Aug 2022 14:39:55: #2 finished! INFO @ Tue, 02 Aug 2022 14:39:55: #2 predicted fragment length is 133 bps INFO @ Tue, 02 Aug 2022 14:39:55: #2 alternative fragment length(s) may be 133 bps INFO @ Tue, 02 Aug 2022 14:39:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX15206443/SRX15206443.10_model.r INFO @ Tue, 02 Aug 2022 14:39:55: #3 Call peaks... INFO @ Tue, 02 Aug 2022 14:39:55: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 14:40:01: 7000000 INFO @ Tue, 02 Aug 2022 14:40:10: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 14:40:10: 8000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 14:40:19: 9000000 INFO @ Tue, 02 Aug 2022 14:40:22: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 14:40:22: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 14:40:22: #1 total tags in treatment: 9334508 INFO @ Tue, 02 Aug 2022 14:40:22: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 14:40:22: #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 14:40:22: #1 tags after filtering in treatment: 9334508 INFO @ Tue, 02 Aug 2022 14:40:22: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 14:40:22: #1 finished! INFO @ Tue, 02 Aug 2022 14:40:22: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 14:40:22: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 14:40:23: #2 number of paired peaks: 4779 INFO @ Tue, 02 Aug 2022 14:40:23: start model_add_line... INFO @ Tue, 02 Aug 2022 14:40:23: start X-correlation... INFO @ Tue, 02 Aug 2022 14:40:23: end of X-cor INFO @ Tue, 02 Aug 2022 14:40:23: #2 finished! INFO @ Tue, 02 Aug 2022 14:40:23: #2 predicted fragment length is 133 bps INFO @ Tue, 02 Aug 2022 14:40:23: #2 alternative fragment length(s) may be 133 bps INFO @ Tue, 02 Aug 2022 14:40:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX15206443/SRX15206443.20_model.r INFO @ Tue, 02 Aug 2022 14:40:23: #3 Call peaks... INFO @ Tue, 02 Aug 2022 14:40:23: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 14:40:26: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX15206443/SRX15206443.05_peaks.xls INFO @ Tue, 02 Aug 2022 14:40:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX15206443/SRX15206443.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 14:40:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX15206443/SRX15206443.05_summits.bed INFO @ Tue, 02 Aug 2022 14:40:27: Done! pass1 - making usageList (15 chroms): 5 millis pass2 - checking and writing primary data (11093 records, 4 fields): 43 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 14:40:30: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 14:40:47: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX15206443/SRX15206443.10_peaks.xls INFO @ Tue, 02 Aug 2022 14:40:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX15206443/SRX15206443.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 14:40:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX15206443/SRX15206443.10_summits.bed INFO @ Tue, 02 Aug 2022 14:40:48: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (6826 records, 4 fields): 25 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 14:40:58: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 14:41:15: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX15206443/SRX15206443.20_peaks.xls INFO @ Tue, 02 Aug 2022 14:41:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX15206443/SRX15206443.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 14:41:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX15206443/SRX15206443.20_summits.bed INFO @ Tue, 02 Aug 2022 14:41:15: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (3576 records, 4 fields): 35 millis CompletedMACS2peakCalling