Job ID = 14167121 SRX = SRX4712943 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 44240601 spots for SRR7874073/SRR7874073.sra Written 44240601 spots for SRR7874073/SRR7874073.sra fastq に変換しました。 bowtie でマッピング中... Your job 14167583 ("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: 00:13:55 44240601 reads; of these: 44240601 (100.00%) were unpaired; of these: 1619080 (3.66%) aligned 0 times 33421969 (75.55%) aligned exactly 1 time 9199552 (20.79%) aligned >1 times 96.34% overall alignment rate Time searching: 00:13:55 Overall time: 00:13:55 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 20 files... [bam_rmdupse_core] 25060167 / 42621521 = 0.5880 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 10:30:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4712943/SRX4712943.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4712943/SRX4712943.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4712943/SRX4712943.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4712943/SRX4712943.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 10:30:42: #1 read tag files... INFO @ Fri, 10 Dec 2021 10:30:42: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 10:30:48: 1000000 INFO @ Fri, 10 Dec 2021 10:30:53: 2000000 INFO @ Fri, 10 Dec 2021 10:30:59: 3000000 INFO @ Fri, 10 Dec 2021 10:31:05: 4000000 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 10:31:11: 5000000 INFO @ Fri, 10 Dec 2021 10:31:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4712943/SRX4712943.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4712943/SRX4712943.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4712943/SRX4712943.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4712943/SRX4712943.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 10:31:11: #1 read tag files... INFO @ Fri, 10 Dec 2021 10:31:11: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 10:31:17: 6000000 INFO @ Fri, 10 Dec 2021 10:31:18: 1000000 INFO @ Fri, 10 Dec 2021 10:31:24: 7000000 INFO @ Fri, 10 Dec 2021 10:31:25: 2000000 INFO @ Fri, 10 Dec 2021 10:31:30: 8000000 INFO @ Fri, 10 Dec 2021 10:31:31: 3000000 INFO @ Fri, 10 Dec 2021 10:31:36: 9000000 INFO @ Fri, 10 Dec 2021 10:31:38: 4000000 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 10:31:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4712943/SRX4712943.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4712943/SRX4712943.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4712943/SRX4712943.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4712943/SRX4712943.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 10:31:41: #1 read tag files... INFO @ Fri, 10 Dec 2021 10:31:41: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 10:31:43: 10000000 INFO @ Fri, 10 Dec 2021 10:31:44: 5000000 INFO @ Fri, 10 Dec 2021 10:31:48: 1000000 INFO @ Fri, 10 Dec 2021 10:31:50: 11000000 INFO @ Fri, 10 Dec 2021 10:31:51: 6000000 INFO @ Fri, 10 Dec 2021 10:31:54: 2000000 INFO @ Fri, 10 Dec 2021 10:31:57: 12000000 INFO @ Fri, 10 Dec 2021 10:31:58: 7000000 INFO @ Fri, 10 Dec 2021 10:32:01: 3000000 INFO @ Fri, 10 Dec 2021 10:32:04: 13000000 INFO @ Fri, 10 Dec 2021 10:32:05: 8000000 INFO @ Fri, 10 Dec 2021 10:32:08: 4000000 INFO @ Fri, 10 Dec 2021 10:32:10: 14000000 INFO @ Fri, 10 Dec 2021 10:32:12: 9000000 INFO @ Fri, 10 Dec 2021 10:32:16: 5000000 INFO @ Fri, 10 Dec 2021 10:32:17: 15000000 INFO @ Fri, 10 Dec 2021 10:32:18: 10000000 INFO @ Fri, 10 Dec 2021 10:32:23: 6000000 INFO @ Fri, 10 Dec 2021 10:32:24: 16000000 INFO @ Fri, 10 Dec 2021 10:32:25: 11000000 INFO @ Fri, 10 Dec 2021 10:32:31: 7000000 INFO @ Fri, 10 Dec 2021 10:32:31: 17000000 INFO @ Fri, 10 Dec 2021 10:32:32: 12000000 INFO @ Fri, 10 Dec 2021 10:32:35: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 10:32:35: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 10:32:35: #1 total tags in treatment: 17561354 INFO @ Fri, 10 Dec 2021 10:32:35: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 10:32:35: #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 10:32:35: #1 tags after filtering in treatment: 17561354 INFO @ Fri, 10 Dec 2021 10:32:35: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 10:32:35: #1 finished! INFO @ Fri, 10 Dec 2021 10:32:35: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 10:32:35: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 10:32:36: #2 number of paired peaks: 1500 INFO @ Fri, 10 Dec 2021 10:32:36: start model_add_line... INFO @ Fri, 10 Dec 2021 10:32:36: start X-correlation... INFO @ Fri, 10 Dec 2021 10:32:36: end of X-cor INFO @ Fri, 10 Dec 2021 10:32:36: #2 finished! INFO @ Fri, 10 Dec 2021 10:32:36: #2 predicted fragment length is 167 bps INFO @ Fri, 10 Dec 2021 10:32:36: #2 alternative fragment length(s) may be 167 bps INFO @ Fri, 10 Dec 2021 10:32:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX4712943/SRX4712943.05_model.r INFO @ Fri, 10 Dec 2021 10:32:36: #3 Call peaks... INFO @ Fri, 10 Dec 2021 10:32:36: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 10:32:38: 8000000 INFO @ Fri, 10 Dec 2021 10:32:39: 13000000 INFO @ Fri, 10 Dec 2021 10:32:45: 9000000 INFO @ Fri, 10 Dec 2021 10:32:46: 14000000 INFO @ Fri, 10 Dec 2021 10:32:53: 15000000 INFO @ Fri, 10 Dec 2021 10:32:53: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 10:32:59: 16000000 INFO @ Fri, 10 Dec 2021 10:33:00: 11000000 INFO @ Fri, 10 Dec 2021 10:33:06: 17000000 INFO @ Fri, 10 Dec 2021 10:33:08: 12000000 INFO @ Fri, 10 Dec 2021 10:33:10: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 10:33:10: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 10:33:10: #1 total tags in treatment: 17561354 INFO @ Fri, 10 Dec 2021 10:33:10: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 10:33:10: #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 10:33:10: #1 tags after filtering in treatment: 17561354 INFO @ Fri, 10 Dec 2021 10:33:10: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 10:33:10: #1 finished! INFO @ Fri, 10 Dec 2021 10:33:10: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 10:33:10: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 10:33:11: #2 number of paired peaks: 1500 INFO @ Fri, 10 Dec 2021 10:33:11: start model_add_line... INFO @ Fri, 10 Dec 2021 10:33:12: start X-correlation... INFO @ Fri, 10 Dec 2021 10:33:12: end of X-cor INFO @ Fri, 10 Dec 2021 10:33:12: #2 finished! INFO @ Fri, 10 Dec 2021 10:33:12: #2 predicted fragment length is 167 bps INFO @ Fri, 10 Dec 2021 10:33:12: #2 alternative fragment length(s) may be 167 bps INFO @ Fri, 10 Dec 2021 10:33:12: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX4712943/SRX4712943.10_model.r INFO @ Fri, 10 Dec 2021 10:33:12: #3 Call peaks... INFO @ Fri, 10 Dec 2021 10:33:12: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 10:33:13: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 10:33:15: 13000000 INFO @ Fri, 10 Dec 2021 10:33:22: 14000000 INFO @ Fri, 10 Dec 2021 10:33:29: 15000000 INFO @ Fri, 10 Dec 2021 10:33:31: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX4712943/SRX4712943.05_peaks.xls INFO @ Fri, 10 Dec 2021 10:33:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX4712943/SRX4712943.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 10:33:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX4712943/SRX4712943.05_summits.bed INFO @ Fri, 10 Dec 2021 10:33:31: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (11360 records, 4 fields): 12 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 10:33:36: 16000000 INFO @ Fri, 10 Dec 2021 10:33:42: 17000000 INFO @ Fri, 10 Dec 2021 10:33:46: #1 tag size is determined as 51 bps INFO @ Fri, 10 Dec 2021 10:33:46: #1 tag size = 51 INFO @ Fri, 10 Dec 2021 10:33:46: #1 total tags in treatment: 17561354 INFO @ Fri, 10 Dec 2021 10:33:46: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 10:33:46: #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 10:33:47: #1 tags after filtering in treatment: 17561354 INFO @ Fri, 10 Dec 2021 10:33:47: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 10:33:47: #1 finished! INFO @ Fri, 10 Dec 2021 10:33:47: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 10:33:47: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 10:33:48: #2 number of paired peaks: 1500 INFO @ Fri, 10 Dec 2021 10:33:48: start model_add_line... INFO @ Fri, 10 Dec 2021 10:33:48: start X-correlation... INFO @ Fri, 10 Dec 2021 10:33:48: end of X-cor INFO @ Fri, 10 Dec 2021 10:33:48: #2 finished! INFO @ Fri, 10 Dec 2021 10:33:48: #2 predicted fragment length is 167 bps INFO @ Fri, 10 Dec 2021 10:33:48: #2 alternative fragment length(s) may be 167 bps INFO @ Fri, 10 Dec 2021 10:33:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX4712943/SRX4712943.20_model.r INFO @ Fri, 10 Dec 2021 10:33:48: #3 Call peaks... INFO @ Fri, 10 Dec 2021 10:33:48: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 10:33:50: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 10:34:08: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX4712943/SRX4712943.10_peaks.xls INFO @ Fri, 10 Dec 2021 10:34:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX4712943/SRX4712943.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 10:34:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX4712943/SRX4712943.10_summits.bed INFO @ Fri, 10 Dec 2021 10:34:08: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (8281 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 10:34:24: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 10:34:41: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX4712943/SRX4712943.20_peaks.xls INFO @ Fri, 10 Dec 2021 10:34:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX4712943/SRX4712943.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 10:34:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX4712943/SRX4712943.20_summits.bed INFO @ Fri, 10 Dec 2021 10:34:41: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (6168 records, 4 fields): 8 millis CompletedMACS2peakCalling