Job ID = 16436816 SRX = SRX11638457 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: 00:05:10 21059179 reads; of these: 21059179 (100.00%) were unpaired; of these: 2470226 (11.73%) aligned 0 times 16135657 (76.62%) aligned exactly 1 time 2453296 (11.65%) aligned >1 times 88.27% overall alignment rate Time searching: 00:05:10 Overall time: 00:05:10 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] 5458567 / 18588953 = 0.2936 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 12:04:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX11638457/SRX11638457.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX11638457/SRX11638457.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX11638457/SRX11638457.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX11638457/SRX11638457.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 12:04:53: #1 read tag files... INFO @ Tue, 02 Aug 2022 12:04:53: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 12:04:58: 1000000 INFO @ Tue, 02 Aug 2022 12:05:03: 2000000 INFO @ Tue, 02 Aug 2022 12:05:08: 3000000 INFO @ Tue, 02 Aug 2022 12:05:13: 4000000 INFO @ Tue, 02 Aug 2022 12:05:18: 5000000 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 12:05:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX11638457/SRX11638457.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX11638457/SRX11638457.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX11638457/SRX11638457.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX11638457/SRX11638457.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 12:05:22: #1 read tag files... INFO @ Tue, 02 Aug 2022 12:05:22: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 12:05:23: 6000000 INFO @ Tue, 02 Aug 2022 12:05:28: 1000000 INFO @ Tue, 02 Aug 2022 12:05:29: 7000000 INFO @ Tue, 02 Aug 2022 12:05:33: 2000000 INFO @ Tue, 02 Aug 2022 12:05:34: 8000000 INFO @ Tue, 02 Aug 2022 12:05:39: 9000000 INFO @ Tue, 02 Aug 2022 12:05:39: 3000000 INFO @ Tue, 02 Aug 2022 12:05:44: 10000000 INFO @ Tue, 02 Aug 2022 12:05:45: 4000000 INFO @ Tue, 02 Aug 2022 12:05:49: 11000000 INFO @ Tue, 02 Aug 2022 12:05:50: 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 12:05:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX11638457/SRX11638457.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX11638457/SRX11638457.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX11638457/SRX11638457.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX11638457/SRX11638457.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 12:05:52: #1 read tag files... INFO @ Tue, 02 Aug 2022 12:05:52: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 12:05:55: 12000000 INFO @ Tue, 02 Aug 2022 12:05:56: 6000000 INFO @ Tue, 02 Aug 2022 12:05:57: 1000000 INFO @ Tue, 02 Aug 2022 12:06:00: 13000000 INFO @ Tue, 02 Aug 2022 12:06:01: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 12:06:01: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 12:06:01: #1 total tags in treatment: 13130386 INFO @ Tue, 02 Aug 2022 12:06:01: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 12:06:01: #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 12:06:01: 7000000 INFO @ Tue, 02 Aug 2022 12:06:01: #1 tags after filtering in treatment: 13130314 INFO @ Tue, 02 Aug 2022 12:06:01: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 12:06:01: #1 finished! INFO @ Tue, 02 Aug 2022 12:06:01: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 12:06:01: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 12:06:02: #2 number of paired peaks: 1551 INFO @ Tue, 02 Aug 2022 12:06:02: start model_add_line... INFO @ Tue, 02 Aug 2022 12:06:02: start X-correlation... INFO @ Tue, 02 Aug 2022 12:06:02: 2000000 INFO @ Tue, 02 Aug 2022 12:06:02: end of X-cor INFO @ Tue, 02 Aug 2022 12:06:02: #2 finished! INFO @ Tue, 02 Aug 2022 12:06:02: #2 predicted fragment length is 190 bps INFO @ Tue, 02 Aug 2022 12:06:02: #2 alternative fragment length(s) may be 190 bps INFO @ Tue, 02 Aug 2022 12:06:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX11638457/SRX11638457.05_model.r INFO @ Tue, 02 Aug 2022 12:06:02: #3 Call peaks... INFO @ Tue, 02 Aug 2022 12:06:02: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 12:06:06: 8000000 INFO @ Tue, 02 Aug 2022 12:06:07: 3000000 INFO @ Tue, 02 Aug 2022 12:06:11: 9000000 INFO @ Tue, 02 Aug 2022 12:06:12: 4000000 INFO @ Tue, 02 Aug 2022 12:06:17: 10000000 INFO @ Tue, 02 Aug 2022 12:06:17: 5000000 INFO @ Tue, 02 Aug 2022 12:06:22: 6000000 INFO @ Tue, 02 Aug 2022 12:06:22: 11000000 INFO @ Tue, 02 Aug 2022 12:06:27: 7000000 INFO @ Tue, 02 Aug 2022 12:06:28: 12000000 INFO @ Tue, 02 Aug 2022 12:06:30: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 12:06:32: 8000000 INFO @ Tue, 02 Aug 2022 12:06:33: 13000000 INFO @ Tue, 02 Aug 2022 12:06:34: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 12:06:34: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 12:06:34: #1 total tags in treatment: 13130386 INFO @ Tue, 02 Aug 2022 12:06:34: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 12:06:34: #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 12:06:35: #1 tags after filtering in treatment: 13130314 INFO @ Tue, 02 Aug 2022 12:06:35: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 12:06:35: #1 finished! INFO @ Tue, 02 Aug 2022 12:06:35: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 12:06:35: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 12:06:36: #2 number of paired peaks: 1551 INFO @ Tue, 02 Aug 2022 12:06:36: start model_add_line... INFO @ Tue, 02 Aug 2022 12:06:36: start X-correlation... INFO @ Tue, 02 Aug 2022 12:06:36: end of X-cor INFO @ Tue, 02 Aug 2022 12:06:36: #2 finished! INFO @ Tue, 02 Aug 2022 12:06:36: #2 predicted fragment length is 190 bps INFO @ Tue, 02 Aug 2022 12:06:36: #2 alternative fragment length(s) may be 190 bps INFO @ Tue, 02 Aug 2022 12:06:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX11638457/SRX11638457.10_model.r INFO @ Tue, 02 Aug 2022 12:06:36: #3 Call peaks... INFO @ Tue, 02 Aug 2022 12:06:36: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 12:06:37: 9000000 INFO @ Tue, 02 Aug 2022 12:06:41: 10000000 INFO @ Tue, 02 Aug 2022 12:06:44: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX11638457/SRX11638457.05_peaks.xls INFO @ Tue, 02 Aug 2022 12:06:45: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX11638457/SRX11638457.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 12:06:45: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX11638457/SRX11638457.05_summits.bed INFO @ Tue, 02 Aug 2022 12:06:45: Done! pass1 - making usageList (198 chroms): 2 millis pass2 - checking and writing primary data (15059 records, 4 fields): 52 millis CompletedMACS2peakCalling BedGraph に変換しました。 INFO @ Tue, 02 Aug 2022 12:06:46: 11000000 BigWig に変換中... INFO @ Tue, 02 Aug 2022 12:06:51: 12000000 INFO @ Tue, 02 Aug 2022 12:06:56: 13000000 INFO @ Tue, 02 Aug 2022 12:06:56: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 12:06:56: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 12:06:56: #1 total tags in treatment: 13130386 INFO @ Tue, 02 Aug 2022 12:06:56: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 12:06:56: #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 12:06:57: #1 tags after filtering in treatment: 13130314 INFO @ Tue, 02 Aug 2022 12:06:57: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 12:06:57: #1 finished! INFO @ Tue, 02 Aug 2022 12:06:57: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 12:06:57: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 12:06:58: #2 number of paired peaks: 1551 INFO @ Tue, 02 Aug 2022 12:06:58: start model_add_line... INFO @ Tue, 02 Aug 2022 12:06:58: start X-correlation... INFO @ Tue, 02 Aug 2022 12:06:58: end of X-cor INFO @ Tue, 02 Aug 2022 12:06:58: #2 finished! INFO @ Tue, 02 Aug 2022 12:06:58: #2 predicted fragment length is 190 bps INFO @ Tue, 02 Aug 2022 12:06:58: #2 alternative fragment length(s) may be 190 bps INFO @ Tue, 02 Aug 2022 12:06:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX11638457/SRX11638457.20_model.r INFO @ Tue, 02 Aug 2022 12:06:58: #3 Call peaks... INFO @ Tue, 02 Aug 2022 12:06:58: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 12:07:04: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 12:07:18: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX11638457/SRX11638457.10_peaks.xls INFO @ Tue, 02 Aug 2022 12:07:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX11638457/SRX11638457.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 12:07:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX11638457/SRX11638457.10_summits.bed INFO @ Tue, 02 Aug 2022 12:07:18: Done! pass1 - making usageList (133 chroms): 1 millis pass2 - checking and writing primary data (8531 records, 4 fields): 71 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 12:07:26: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 12:07:40: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX11638457/SRX11638457.20_peaks.xls INFO @ Tue, 02 Aug 2022 12:07:40: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX11638457/SRX11638457.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 12:07:40: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX11638457/SRX11638457.20_summits.bed INFO @ Tue, 02 Aug 2022 12:07:40: Done! pass1 - making usageList (62 chroms): 1 millis pass2 - checking and writing primary data (3880 records, 4 fields): 28 millis CompletedMACS2peakCalling