Job ID = 14168091 SRX = SRX8723973 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 25678848 spots for SRR12213377/SRR12213377.sra Written 25678848 spots for SRR12213377/SRR12213377.sra fastq に変換しました。 bowtie でマッピング中... Your job 14168861 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:01 Multiseed full-index search: 00:07:15 25678848 reads; of these: 25678848 (100.00%) were unpaired; of these: 1360664 (5.30%) aligned 0 times 17204298 (67.00%) aligned exactly 1 time 7113886 (27.70%) aligned >1 times 94.70% overall alignment rate Time searching: 00:07:16 Overall time: 00:07:16 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] 10903208 / 24318184 = 0.4484 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 15:28:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8723973/SRX8723973.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8723973/SRX8723973.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8723973/SRX8723973.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8723973/SRX8723973.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 15:28:32: #1 read tag files... INFO @ Fri, 10 Dec 2021 15:28:32: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 15:28:38: 1000000 INFO @ Fri, 10 Dec 2021 15:28:44: 2000000 INFO @ Fri, 10 Dec 2021 15:28:50: 3000000 INFO @ Fri, 10 Dec 2021 15:28:55: 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 15:29:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8723973/SRX8723973.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8723973/SRX8723973.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8723973/SRX8723973.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8723973/SRX8723973.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 15:29:01: #1 read tag files... INFO @ Fri, 10 Dec 2021 15:29:01: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 15:29:01: 5000000 INFO @ Fri, 10 Dec 2021 15:29:07: 1000000 INFO @ Fri, 10 Dec 2021 15:29:08: 6000000 INFO @ Fri, 10 Dec 2021 15:29:14: 2000000 INFO @ Fri, 10 Dec 2021 15:29:15: 7000000 INFO @ Fri, 10 Dec 2021 15:29:21: 3000000 INFO @ Fri, 10 Dec 2021 15:29:21: 8000000 INFO @ Fri, 10 Dec 2021 15:29:27: 4000000 INFO @ Fri, 10 Dec 2021 15:29:28: 9000000 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 15:29:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX8723973/SRX8723973.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX8723973/SRX8723973.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX8723973/SRX8723973.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX8723973/SRX8723973.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 15:29:31: #1 read tag files... INFO @ Fri, 10 Dec 2021 15:29:31: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 15:29:34: 5000000 INFO @ Fri, 10 Dec 2021 15:29:35: 10000000 INFO @ Fri, 10 Dec 2021 15:29:37: 1000000 INFO @ Fri, 10 Dec 2021 15:29:41: 6000000 INFO @ Fri, 10 Dec 2021 15:29:41: 11000000 INFO @ Fri, 10 Dec 2021 15:29:43: 2000000 INFO @ Fri, 10 Dec 2021 15:29:47: 7000000 INFO @ Fri, 10 Dec 2021 15:29:48: 12000000 INFO @ Fri, 10 Dec 2021 15:29:49: 3000000 INFO @ Fri, 10 Dec 2021 15:29:54: 8000000 INFO @ Fri, 10 Dec 2021 15:29:55: 13000000 INFO @ Fri, 10 Dec 2021 15:29:56: 4000000 INFO @ Fri, 10 Dec 2021 15:29:58: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 15:29:58: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 15:29:58: #1 total tags in treatment: 13414976 INFO @ Fri, 10 Dec 2021 15:29:58: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 15:29:58: #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 15:29:58: #1 tags after filtering in treatment: 13414976 INFO @ Fri, 10 Dec 2021 15:29:58: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 15:29:58: #1 finished! INFO @ Fri, 10 Dec 2021 15:29:58: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 15:29:58: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 15:29:59: #2 number of paired peaks: 1565 INFO @ Fri, 10 Dec 2021 15:29:59: start model_add_line... INFO @ Fri, 10 Dec 2021 15:29:59: start X-correlation... INFO @ Fri, 10 Dec 2021 15:29:59: end of X-cor INFO @ Fri, 10 Dec 2021 15:29:59: #2 finished! INFO @ Fri, 10 Dec 2021 15:29:59: #2 predicted fragment length is 213 bps INFO @ Fri, 10 Dec 2021 15:29:59: #2 alternative fragment length(s) may be 213 bps INFO @ Fri, 10 Dec 2021 15:29:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8723973/SRX8723973.05_model.r INFO @ Fri, 10 Dec 2021 15:29:59: #3 Call peaks... INFO @ Fri, 10 Dec 2021 15:29:59: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 15:30:00: 9000000 INFO @ Fri, 10 Dec 2021 15:30:02: 5000000 INFO @ Fri, 10 Dec 2021 15:30:06: 10000000 INFO @ Fri, 10 Dec 2021 15:30:08: 6000000 INFO @ Fri, 10 Dec 2021 15:30:12: 11000000 INFO @ Fri, 10 Dec 2021 15:30:14: 7000000 INFO @ Fri, 10 Dec 2021 15:30:18: 12000000 INFO @ Fri, 10 Dec 2021 15:30:21: 8000000 INFO @ Fri, 10 Dec 2021 15:30:24: 13000000 INFO @ Fri, 10 Dec 2021 15:30:27: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 15:30:27: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 15:30:27: #1 total tags in treatment: 13414976 INFO @ Fri, 10 Dec 2021 15:30:27: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 15:30:27: #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 15:30:27: #1 tags after filtering in treatment: 13414976 INFO @ Fri, 10 Dec 2021 15:30:27: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 15:30:27: #1 finished! INFO @ Fri, 10 Dec 2021 15:30:27: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 15:30:27: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 15:30:27: 9000000 INFO @ Fri, 10 Dec 2021 15:30:28: #2 number of paired peaks: 1565 INFO @ Fri, 10 Dec 2021 15:30:28: start model_add_line... INFO @ Fri, 10 Dec 2021 15:30:28: start X-correlation... INFO @ Fri, 10 Dec 2021 15:30:28: end of X-cor INFO @ Fri, 10 Dec 2021 15:30:28: #2 finished! INFO @ Fri, 10 Dec 2021 15:30:28: #2 predicted fragment length is 213 bps INFO @ Fri, 10 Dec 2021 15:30:28: #2 alternative fragment length(s) may be 213 bps INFO @ Fri, 10 Dec 2021 15:30:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8723973/SRX8723973.10_model.r INFO @ Fri, 10 Dec 2021 15:30:28: #3 Call peaks... INFO @ Fri, 10 Dec 2021 15:30:28: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 15:30:34: 10000000 INFO @ Fri, 10 Dec 2021 15:30:34: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 15:30:41: 11000000 INFO @ Fri, 10 Dec 2021 15:30:47: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 15:30:51: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8723973/SRX8723973.05_peaks.xls INFO @ Fri, 10 Dec 2021 15:30:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8723973/SRX8723973.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 15:30:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8723973/SRX8723973.05_summits.bed INFO @ Fri, 10 Dec 2021 15:30:51: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (9156 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 15:30:54: 13000000 INFO @ Fri, 10 Dec 2021 15:30:56: #1 tag size is determined as 50 bps INFO @ Fri, 10 Dec 2021 15:30:56: #1 tag size = 50 INFO @ Fri, 10 Dec 2021 15:30:56: #1 total tags in treatment: 13414976 INFO @ Fri, 10 Dec 2021 15:30:56: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 15:30:56: #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 15:30:56: #1 tags after filtering in treatment: 13414976 INFO @ Fri, 10 Dec 2021 15:30:56: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 15:30:56: #1 finished! INFO @ Fri, 10 Dec 2021 15:30:56: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 15:30:57: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 15:30:58: #2 number of paired peaks: 1565 INFO @ Fri, 10 Dec 2021 15:30:58: start model_add_line... INFO @ Fri, 10 Dec 2021 15:30:58: start X-correlation... INFO @ Fri, 10 Dec 2021 15:30:58: end of X-cor INFO @ Fri, 10 Dec 2021 15:30:58: #2 finished! INFO @ Fri, 10 Dec 2021 15:30:58: #2 predicted fragment length is 213 bps INFO @ Fri, 10 Dec 2021 15:30:58: #2 alternative fragment length(s) may be 213 bps INFO @ Fri, 10 Dec 2021 15:30:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX8723973/SRX8723973.20_model.r INFO @ Fri, 10 Dec 2021 15:30:58: #3 Call peaks... INFO @ Fri, 10 Dec 2021 15:30:58: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 15:31:03: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 15:31:20: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8723973/SRX8723973.10_peaks.xls INFO @ Fri, 10 Dec 2021 15:31:20: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8723973/SRX8723973.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 15:31:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8723973/SRX8723973.10_summits.bed INFO @ Fri, 10 Dec 2021 15:31:20: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (5949 records, 4 fields): 9 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 15:31:33: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 15:31:50: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX8723973/SRX8723973.20_peaks.xls INFO @ Fri, 10 Dec 2021 15:31:50: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX8723973/SRX8723973.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 15:31:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX8723973/SRX8723973.20_summits.bed INFO @ Fri, 10 Dec 2021 15:31:50: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (2766 records, 4 fields): 6 millis CompletedMACS2peakCalling