Job ID = 14170646 SRX = SRX9434468 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 33854498 spots for SRR12982866/SRR12982866.sra Written 33854498 spots for SRR12982866/SRR12982866.sra fastq に変換しました。 bowtie でマッピング中... Your job 14171092 ("srTdm6") has been submitted Time loading reference: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:10:25 33854498 reads; of these: 33854498 (100.00%) were unpaired; of these: 689141 (2.04%) aligned 0 times 26101686 (77.10%) aligned exactly 1 time 7063671 (20.86%) aligned >1 times 97.96% overall alignment rate Time searching: 00:10:26 Overall time: 00:10:26 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 16 files... [bam_rmdupse_core] 11884618 / 33165357 = 0.3583 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 08:02:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9434468/SRX9434468.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9434468/SRX9434468.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9434468/SRX9434468.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9434468/SRX9434468.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 08:02:50: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:02:50: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:02:54: 1000000 INFO @ Sat, 11 Dec 2021 08:02:59: 2000000 INFO @ Sat, 11 Dec 2021 08:03:03: 3000000 INFO @ Sat, 11 Dec 2021 08:03:08: 4000000 INFO @ Sat, 11 Dec 2021 08:03:12: 5000000 INFO @ Sat, 11 Dec 2021 08:03:16: 6000000 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 08:03:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9434468/SRX9434468.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9434468/SRX9434468.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9434468/SRX9434468.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9434468/SRX9434468.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 08:03:20: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:03:20: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:03:21: 7000000 INFO @ Sat, 11 Dec 2021 08:03:25: 1000000 INFO @ Sat, 11 Dec 2021 08:03:25: 8000000 INFO @ Sat, 11 Dec 2021 08:03:30: 9000000 INFO @ Sat, 11 Dec 2021 08:03:30: 2000000 INFO @ Sat, 11 Dec 2021 08:03:34: 10000000 INFO @ Sat, 11 Dec 2021 08:03:36: 3000000 INFO @ Sat, 11 Dec 2021 08:03:39: 11000000 INFO @ Sat, 11 Dec 2021 08:03:41: 4000000 INFO @ Sat, 11 Dec 2021 08:03:43: 12000000 INFO @ Sat, 11 Dec 2021 08:03:46: 5000000 INFO @ Sat, 11 Dec 2021 08:03:48: 13000000 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 08:03:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9434468/SRX9434468.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9434468/SRX9434468.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9434468/SRX9434468.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9434468/SRX9434468.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 08:03:50: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:03:50: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:03:51: 6000000 INFO @ Sat, 11 Dec 2021 08:03:52: 14000000 INFO @ Sat, 11 Dec 2021 08:03:55: 1000000 INFO @ Sat, 11 Dec 2021 08:03:57: 7000000 INFO @ Sat, 11 Dec 2021 08:03:57: 15000000 INFO @ Sat, 11 Dec 2021 08:04:01: 2000000 INFO @ Sat, 11 Dec 2021 08:04:02: 16000000 INFO @ Sat, 11 Dec 2021 08:04:02: 8000000 INFO @ Sat, 11 Dec 2021 08:04:06: 3000000 INFO @ Sat, 11 Dec 2021 08:04:06: 17000000 INFO @ Sat, 11 Dec 2021 08:04:07: 9000000 INFO @ Sat, 11 Dec 2021 08:04:11: 18000000 INFO @ Sat, 11 Dec 2021 08:04:11: 4000000 INFO @ Sat, 11 Dec 2021 08:04:12: 10000000 INFO @ Sat, 11 Dec 2021 08:04:15: 19000000 INFO @ Sat, 11 Dec 2021 08:04:16: 5000000 INFO @ Sat, 11 Dec 2021 08:04:18: 11000000 INFO @ Sat, 11 Dec 2021 08:04:20: 20000000 INFO @ Sat, 11 Dec 2021 08:04:21: 6000000 INFO @ Sat, 11 Dec 2021 08:04:23: 12000000 INFO @ Sat, 11 Dec 2021 08:04:24: 21000000 INFO @ Sat, 11 Dec 2021 08:04:26: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 08:04:26: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 08:04:26: #1 total tags in treatment: 21280739 INFO @ Sat, 11 Dec 2021 08:04:26: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:04:26: #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 08:04:26: #1 tags after filtering in treatment: 21280739 INFO @ Sat, 11 Dec 2021 08:04:26: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 08:04:26: #1 finished! INFO @ Sat, 11 Dec 2021 08:04:26: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:04:26: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 08:04:27: 7000000 INFO @ Sat, 11 Dec 2021 08:04:28: 13000000 INFO @ Sat, 11 Dec 2021 08:04:28: #2 number of paired peaks: 7667 INFO @ Sat, 11 Dec 2021 08:04:28: start model_add_line... INFO @ Sat, 11 Dec 2021 08:04:28: start X-correlation... INFO @ Sat, 11 Dec 2021 08:04:28: end of X-cor INFO @ Sat, 11 Dec 2021 08:04:28: #2 finished! INFO @ Sat, 11 Dec 2021 08:04:28: #2 predicted fragment length is 131 bps INFO @ Sat, 11 Dec 2021 08:04:28: #2 alternative fragment length(s) may be 131 bps INFO @ Sat, 11 Dec 2021 08:04:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9434468/SRX9434468.05_model.r INFO @ Sat, 11 Dec 2021 08:04:28: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:04:28: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 08:04:32: 8000000 INFO @ Sat, 11 Dec 2021 08:04:33: 14000000 INFO @ Sat, 11 Dec 2021 08:04:37: 9000000 INFO @ Sat, 11 Dec 2021 08:04:38: 15000000 INFO @ Sat, 11 Dec 2021 08:04:42: 10000000 INFO @ Sat, 11 Dec 2021 08:04:43: 16000000 INFO @ Sat, 11 Dec 2021 08:04:47: 11000000 INFO @ Sat, 11 Dec 2021 08:04:49: 17000000 INFO @ Sat, 11 Dec 2021 08:04:52: 12000000 INFO @ Sat, 11 Dec 2021 08:04:54: 18000000 INFO @ Sat, 11 Dec 2021 08:04:57: 13000000 INFO @ Sat, 11 Dec 2021 08:04:59: 19000000 INFO @ Sat, 11 Dec 2021 08:05:03: 14000000 INFO @ Sat, 11 Dec 2021 08:05:04: 20000000 INFO @ Sat, 11 Dec 2021 08:05:08: 15000000 INFO @ Sat, 11 Dec 2021 08:05:09: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 08:05:11: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 08:05:11: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 08:05:11: #1 total tags in treatment: 21280739 INFO @ Sat, 11 Dec 2021 08:05:11: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:05:11: #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 08:05:11: #1 tags after filtering in treatment: 21280739 INFO @ Sat, 11 Dec 2021 08:05:11: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 08:05:11: #1 finished! INFO @ Sat, 11 Dec 2021 08:05:11: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:05:11: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 08:05:13: 16000000 INFO @ Sat, 11 Dec 2021 08:05:13: #2 number of paired peaks: 7667 INFO @ Sat, 11 Dec 2021 08:05:13: start model_add_line... INFO @ Sat, 11 Dec 2021 08:05:13: start X-correlation... INFO @ Sat, 11 Dec 2021 08:05:13: end of X-cor INFO @ Sat, 11 Dec 2021 08:05:13: #2 finished! INFO @ Sat, 11 Dec 2021 08:05:13: #2 predicted fragment length is 131 bps INFO @ Sat, 11 Dec 2021 08:05:13: #2 alternative fragment length(s) may be 131 bps INFO @ Sat, 11 Dec 2021 08:05:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9434468/SRX9434468.10_model.r INFO @ Sat, 11 Dec 2021 08:05:13: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:05:13: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 08:05:13: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 08:05:18: 17000000 INFO @ Sat, 11 Dec 2021 08:05:23: 18000000 INFO @ Sat, 11 Dec 2021 08:05:28: 19000000 INFO @ Sat, 11 Dec 2021 08:05:33: 20000000 INFO @ Sat, 11 Dec 2021 08:05:35: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9434468/SRX9434468.05_peaks.xls INFO @ Sat, 11 Dec 2021 08:05:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9434468/SRX9434468.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:05:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9434468/SRX9434468.05_summits.bed INFO @ Sat, 11 Dec 2021 08:05:35: Done! pass1 - making usageList (14 chroms): 3 millis pass2 - checking and writing primary data (11899 records, 4 fields): 17 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 08:05:38: 21000000 INFO @ Sat, 11 Dec 2021 08:05:39: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 08:05:39: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 08:05:39: #1 total tags in treatment: 21280739 INFO @ Sat, 11 Dec 2021 08:05:39: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:05:39: #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 08:05:40: #1 tags after filtering in treatment: 21280739 INFO @ Sat, 11 Dec 2021 08:05:40: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 08:05:40: #1 finished! INFO @ Sat, 11 Dec 2021 08:05:40: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:05:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 08:05:42: #2 number of paired peaks: 7667 INFO @ Sat, 11 Dec 2021 08:05:42: start model_add_line... INFO @ Sat, 11 Dec 2021 08:05:42: start X-correlation... INFO @ Sat, 11 Dec 2021 08:05:42: end of X-cor INFO @ Sat, 11 Dec 2021 08:05:42: #2 finished! INFO @ Sat, 11 Dec 2021 08:05:42: #2 predicted fragment length is 131 bps INFO @ Sat, 11 Dec 2021 08:05:42: #2 alternative fragment length(s) may be 131 bps INFO @ Sat, 11 Dec 2021 08:05:42: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9434468/SRX9434468.20_model.r INFO @ Sat, 11 Dec 2021 08:05:42: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:05:42: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 08:05:58: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 08:06:19: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9434468/SRX9434468.10_peaks.xls INFO @ Sat, 11 Dec 2021 08:06:20: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9434468/SRX9434468.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:06:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9434468/SRX9434468.10_summits.bed INFO @ Sat, 11 Dec 2021 08:06:20: Done! pass1 - making usageList (13 chroms): 2 millis pass2 - checking and writing primary data (9921 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 08:06:27: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 08:06:48: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9434468/SRX9434468.20_peaks.xls INFO @ Sat, 11 Dec 2021 08:06:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9434468/SRX9434468.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:06:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9434468/SRX9434468.20_summits.bed INFO @ Sat, 11 Dec 2021 08:06:48: Done! pass1 - making usageList (13 chroms): 2 millis pass2 - checking and writing primary data (7733 records, 4 fields): 8 millis CompletedMACS2peakCalling