Job ID = 6626556 SRX = SRX6813093 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 14233466 spots for SRR10080049/SRR10080049.sra Written 14233466 spots for SRR10080049/SRR10080049.sra fastq に変換しました。 bowtie でマッピング中... Your job 6626689 ("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: 00:04:10 14233466 reads; of these: 14233466 (100.00%) were unpaired; of these: 462408 (3.25%) aligned 0 times 11306319 (79.43%) aligned exactly 1 time 2464739 (17.32%) aligned >1 times 96.75% overall alignment rate Time searching: 00:04:10 Overall time: 00:04:10 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] 1206639 / 13771058 = 0.0876 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 07:39:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6813093/SRX6813093.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6813093/SRX6813093.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6813093/SRX6813093.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6813093/SRX6813093.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, 14 Jul 2020 07:39:27: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:39:27: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:39:34: 1000000 INFO @ Tue, 14 Jul 2020 07:39:41: 2000000 INFO @ Tue, 14 Jul 2020 07:39:48: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 07:39:55: 4000000 INFO @ Tue, 14 Jul 2020 07:39:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6813093/SRX6813093.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6813093/SRX6813093.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6813093/SRX6813093.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6813093/SRX6813093.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, 14 Jul 2020 07:39:57: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:39:57: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:40:02: 5000000 INFO @ Tue, 14 Jul 2020 07:40:04: 1000000 INFO @ Tue, 14 Jul 2020 07:40:10: 6000000 INFO @ Tue, 14 Jul 2020 07:40:10: 2000000 INFO @ Tue, 14 Jul 2020 07:40:17: 3000000 INFO @ Tue, 14 Jul 2020 07:40:17: 7000000 INFO @ Tue, 14 Jul 2020 07:40:24: 4000000 INFO @ Tue, 14 Jul 2020 07:40:25: 8000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 07:40:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX6813093/SRX6813093.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX6813093/SRX6813093.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX6813093/SRX6813093.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX6813093/SRX6813093.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, 14 Jul 2020 07:40:27: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:40:27: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:40:31: 5000000 INFO @ Tue, 14 Jul 2020 07:40:32: 9000000 INFO @ Tue, 14 Jul 2020 07:40:34: 1000000 INFO @ Tue, 14 Jul 2020 07:40:38: 6000000 INFO @ Tue, 14 Jul 2020 07:40:40: 10000000 INFO @ Tue, 14 Jul 2020 07:40:42: 2000000 INFO @ Tue, 14 Jul 2020 07:40:45: 7000000 INFO @ Tue, 14 Jul 2020 07:40:48: 11000000 INFO @ Tue, 14 Jul 2020 07:40:50: 3000000 INFO @ Tue, 14 Jul 2020 07:40:51: 8000000 INFO @ Tue, 14 Jul 2020 07:40:55: 12000000 INFO @ Tue, 14 Jul 2020 07:40:57: 4000000 INFO @ Tue, 14 Jul 2020 07:40:58: 9000000 INFO @ Tue, 14 Jul 2020 07:41:00: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:41:00: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:41:00: #1 total tags in treatment: 12564419 INFO @ Tue, 14 Jul 2020 07:41:00: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:41:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 07:41:00: #1 tags after filtering in treatment: 12564419 INFO @ Tue, 14 Jul 2020 07:41:00: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:41:00: #1 finished! INFO @ Tue, 14 Jul 2020 07:41:00: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:41:00: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:41:01: #2 number of paired peaks: 2786 INFO @ Tue, 14 Jul 2020 07:41:01: start model_add_line... INFO @ Tue, 14 Jul 2020 07:41:01: start X-correlation... INFO @ Tue, 14 Jul 2020 07:41:01: end of X-cor INFO @ Tue, 14 Jul 2020 07:41:01: #2 finished! INFO @ Tue, 14 Jul 2020 07:41:01: #2 predicted fragment length is 190 bps INFO @ Tue, 14 Jul 2020 07:41:01: #2 alternative fragment length(s) may be 190 bps INFO @ Tue, 14 Jul 2020 07:41:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX6813093/SRX6813093.05_model.r INFO @ Tue, 14 Jul 2020 07:41:01: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:41:01: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:41:05: 5000000 INFO @ Tue, 14 Jul 2020 07:41:05: 10000000 INFO @ Tue, 14 Jul 2020 07:41:12: 11000000 INFO @ Tue, 14 Jul 2020 07:41:12: 6000000 INFO @ Tue, 14 Jul 2020 07:41:19: 12000000 INFO @ Tue, 14 Jul 2020 07:41:19: 7000000 INFO @ Tue, 14 Jul 2020 07:41:23: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:41:23: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:41:23: #1 total tags in treatment: 12564419 INFO @ Tue, 14 Jul 2020 07:41:23: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:41:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 07:41:23: #1 tags after filtering in treatment: 12564419 INFO @ Tue, 14 Jul 2020 07:41:23: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:41:23: #1 finished! INFO @ Tue, 14 Jul 2020 07:41:23: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:41:23: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:41:24: #2 number of paired peaks: 2786 INFO @ Tue, 14 Jul 2020 07:41:24: start model_add_line... INFO @ Tue, 14 Jul 2020 07:41:24: start X-correlation... INFO @ Tue, 14 Jul 2020 07:41:24: end of X-cor INFO @ Tue, 14 Jul 2020 07:41:24: #2 finished! INFO @ Tue, 14 Jul 2020 07:41:24: #2 predicted fragment length is 190 bps INFO @ Tue, 14 Jul 2020 07:41:24: #2 alternative fragment length(s) may be 190 bps INFO @ Tue, 14 Jul 2020 07:41:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX6813093/SRX6813093.10_model.r INFO @ Tue, 14 Jul 2020 07:41:24: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:41:24: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 07:41:26: 8000000 INFO @ Tue, 14 Jul 2020 07:41:33: 9000000 INFO @ Tue, 14 Jul 2020 07:41:34: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:41:40: 10000000 INFO @ Tue, 14 Jul 2020 07:41:47: 11000000 INFO @ Tue, 14 Jul 2020 07:41:48: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX6813093/SRX6813093.05_peaks.xls INFO @ Tue, 14 Jul 2020 07:41:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX6813093/SRX6813093.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:41:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX6813093/SRX6813093.05_summits.bed INFO @ Tue, 14 Jul 2020 07:41:49: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (3622 records, 4 fields): 20 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 07:41:54: 12000000 BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 07:41:57: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:41:58: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 07:41:58: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 07:41:58: #1 total tags in treatment: 12564419 INFO @ Tue, 14 Jul 2020 07:41:58: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:41:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 07:41:58: #1 tags after filtering in treatment: 12564419 INFO @ Tue, 14 Jul 2020 07:41:58: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:41:58: #1 finished! INFO @ Tue, 14 Jul 2020 07:41:58: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:41:58: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:41:59: #2 number of paired peaks: 2786 INFO @ Tue, 14 Jul 2020 07:41:59: start model_add_line... INFO @ Tue, 14 Jul 2020 07:41:59: start X-correlation... INFO @ Tue, 14 Jul 2020 07:41:59: end of X-cor INFO @ Tue, 14 Jul 2020 07:41:59: #2 finished! INFO @ Tue, 14 Jul 2020 07:41:59: #2 predicted fragment length is 190 bps INFO @ Tue, 14 Jul 2020 07:41:59: #2 alternative fragment length(s) may be 190 bps INFO @ Tue, 14 Jul 2020 07:41:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX6813093/SRX6813093.20_model.r INFO @ Tue, 14 Jul 2020 07:41:59: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:41:59: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:42:12: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX6813093/SRX6813093.10_peaks.xls INFO @ Tue, 14 Jul 2020 07:42:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX6813093/SRX6813093.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:42:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX6813093/SRX6813093.10_summits.bed INFO @ Tue, 14 Jul 2020 07:42:12: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (1347 records, 4 fields): 16 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 07:42:33: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:42:48: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX6813093/SRX6813093.20_peaks.xls INFO @ Tue, 14 Jul 2020 07:42:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX6813093/SRX6813093.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:42:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX6813093/SRX6813093.20_summits.bed INFO @ Tue, 14 Jul 2020 07:42:48: Done! pass1 - making usageList (11 chroms): 1 millis pass2 - checking and writing primary data (381 records, 4 fields): 8 millis CompletedMACS2peakCalling