Job ID = 14171921 SRX = SRX3292997 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 26942356 spots for SRR6182823/SRR6182823.sra Written 26942356 spots for SRR6182823/SRR6182823.sra fastq に変換しました。 bowtie でマッピング中... Your job 14172434 ("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: 00:12:09 26942356 reads; of these: 26942356 (100.00%) were unpaired; of these: 10426833 (38.70%) aligned 0 times 14580504 (54.12%) aligned exactly 1 time 1935019 (7.18%) aligned >1 times 61.30% overall alignment rate Time searching: 00:12:09 Overall time: 00:12:09 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] 2578641 / 16515523 = 0.1561 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 @ Sat, 11 Dec 2021 13:46:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3292997/SRX3292997.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3292997/SRX3292997.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3292997/SRX3292997.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3292997/SRX3292997.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 @ Sat, 11 Dec 2021 13:46:59: #1 read tag files... INFO @ Sat, 11 Dec 2021 13:46:59: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 13:47:06: 1000000 INFO @ Sat, 11 Dec 2021 13:47:14: 2000000 INFO @ Sat, 11 Dec 2021 13:47:21: 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 @ Sat, 11 Dec 2021 13:47:29: 4000000 INFO @ Sat, 11 Dec 2021 13:47:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3292997/SRX3292997.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3292997/SRX3292997.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3292997/SRX3292997.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3292997/SRX3292997.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 @ Sat, 11 Dec 2021 13:47:29: #1 read tag files... INFO @ Sat, 11 Dec 2021 13:47:29: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 13:47:37: 5000000 INFO @ Sat, 11 Dec 2021 13:47:37: 1000000 INFO @ Sat, 11 Dec 2021 13:47:45: 6000000 INFO @ Sat, 11 Dec 2021 13:47:45: 2000000 INFO @ Sat, 11 Dec 2021 13:47:53: 7000000 INFO @ Sat, 11 Dec 2021 13:47:53: 3000000 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 @ Sat, 11 Dec 2021 13:47:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3292997/SRX3292997.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3292997/SRX3292997.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3292997/SRX3292997.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3292997/SRX3292997.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 @ Sat, 11 Dec 2021 13:47:59: #1 read tag files... INFO @ Sat, 11 Dec 2021 13:47:59: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 13:48:01: 8000000 INFO @ Sat, 11 Dec 2021 13:48:01: 4000000 INFO @ Sat, 11 Dec 2021 13:48:08: 1000000 INFO @ Sat, 11 Dec 2021 13:48:09: 9000000 INFO @ Sat, 11 Dec 2021 13:48:10: 5000000 INFO @ Sat, 11 Dec 2021 13:48:17: 2000000 INFO @ Sat, 11 Dec 2021 13:48:18: 10000000 INFO @ Sat, 11 Dec 2021 13:48:19: 6000000 INFO @ Sat, 11 Dec 2021 13:48:25: 3000000 INFO @ Sat, 11 Dec 2021 13:48:27: 11000000 INFO @ Sat, 11 Dec 2021 13:48:27: 7000000 INFO @ Sat, 11 Dec 2021 13:48:34: 4000000 INFO @ Sat, 11 Dec 2021 13:48:36: 12000000 INFO @ Sat, 11 Dec 2021 13:48:36: 8000000 INFO @ Sat, 11 Dec 2021 13:48:43: 5000000 INFO @ Sat, 11 Dec 2021 13:48:44: 9000000 INFO @ Sat, 11 Dec 2021 13:48:44: 13000000 INFO @ Sat, 11 Dec 2021 13:48:51: 6000000 INFO @ Sat, 11 Dec 2021 13:48:53: #1 tag size is determined as 101 bps INFO @ Sat, 11 Dec 2021 13:48:53: #1 tag size = 101 INFO @ Sat, 11 Dec 2021 13:48:53: #1 total tags in treatment: 13936882 INFO @ Sat, 11 Dec 2021 13:48:53: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 13:48:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 13:48:53: 10000000 INFO @ Sat, 11 Dec 2021 13:48:53: #1 tags after filtering in treatment: 13936882 INFO @ Sat, 11 Dec 2021 13:48:53: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 13:48:53: #1 finished! INFO @ Sat, 11 Dec 2021 13:48:53: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 13:48:53: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 13:48:54: #2 number of paired peaks: 3139 INFO @ Sat, 11 Dec 2021 13:48:54: start model_add_line... INFO @ Sat, 11 Dec 2021 13:48:54: start X-correlation... INFO @ Sat, 11 Dec 2021 13:48:54: end of X-cor INFO @ Sat, 11 Dec 2021 13:48:54: #2 finished! INFO @ Sat, 11 Dec 2021 13:48:54: #2 predicted fragment length is 254 bps INFO @ Sat, 11 Dec 2021 13:48:54: #2 alternative fragment length(s) may be 254 bps INFO @ Sat, 11 Dec 2021 13:48:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3292997/SRX3292997.05_model.r INFO @ Sat, 11 Dec 2021 13:48:54: #3 Call peaks... INFO @ Sat, 11 Dec 2021 13:48:54: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 13:48:59: 7000000 INFO @ Sat, 11 Dec 2021 13:49:01: 11000000 INFO @ Sat, 11 Dec 2021 13:49:07: 8000000 INFO @ Sat, 11 Dec 2021 13:49:09: 12000000 INFO @ Sat, 11 Dec 2021 13:49:15: 9000000 INFO @ Sat, 11 Dec 2021 13:49:17: 13000000 INFO @ Sat, 11 Dec 2021 13:49:22: 10000000 INFO @ Sat, 11 Dec 2021 13:49:26: #1 tag size is determined as 101 bps INFO @ Sat, 11 Dec 2021 13:49:26: #1 tag size = 101 INFO @ Sat, 11 Dec 2021 13:49:26: #1 total tags in treatment: 13936882 INFO @ Sat, 11 Dec 2021 13:49:26: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 13:49:26: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 13:49:26: #1 tags after filtering in treatment: 13936882 INFO @ Sat, 11 Dec 2021 13:49:26: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 13:49:26: #1 finished! INFO @ Sat, 11 Dec 2021 13:49:26: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 13:49:26: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 13:49:27: #2 number of paired peaks: 3139 INFO @ Sat, 11 Dec 2021 13:49:27: start model_add_line... INFO @ Sat, 11 Dec 2021 13:49:27: start X-correlation... INFO @ Sat, 11 Dec 2021 13:49:27: end of X-cor INFO @ Sat, 11 Dec 2021 13:49:27: #2 finished! INFO @ Sat, 11 Dec 2021 13:49:27: #2 predicted fragment length is 254 bps INFO @ Sat, 11 Dec 2021 13:49:27: #2 alternative fragment length(s) may be 254 bps INFO @ Sat, 11 Dec 2021 13:49:27: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3292997/SRX3292997.10_model.r INFO @ Sat, 11 Dec 2021 13:49:27: #3 Call peaks... INFO @ Sat, 11 Dec 2021 13:49:27: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 13:49:30: 11000000 INFO @ Sat, 11 Dec 2021 13:49:35: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 13:49:37: 12000000 INFO @ Sat, 11 Dec 2021 13:49:44: 13000000 INFO @ Sat, 11 Dec 2021 13:49:51: #1 tag size is determined as 101 bps INFO @ Sat, 11 Dec 2021 13:49:51: #1 tag size = 101 INFO @ Sat, 11 Dec 2021 13:49:51: #1 total tags in treatment: 13936882 INFO @ Sat, 11 Dec 2021 13:49:51: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 13:49:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 13:49:51: #1 tags after filtering in treatment: 13936882 INFO @ Sat, 11 Dec 2021 13:49:51: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 13:49:51: #1 finished! INFO @ Sat, 11 Dec 2021 13:49:51: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 13:49:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 13:49:53: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3292997/SRX3292997.05_peaks.xls INFO @ Sat, 11 Dec 2021 13:49:53: #2 number of paired peaks: 3139 INFO @ Sat, 11 Dec 2021 13:49:53: start model_add_line... INFO @ Sat, 11 Dec 2021 13:49:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3292997/SRX3292997.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 13:49:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3292997/SRX3292997.05_summits.bed INFO @ Sat, 11 Dec 2021 13:49:53: Done! INFO @ Sat, 11 Dec 2021 13:49:53: start X-correlation... INFO @ Sat, 11 Dec 2021 13:49:53: end of X-cor INFO @ Sat, 11 Dec 2021 13:49:53: #2 finished! INFO @ Sat, 11 Dec 2021 13:49:53: #2 predicted fragment length is 254 bps INFO @ Sat, 11 Dec 2021 13:49:53: #2 alternative fragment length(s) may be 254 bps INFO @ Sat, 11 Dec 2021 13:49:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX3292997/SRX3292997.20_model.r INFO @ Sat, 11 Dec 2021 13:49:53: #3 Call peaks... INFO @ Sat, 11 Dec 2021 13:49:53: #3 Pre-compute pvalue-qvalue table... pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (9387 records, 4 fields): 14 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 13:50:08: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 13:50:25: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3292997/SRX3292997.10_peaks.xls INFO @ Sat, 11 Dec 2021 13:50:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3292997/SRX3292997.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 13:50:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3292997/SRX3292997.10_summits.bed INFO @ Sat, 11 Dec 2021 13:50:25: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (7123 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 13:50:33: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 13:50:50: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX3292997/SRX3292997.20_peaks.xls INFO @ Sat, 11 Dec 2021 13:50:50: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX3292997/SRX3292997.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 13:50:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX3292997/SRX3292997.20_summits.bed INFO @ Sat, 11 Dec 2021 13:50:50: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (4931 records, 4 fields): 8 millis CompletedMACS2peakCalling