Job ID = 14168468 SRX = SRX9730752 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 27649056 spots for SRR13301830/SRR13301830.sra Written 27649056 spots for SRR13301830/SRR13301830.sra fastq に変換しました。 bowtie でマッピング中... Your job 14169622 ("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: 00:10:30 27649056 reads; of these: 27649056 (100.00%) were unpaired; of these: 678389 (2.45%) aligned 0 times 21545201 (77.92%) aligned exactly 1 time 5425466 (19.62%) aligned >1 times 97.55% overall alignment rate Time searching: 00:10:30 Overall time: 00:10:30 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] 15885730 / 26970667 = 0.5890 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 18:52:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9730752/SRX9730752.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9730752/SRX9730752.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9730752/SRX9730752.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9730752/SRX9730752.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 18:52:56: #1 read tag files... INFO @ Fri, 10 Dec 2021 18:52:56: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 18:53:03: 1000000 INFO @ Fri, 10 Dec 2021 18:53:11: 2000000 INFO @ Fri, 10 Dec 2021 18:53:19: 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 @ Fri, 10 Dec 2021 18:53:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9730752/SRX9730752.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9730752/SRX9730752.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9730752/SRX9730752.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9730752/SRX9730752.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 18:53:26: #1 read tag files... INFO @ Fri, 10 Dec 2021 18:53:26: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 18:53:27: 4000000 INFO @ Fri, 10 Dec 2021 18:53:34: 1000000 INFO @ Fri, 10 Dec 2021 18:53:36: 5000000 INFO @ Fri, 10 Dec 2021 18:53:43: 2000000 INFO @ Fri, 10 Dec 2021 18:53:44: 6000000 INFO @ Fri, 10 Dec 2021 18:53:52: 3000000 INFO @ Fri, 10 Dec 2021 18:53:53: 7000000 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 18:53:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9730752/SRX9730752.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9730752/SRX9730752.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9730752/SRX9730752.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9730752/SRX9730752.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 18:53:56: #1 read tag files... INFO @ Fri, 10 Dec 2021 18:53:56: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 18:54:01: 4000000 INFO @ Fri, 10 Dec 2021 18:54:02: 8000000 INFO @ Fri, 10 Dec 2021 18:54:05: 1000000 INFO @ Fri, 10 Dec 2021 18:54:10: 5000000 INFO @ Fri, 10 Dec 2021 18:54:11: 9000000 INFO @ Fri, 10 Dec 2021 18:54:13: 2000000 INFO @ Fri, 10 Dec 2021 18:54:19: 6000000 INFO @ Fri, 10 Dec 2021 18:54:20: 10000000 INFO @ Fri, 10 Dec 2021 18:54:22: 3000000 INFO @ Fri, 10 Dec 2021 18:54:28: 7000000 INFO @ Fri, 10 Dec 2021 18:54:29: 11000000 INFO @ Fri, 10 Dec 2021 18:54:30: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 18:54:30: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 18:54:30: #1 total tags in treatment: 11084937 INFO @ Fri, 10 Dec 2021 18:54:30: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 18:54:30: #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 18:54:30: #1 tags after filtering in treatment: 11084937 INFO @ Fri, 10 Dec 2021 18:54:30: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 18:54:30: #1 finished! INFO @ Fri, 10 Dec 2021 18:54:30: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 18:54:30: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 18:54:31: 4000000 INFO @ Fri, 10 Dec 2021 18:54:31: #2 number of paired peaks: 12374 INFO @ Fri, 10 Dec 2021 18:54:31: start model_add_line... INFO @ Fri, 10 Dec 2021 18:54:32: start X-correlation... INFO @ Fri, 10 Dec 2021 18:54:32: end of X-cor INFO @ Fri, 10 Dec 2021 18:54:32: #2 finished! INFO @ Fri, 10 Dec 2021 18:54:32: #2 predicted fragment length is 192 bps INFO @ Fri, 10 Dec 2021 18:54:32: #2 alternative fragment length(s) may be 192 bps INFO @ Fri, 10 Dec 2021 18:54:32: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9730752/SRX9730752.05_model.r INFO @ Fri, 10 Dec 2021 18:54:32: #3 Call peaks... INFO @ Fri, 10 Dec 2021 18:54:32: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 18:54:37: 8000000 INFO @ Fri, 10 Dec 2021 18:54:40: 5000000 INFO @ Fri, 10 Dec 2021 18:54:46: 9000000 INFO @ Fri, 10 Dec 2021 18:54:49: 6000000 BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 18:54:55: 10000000 INFO @ Fri, 10 Dec 2021 18:54:58: 7000000 INFO @ Fri, 10 Dec 2021 18:55:04: 11000000 INFO @ Fri, 10 Dec 2021 18:55:04: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 18:55:04: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 18:55:04: #1 total tags in treatment: 11084937 INFO @ Fri, 10 Dec 2021 18:55:04: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 18:55:04: #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 18:55:05: #1 tags after filtering in treatment: 11084937 INFO @ Fri, 10 Dec 2021 18:55:05: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 18:55:05: #1 finished! INFO @ Fri, 10 Dec 2021 18:55:05: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 18:55:05: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 18:55:06: #2 number of paired peaks: 12374 INFO @ Fri, 10 Dec 2021 18:55:06: start model_add_line... INFO @ Fri, 10 Dec 2021 18:55:06: start X-correlation... INFO @ Fri, 10 Dec 2021 18:55:06: end of X-cor INFO @ Fri, 10 Dec 2021 18:55:06: #2 finished! INFO @ Fri, 10 Dec 2021 18:55:06: #2 predicted fragment length is 192 bps INFO @ Fri, 10 Dec 2021 18:55:06: #2 alternative fragment length(s) may be 192 bps INFO @ Fri, 10 Dec 2021 18:55:06: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9730752/SRX9730752.10_model.r INFO @ Fri, 10 Dec 2021 18:55:06: #3 Call peaks... INFO @ Fri, 10 Dec 2021 18:55:06: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 18:55:07: 8000000 INFO @ Fri, 10 Dec 2021 18:55:09: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 18:55:14: 9000000 INFO @ Fri, 10 Dec 2021 18:55:22: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9730752/SRX9730752.05_peaks.xls INFO @ Fri, 10 Dec 2021 18:55:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9730752/SRX9730752.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 18:55:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9730752/SRX9730752.05_summits.bed INFO @ Fri, 10 Dec 2021 18:55:22: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (9255 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 18:55:22: 10000000 INFO @ Fri, 10 Dec 2021 18:55:30: 11000000 INFO @ Fri, 10 Dec 2021 18:55:31: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 18:55:31: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 18:55:31: #1 total tags in treatment: 11084937 INFO @ Fri, 10 Dec 2021 18:55:31: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 18:55:31: #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 18:55:31: #1 tags after filtering in treatment: 11084937 INFO @ Fri, 10 Dec 2021 18:55:31: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 18:55:31: #1 finished! INFO @ Fri, 10 Dec 2021 18:55:31: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 18:55:31: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 18:55:32: #2 number of paired peaks: 12374 INFO @ Fri, 10 Dec 2021 18:55:32: start model_add_line... INFO @ Fri, 10 Dec 2021 18:55:33: start X-correlation... INFO @ Fri, 10 Dec 2021 18:55:33: end of X-cor INFO @ Fri, 10 Dec 2021 18:55:33: #2 finished! INFO @ Fri, 10 Dec 2021 18:55:33: #2 predicted fragment length is 192 bps INFO @ Fri, 10 Dec 2021 18:55:33: #2 alternative fragment length(s) may be 192 bps INFO @ Fri, 10 Dec 2021 18:55:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9730752/SRX9730752.20_model.r INFO @ Fri, 10 Dec 2021 18:55:33: #3 Call peaks... INFO @ Fri, 10 Dec 2021 18:55:33: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 18:55:44: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 18:55:56: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9730752/SRX9730752.10_peaks.xls INFO @ Fri, 10 Dec 2021 18:55:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9730752/SRX9730752.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 18:55:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9730752/SRX9730752.10_summits.bed INFO @ Fri, 10 Dec 2021 18:55:56: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (8255 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 18:56:09: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 18:56:21: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9730752/SRX9730752.20_peaks.xls INFO @ Fri, 10 Dec 2021 18:56:21: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9730752/SRX9730752.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 18:56:21: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9730752/SRX9730752.20_summits.bed INFO @ Fri, 10 Dec 2021 18:56:21: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (7344 records, 4 fields): 8 millis CompletedMACS2peakCalling