Job ID = 14168092 SRX = SRX8723974 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 25832934 spots for SRR12213376/SRR12213376.sra Written 25832934 spots for SRR12213376/SRR12213376.sra fastq に変換しました。 bowtie でマッピング中... Your job 14168869 ("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: 00:08:07 25832934 reads; of these: 25832934 (100.00%) were unpaired; of these: 1507298 (5.83%) aligned 0 times 16588581 (64.21%) aligned exactly 1 time 7737055 (29.95%) aligned >1 times 94.17% overall alignment rate Time searching: 00:08:07 Overall time: 00:08:07 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_rmdupse_core] 12661896 / 24325636 = 0.5205 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 15:31:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8723974/SRX8723974.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8723974/SRX8723974.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8723974/SRX8723974.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8723974/SRX8723974.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 15:31:36: #1 read tag files... INFO @ Fri, 10 Dec 2021 15:31:36: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 15:31:45: 1000000 INFO @ Fri, 10 Dec 2021 15:31:53: 2000000 INFO @ Fri, 10 Dec 2021 15:32:02: 3000000 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 15:32:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8723974/SRX8723974.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8723974/SRX8723974.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8723974/SRX8723974.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8723974/SRX8723974.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 15:32:06: #1 read tag files... INFO @ Fri, 10 Dec 2021 15:32:06: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 15:32:11: 4000000 INFO @ Fri, 10 Dec 2021 15:32:18: 1000000 INFO @ Fri, 10 Dec 2021 15:32:20: 5000000 INFO @ Fri, 10 Dec 2021 15:32:29: 6000000 INFO @ Fri, 10 Dec 2021 15:32:30: 2000000 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 15:32:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8723974/SRX8723974.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8723974/SRX8723974.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8723974/SRX8723974.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8723974/SRX8723974.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 15:32:36: #1 read tag files... INFO @ Fri, 10 Dec 2021 15:32:36: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 15:32:38: 7000000 INFO @ Fri, 10 Dec 2021 15:32:42: 3000000 INFO @ Fri, 10 Dec 2021 15:32:46: 1000000 INFO @ Fri, 10 Dec 2021 15:32:48: 8000000 INFO @ Fri, 10 Dec 2021 15:32:54: 4000000 INFO @ Fri, 10 Dec 2021 15:32:57: 2000000 INFO @ Fri, 10 Dec 2021 15:32:58: 9000000 INFO @ Fri, 10 Dec 2021 15:33:06: 5000000 INFO @ Fri, 10 Dec 2021 15:33:07: 3000000 INFO @ Fri, 10 Dec 2021 15:33:07: 10000000 INFO @ Fri, 10 Dec 2021 15:33:17: 4000000 INFO @ Fri, 10 Dec 2021 15:33:17: 11000000 INFO @ Fri, 10 Dec 2021 15:33:18: 6000000 INFO @ Fri, 10 Dec 2021 15:33:23: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 15:33:23: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 15:33:23: #1 total tags in treatment: 11663740 INFO @ Fri, 10 Dec 2021 15:33:23: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 15:33:23: #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 15:33:23: #1 tags after filtering in treatment: 11663740 INFO @ Fri, 10 Dec 2021 15:33:23: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 15:33:23: #1 finished! INFO @ Fri, 10 Dec 2021 15:33:23: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 15:33:23: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 15:33:25: #2 number of paired peaks: 2486 INFO @ Fri, 10 Dec 2021 15:33:25: start model_add_line... INFO @ Fri, 10 Dec 2021 15:33:25: start X-correlation... INFO @ Fri, 10 Dec 2021 15:33:25: end of X-cor INFO @ Fri, 10 Dec 2021 15:33:25: #2 finished! INFO @ Fri, 10 Dec 2021 15:33:25: #2 predicted fragment length is 205 bps INFO @ Fri, 10 Dec 2021 15:33:25: #2 alternative fragment length(s) may be 205 bps INFO @ Fri, 10 Dec 2021 15:33:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8723974/SRX8723974.05_model.r INFO @ Fri, 10 Dec 2021 15:33:25: #3 Call peaks... INFO @ Fri, 10 Dec 2021 15:33:25: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 15:33:27: 5000000 INFO @ Fri, 10 Dec 2021 15:33:30: 7000000 INFO @ Fri, 10 Dec 2021 15:33:37: 6000000 INFO @ Fri, 10 Dec 2021 15:33:41: 8000000 INFO @ Fri, 10 Dec 2021 15:33:47: 7000000 INFO @ Fri, 10 Dec 2021 15:33:53: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 15:33:57: 8000000 INFO @ Fri, 10 Dec 2021 15:34:05: 10000000 INFO @ Fri, 10 Dec 2021 15:34:08: 9000000 INFO @ Fri, 10 Dec 2021 15:34:08: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 15:34:17: 11000000 INFO @ Fri, 10 Dec 2021 15:34:17: 10000000 INFO @ Fri, 10 Dec 2021 15:34:24: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 15:34:24: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 15:34:24: #1 total tags in treatment: 11663740 INFO @ Fri, 10 Dec 2021 15:34:24: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 15:34:24: #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 15:34:25: #1 tags after filtering in treatment: 11663740 INFO @ Fri, 10 Dec 2021 15:34:25: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 15:34:25: #1 finished! INFO @ Fri, 10 Dec 2021 15:34:25: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 15:34:25: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 15:34:26: #2 number of paired peaks: 2486 INFO @ Fri, 10 Dec 2021 15:34:26: start model_add_line... INFO @ Fri, 10 Dec 2021 15:34:26: start X-correlation... INFO @ Fri, 10 Dec 2021 15:34:26: end of X-cor INFO @ Fri, 10 Dec 2021 15:34:26: #2 finished! INFO @ Fri, 10 Dec 2021 15:34:26: #2 predicted fragment length is 205 bps INFO @ Fri, 10 Dec 2021 15:34:26: #2 alternative fragment length(s) may be 205 bps INFO @ Fri, 10 Dec 2021 15:34:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8723974/SRX8723974.10_model.r INFO @ Fri, 10 Dec 2021 15:34:26: #3 Call peaks... INFO @ Fri, 10 Dec 2021 15:34:26: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 15:34:26: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8723974/SRX8723974.05_peaks.xls INFO @ Fri, 10 Dec 2021 15:34:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8723974/SRX8723974.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 15:34:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8723974/SRX8723974.05_summits.bed INFO @ Fri, 10 Dec 2021 15:34:27: Done! pass1 - making usageList (15 chroms): 4 millis pass2 - checking and writing primary data (10266 records, 4 fields): 17 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 15:34:27: 11000000 BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 15:34:33: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 15:34:33: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 15:34:33: #1 total tags in treatment: 11663740 INFO @ Fri, 10 Dec 2021 15:34:33: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 15:34:33: #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 15:34:34: #1 tags after filtering in treatment: 11663740 INFO @ Fri, 10 Dec 2021 15:34:34: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 15:34:34: #1 finished! INFO @ Fri, 10 Dec 2021 15:34:34: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 15:34:34: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 15:34:35: #2 number of paired peaks: 2486 INFO @ Fri, 10 Dec 2021 15:34:35: start model_add_line... INFO @ Fri, 10 Dec 2021 15:34:35: start X-correlation... INFO @ Fri, 10 Dec 2021 15:34:35: end of X-cor INFO @ Fri, 10 Dec 2021 15:34:35: #2 finished! INFO @ Fri, 10 Dec 2021 15:34:35: #2 predicted fragment length is 205 bps INFO @ Fri, 10 Dec 2021 15:34:35: #2 alternative fragment length(s) may be 205 bps INFO @ Fri, 10 Dec 2021 15:34:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8723974/SRX8723974.20_model.r INFO @ Fri, 10 Dec 2021 15:34:35: #3 Call peaks... INFO @ Fri, 10 Dec 2021 15:34:35: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 15:35:08: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 15:35:17: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 15:35:27: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8723974/SRX8723974.10_peaks.xls INFO @ Fri, 10 Dec 2021 15:35:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8723974/SRX8723974.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 15:35:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8723974/SRX8723974.10_summits.bed INFO @ Fri, 10 Dec 2021 15:35:27: Done! pass1 - making usageList (15 chroms): 3 millis pass2 - checking and writing primary data (7190 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 15:35:35: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8723974/SRX8723974.20_peaks.xls INFO @ Fri, 10 Dec 2021 15:35:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8723974/SRX8723974.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 15:35:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8723974/SRX8723974.20_summits.bed INFO @ Fri, 10 Dec 2021 15:35:35: Done! pass1 - making usageList (15 chroms): 3 millis pass2 - checking and writing primary data (3865 records, 4 fields): 9 millis CompletedMACS2peakCalling