Job ID = 16439147 SRX = SRX15206430 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:06:27 18949150 reads; of these: 18949150 (100.00%) were unpaired; of these: 1193561 (6.30%) aligned 0 times 9225165 (48.68%) aligned exactly 1 time 8530424 (45.02%) aligned >1 times 93.70% overall alignment rate Time searching: 00:06:27 Overall time: 00:06:27 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 8834197 / 17755589 = 0.4975 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/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 14:47:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX15206430/SRX15206430.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX15206430/SRX15206430.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX15206430/SRX15206430.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX15206430/SRX15206430.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 @ Tue, 02 Aug 2022 14:47:16: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:47:16: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 14:47:22: 1000000 INFO @ Tue, 02 Aug 2022 14:47:28: 2000000 INFO @ Tue, 02 Aug 2022 14:47:34: 3000000 INFO @ Tue, 02 Aug 2022 14:47:40: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 14:47:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX15206430/SRX15206430.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX15206430/SRX15206430.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX15206430/SRX15206430.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX15206430/SRX15206430.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 @ Tue, 02 Aug 2022 14:47:45: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:47:45: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 14:47:45: 5000000 INFO @ Tue, 02 Aug 2022 14:47:51: 1000000 INFO @ Tue, 02 Aug 2022 14:47:51: 6000000 INFO @ Tue, 02 Aug 2022 14:47:56: 2000000 INFO @ Tue, 02 Aug 2022 14:47:58: 7000000 INFO @ Tue, 02 Aug 2022 14:48:02: 3000000 INFO @ Tue, 02 Aug 2022 14:48:04: 8000000 INFO @ Tue, 02 Aug 2022 14:48:07: 4000000 INFO @ Tue, 02 Aug 2022 14:48:10: #1 tag size is determined as 74 bps INFO @ Tue, 02 Aug 2022 14:48:10: #1 tag size = 74 INFO @ Tue, 02 Aug 2022 14:48:10: #1 total tags in treatment: 8921392 INFO @ Tue, 02 Aug 2022 14:48:10: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 14:48:10: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 14:48:10: #1 tags after filtering in treatment: 8921222 INFO @ Tue, 02 Aug 2022 14:48:10: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 14:48:10: #1 finished! INFO @ Tue, 02 Aug 2022 14:48:10: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 14:48:10: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 14:48:11: #2 number of paired peaks: 7388 INFO @ Tue, 02 Aug 2022 14:48:11: start model_add_line... INFO @ Tue, 02 Aug 2022 14:48:11: start X-correlation... INFO @ Tue, 02 Aug 2022 14:48:12: end of X-cor INFO @ Tue, 02 Aug 2022 14:48:12: #2 finished! INFO @ Tue, 02 Aug 2022 14:48:12: #2 predicted fragment length is 184 bps INFO @ Tue, 02 Aug 2022 14:48:12: #2 alternative fragment length(s) may be 184 bps INFO @ Tue, 02 Aug 2022 14:48:12: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX15206430/SRX15206430.05_model.r INFO @ Tue, 02 Aug 2022 14:48:12: #3 Call peaks... INFO @ Tue, 02 Aug 2022 14:48:12: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 14:48:12: 5000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 14:48:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX15206430/SRX15206430.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX15206430/SRX15206430.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX15206430/SRX15206430.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX15206430/SRX15206430.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 @ Tue, 02 Aug 2022 14:48:15: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:48:15: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 14:48:17: 6000000 INFO @ Tue, 02 Aug 2022 14:48:21: 1000000 INFO @ Tue, 02 Aug 2022 14:48:23: 7000000 INFO @ Tue, 02 Aug 2022 14:48:26: 2000000 INFO @ Tue, 02 Aug 2022 14:48:28: 8000000 INFO @ Tue, 02 Aug 2022 14:48:31: 3000000 INFO @ Tue, 02 Aug 2022 14:48:34: #1 tag size is determined as 74 bps INFO @ Tue, 02 Aug 2022 14:48:34: #1 tag size = 74 INFO @ Tue, 02 Aug 2022 14:48:34: #1 total tags in treatment: 8921392 INFO @ Tue, 02 Aug 2022 14:48:34: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 14:48:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 14:48:34: #1 tags after filtering in treatment: 8921222 INFO @ Tue, 02 Aug 2022 14:48:34: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 14:48:34: #1 finished! INFO @ Tue, 02 Aug 2022 14:48:34: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 14:48:34: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 14:48:35: #2 number of paired peaks: 7388 INFO @ Tue, 02 Aug 2022 14:48:35: start model_add_line... INFO @ Tue, 02 Aug 2022 14:48:35: start X-correlation... INFO @ Tue, 02 Aug 2022 14:48:35: end of X-cor INFO @ Tue, 02 Aug 2022 14:48:35: #2 finished! INFO @ Tue, 02 Aug 2022 14:48:35: #2 predicted fragment length is 184 bps INFO @ Tue, 02 Aug 2022 14:48:35: #2 alternative fragment length(s) may be 184 bps INFO @ Tue, 02 Aug 2022 14:48:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX15206430/SRX15206430.10_model.r INFO @ Tue, 02 Aug 2022 14:48:35: #3 Call peaks... INFO @ Tue, 02 Aug 2022 14:48:35: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 14:48:37: 4000000 INFO @ Tue, 02 Aug 2022 14:48:42: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 14:48:42: 5000000 INFO @ Tue, 02 Aug 2022 14:48:47: 6000000 INFO @ Tue, 02 Aug 2022 14:48:51: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX15206430/SRX15206430.05_peaks.xls INFO @ Tue, 02 Aug 2022 14:48:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX15206430/SRX15206430.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 14:48:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX15206430/SRX15206430.05_summits.bed INFO @ Tue, 02 Aug 2022 14:48:51: Done! BedGraph に変換しました。 BigWig に変換中... pass1 - making usageList (567 chroms): 3 millis pass2 - checking and writing primary data (8347 records, 4 fields): 47 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 14:48:52: 7000000 INFO @ Tue, 02 Aug 2022 14:48:57: 8000000 INFO @ Tue, 02 Aug 2022 14:49:02: #1 tag size is determined as 74 bps INFO @ Tue, 02 Aug 2022 14:49:02: #1 tag size = 74 INFO @ Tue, 02 Aug 2022 14:49:02: #1 total tags in treatment: 8921392 INFO @ Tue, 02 Aug 2022 14:49:02: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 14:49:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 14:49:02: #1 tags after filtering in treatment: 8921222 INFO @ Tue, 02 Aug 2022 14:49:02: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 14:49:02: #1 finished! INFO @ Tue, 02 Aug 2022 14:49:02: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 14:49:02: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 14:49:04: #2 number of paired peaks: 7388 INFO @ Tue, 02 Aug 2022 14:49:04: start model_add_line... INFO @ Tue, 02 Aug 2022 14:49:04: start X-correlation... INFO @ Tue, 02 Aug 2022 14:49:04: end of X-cor INFO @ Tue, 02 Aug 2022 14:49:04: #2 finished! INFO @ Tue, 02 Aug 2022 14:49:04: #2 predicted fragment length is 184 bps INFO @ Tue, 02 Aug 2022 14:49:04: #2 alternative fragment length(s) may be 184 bps INFO @ Tue, 02 Aug 2022 14:49:04: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX15206430/SRX15206430.20_model.r INFO @ Tue, 02 Aug 2022 14:49:04: #3 Call peaks... INFO @ Tue, 02 Aug 2022 14:49:04: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 14:49:04: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 14:49:14: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX15206430/SRX15206430.10_peaks.xls INFO @ Tue, 02 Aug 2022 14:49:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX15206430/SRX15206430.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 14:49:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX15206430/SRX15206430.10_summits.bed INFO @ Tue, 02 Aug 2022 14:49:14: Done! pass1 - making usageList (502 chroms): 2 millis pass2 - checking and writing primary data (5882 records, 4 fields): 38 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 14:49:32: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 14:49:42: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX15206430/SRX15206430.20_peaks.xls INFO @ Tue, 02 Aug 2022 14:49:42: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX15206430/SRX15206430.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 14:49:42: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX15206430/SRX15206430.20_summits.bed INFO @ Tue, 02 Aug 2022 14:49:42: Done! pass1 - making usageList (427 chroms): 1 millis pass2 - checking and writing primary data (3604 records, 4 fields): 43 millis CompletedMACS2peakCalling