Job ID = 14172401 SRX = SRX7434123 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 22361233 spots for SRR10759889/SRR10759889.sra Written 22361233 spots for SRR10759889/SRR10759889.sra fastq に変換しました。 bowtie でマッピング中... Your job 14172850 ("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: 00:06:07 22361233 reads; of these: 22361233 (100.00%) were unpaired; of these: 2829847 (12.66%) aligned 0 times 15703098 (70.22%) aligned exactly 1 time 3828288 (17.12%) aligned >1 times 87.34% overall alignment rate Time searching: 00:06:07 Overall time: 00:06:07 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 8 files... [bam_rmdupse_core] 7259329 / 19531386 = 0.3717 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 15:28:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434123/SRX7434123.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434123/SRX7434123.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434123/SRX7434123.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434123/SRX7434123.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 15:28:00: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:28:00: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:28:05: 1000000 INFO @ Sat, 11 Dec 2021 15:28:11: 2000000 INFO @ Sat, 11 Dec 2021 15:28:17: 3000000 INFO @ Sat, 11 Dec 2021 15:28:22: 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 @ Sat, 11 Dec 2021 15:28:28: 5000000 INFO @ Sat, 11 Dec 2021 15:28:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434123/SRX7434123.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434123/SRX7434123.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434123/SRX7434123.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434123/SRX7434123.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 15:28:30: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:28:30: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:28:34: 6000000 INFO @ Sat, 11 Dec 2021 15:28:35: 1000000 INFO @ Sat, 11 Dec 2021 15:28:40: 7000000 INFO @ Sat, 11 Dec 2021 15:28:41: 2000000 INFO @ Sat, 11 Dec 2021 15:28:45: 8000000 INFO @ Sat, 11 Dec 2021 15:28:47: 3000000 INFO @ Sat, 11 Dec 2021 15:28:51: 9000000 INFO @ Sat, 11 Dec 2021 15:28:53: 4000000 INFO @ Sat, 11 Dec 2021 15:28:57: 10000000 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 15:28:58: 5000000 INFO @ Sat, 11 Dec 2021 15:29:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX7434123/SRX7434123.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX7434123/SRX7434123.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX7434123/SRX7434123.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX7434123/SRX7434123.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 15:29:00: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:29:00: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:29:02: 11000000 INFO @ Sat, 11 Dec 2021 15:29:04: 6000000 INFO @ Sat, 11 Dec 2021 15:29:05: 1000000 INFO @ Sat, 11 Dec 2021 15:29:08: 12000000 INFO @ Sat, 11 Dec 2021 15:29:10: 7000000 INFO @ Sat, 11 Dec 2021 15:29:10: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:29:10: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:29:10: #1 total tags in treatment: 12272057 INFO @ Sat, 11 Dec 2021 15:29:10: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:29:10: #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 15:29:10: #1 tags after filtering in treatment: 12272057 INFO @ Sat, 11 Dec 2021 15:29:10: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:29:10: #1 finished! INFO @ Sat, 11 Dec 2021 15:29:10: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:29:10: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:29:10: 2000000 INFO @ Sat, 11 Dec 2021 15:29:11: #2 number of paired peaks: 3847 INFO @ Sat, 11 Dec 2021 15:29:11: start model_add_line... INFO @ Sat, 11 Dec 2021 15:29:11: start X-correlation... INFO @ Sat, 11 Dec 2021 15:29:11: end of X-cor INFO @ Sat, 11 Dec 2021 15:29:11: #2 finished! INFO @ Sat, 11 Dec 2021 15:29:11: #2 predicted fragment length is 283 bps INFO @ Sat, 11 Dec 2021 15:29:11: #2 alternative fragment length(s) may be 283 bps INFO @ Sat, 11 Dec 2021 15:29:11: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434123/SRX7434123.05_model.r INFO @ Sat, 11 Dec 2021 15:29:11: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:29:11: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:29:15: 3000000 INFO @ Sat, 11 Dec 2021 15:29:15: 8000000 INFO @ Sat, 11 Dec 2021 15:29:20: 4000000 INFO @ Sat, 11 Dec 2021 15:29:21: 9000000 INFO @ Sat, 11 Dec 2021 15:29:25: 5000000 INFO @ Sat, 11 Dec 2021 15:29:27: 10000000 INFO @ Sat, 11 Dec 2021 15:29:30: 6000000 INFO @ Sat, 11 Dec 2021 15:29:32: 11000000 INFO @ Sat, 11 Dec 2021 15:29:35: 7000000 INFO @ Sat, 11 Dec 2021 15:29:38: 12000000 INFO @ Sat, 11 Dec 2021 15:29:40: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:29:40: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:29:40: #1 total tags in treatment: 12272057 INFO @ Sat, 11 Dec 2021 15:29:40: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:29:40: #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 15:29:40: #1 tags after filtering in treatment: 12272057 INFO @ Sat, 11 Dec 2021 15:29:40: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:29:40: #1 finished! INFO @ Sat, 11 Dec 2021 15:29:40: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:29:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:29:40: 8000000 INFO @ Sat, 11 Dec 2021 15:29:41: #2 number of paired peaks: 3847 INFO @ Sat, 11 Dec 2021 15:29:41: start model_add_line... INFO @ Sat, 11 Dec 2021 15:29:41: start X-correlation... INFO @ Sat, 11 Dec 2021 15:29:41: end of X-cor INFO @ Sat, 11 Dec 2021 15:29:41: #2 finished! INFO @ Sat, 11 Dec 2021 15:29:41: #2 predicted fragment length is 283 bps INFO @ Sat, 11 Dec 2021 15:29:41: #2 alternative fragment length(s) may be 283 bps INFO @ Sat, 11 Dec 2021 15:29:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434123/SRX7434123.10_model.r INFO @ Sat, 11 Dec 2021 15:29:41: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:29:41: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:29:44: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:29:45: 9000000 INFO @ Sat, 11 Dec 2021 15:29:50: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 15:29:55: 11000000 INFO @ Sat, 11 Dec 2021 15:29:57: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434123/SRX7434123.05_peaks.xls INFO @ Sat, 11 Dec 2021 15:29:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434123/SRX7434123.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:29:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434123/SRX7434123.05_summits.bed INFO @ Sat, 11 Dec 2021 15:29:57: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (6080 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:30:00: 12000000 INFO @ Sat, 11 Dec 2021 15:30:01: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 15:30:01: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 15:30:01: #1 total tags in treatment: 12272057 INFO @ Sat, 11 Dec 2021 15:30:01: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 15:30:01: #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 15:30:01: #1 tags after filtering in treatment: 12272057 INFO @ Sat, 11 Dec 2021 15:30:01: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 15:30:01: #1 finished! INFO @ Sat, 11 Dec 2021 15:30:01: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 15:30:01: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 15:30:02: #2 number of paired peaks: 3847 INFO @ Sat, 11 Dec 2021 15:30:02: start model_add_line... INFO @ Sat, 11 Dec 2021 15:30:02: start X-correlation... INFO @ Sat, 11 Dec 2021 15:30:02: end of X-cor INFO @ Sat, 11 Dec 2021 15:30:02: #2 finished! INFO @ Sat, 11 Dec 2021 15:30:02: #2 predicted fragment length is 283 bps INFO @ Sat, 11 Dec 2021 15:30:02: #2 alternative fragment length(s) may be 283 bps INFO @ Sat, 11 Dec 2021 15:30:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX7434123/SRX7434123.20_model.r INFO @ Sat, 11 Dec 2021 15:30:02: #3 Call peaks... INFO @ Sat, 11 Dec 2021 15:30:02: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 15:30:14: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 15:30:28: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434123/SRX7434123.10_peaks.xls INFO @ Sat, 11 Dec 2021 15:30:28: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434123/SRX7434123.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:30:28: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434123/SRX7434123.10_summits.bed INFO @ Sat, 11 Dec 2021 15:30:28: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (5061 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 15:30:35: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 15:30:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX7434123/SRX7434123.20_peaks.xls INFO @ Sat, 11 Dec 2021 15:30:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX7434123/SRX7434123.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 15:30:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX7434123/SRX7434123.20_summits.bed INFO @ Sat, 11 Dec 2021 15:30:49: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (4129 records, 4 fields): 6 millis CompletedMACS2peakCalling