Job ID = 14167744 SRX = SRX9090279 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: 00:07:38 29477032 reads; of these: 29477032 (100.00%) were unpaired; of these: 1438170 (4.88%) aligned 0 times 20147067 (68.35%) aligned exactly 1 time 7891795 (26.77%) aligned >1 times 95.12% overall alignment rate Time searching: 00:07:38 Overall time: 00:07:38 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 12 files... [bam_rmdupse_core] 12166646 / 28038862 = 0.4339 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 13:27:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9090279/SRX9090279.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9090279/SRX9090279.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9090279/SRX9090279.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9090279/SRX9090279.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 13:27:12: #1 read tag files... INFO @ Fri, 10 Dec 2021 13:27:12: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 13:27:17: 1000000 INFO @ Fri, 10 Dec 2021 13:27:21: 2000000 INFO @ Fri, 10 Dec 2021 13:27:26: 3000000 INFO @ Fri, 10 Dec 2021 13:27:31: 4000000 INFO @ Fri, 10 Dec 2021 13:27:36: 5000000 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 13:27:40: 6000000 INFO @ Fri, 10 Dec 2021 13:27:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9090279/SRX9090279.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9090279/SRX9090279.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9090279/SRX9090279.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9090279/SRX9090279.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 13:27:42: #1 read tag files... INFO @ Fri, 10 Dec 2021 13:27:42: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 13:27:45: 7000000 INFO @ Fri, 10 Dec 2021 13:27:47: 1000000 INFO @ Fri, 10 Dec 2021 13:27:50: 8000000 INFO @ Fri, 10 Dec 2021 13:27:52: 2000000 INFO @ Fri, 10 Dec 2021 13:27:55: 9000000 INFO @ Fri, 10 Dec 2021 13:27:57: 3000000 INFO @ Fri, 10 Dec 2021 13:28:01: 10000000 INFO @ Fri, 10 Dec 2021 13:28:02: 4000000 INFO @ Fri, 10 Dec 2021 13:28:06: 11000000 INFO @ Fri, 10 Dec 2021 13:28:08: 5000000 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 13:28:11: 12000000 INFO @ Fri, 10 Dec 2021 13:28:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9090279/SRX9090279.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9090279/SRX9090279.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9090279/SRX9090279.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9090279/SRX9090279.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 13:28:12: #1 read tag files... INFO @ Fri, 10 Dec 2021 13:28:12: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 13:28:13: 6000000 INFO @ Fri, 10 Dec 2021 13:28:16: 13000000 INFO @ Fri, 10 Dec 2021 13:28:18: 1000000 INFO @ Fri, 10 Dec 2021 13:28:18: 7000000 INFO @ Fri, 10 Dec 2021 13:28:22: 14000000 INFO @ Fri, 10 Dec 2021 13:28:24: 8000000 INFO @ Fri, 10 Dec 2021 13:28:24: 2000000 INFO @ Fri, 10 Dec 2021 13:28:27: 15000000 INFO @ Fri, 10 Dec 2021 13:28:29: 9000000 INFO @ Fri, 10 Dec 2021 13:28:31: 3000000 INFO @ Fri, 10 Dec 2021 13:28:32: #1 tag size is determined as 49 bps INFO @ Fri, 10 Dec 2021 13:28:32: #1 tag size = 49 INFO @ Fri, 10 Dec 2021 13:28:32: #1 total tags in treatment: 15872216 INFO @ Fri, 10 Dec 2021 13:28:32: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 13:28:32: #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 13:28:33: #1 tags after filtering in treatment: 15872135 INFO @ Fri, 10 Dec 2021 13:28:33: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 13:28:33: #1 finished! INFO @ Fri, 10 Dec 2021 13:28:33: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 13:28:33: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 13:28:34: #2 number of paired peaks: 4601 INFO @ Fri, 10 Dec 2021 13:28:34: start model_add_line... INFO @ Fri, 10 Dec 2021 13:28:34: 10000000 INFO @ Fri, 10 Dec 2021 13:28:35: start X-correlation... INFO @ Fri, 10 Dec 2021 13:28:35: end of X-cor INFO @ Fri, 10 Dec 2021 13:28:35: #2 finished! INFO @ Fri, 10 Dec 2021 13:28:35: #2 predicted fragment length is 122 bps INFO @ Fri, 10 Dec 2021 13:28:35: #2 alternative fragment length(s) may be 122 bps INFO @ Fri, 10 Dec 2021 13:28:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9090279/SRX9090279.05_model.r INFO @ Fri, 10 Dec 2021 13:28:35: #3 Call peaks... INFO @ Fri, 10 Dec 2021 13:28:35: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 13:28:37: 4000000 INFO @ Fri, 10 Dec 2021 13:28:40: 11000000 INFO @ Fri, 10 Dec 2021 13:28:43: 5000000 INFO @ Fri, 10 Dec 2021 13:28:45: 12000000 INFO @ Fri, 10 Dec 2021 13:28:49: 6000000 INFO @ Fri, 10 Dec 2021 13:28:50: 13000000 INFO @ Fri, 10 Dec 2021 13:28:56: 7000000 INFO @ Fri, 10 Dec 2021 13:28:56: 14000000 INFO @ Fri, 10 Dec 2021 13:29:01: 15000000 INFO @ Fri, 10 Dec 2021 13:29:02: 8000000 INFO @ Fri, 10 Dec 2021 13:29:06: #1 tag size is determined as 49 bps INFO @ Fri, 10 Dec 2021 13:29:06: #1 tag size = 49 INFO @ Fri, 10 Dec 2021 13:29:06: #1 total tags in treatment: 15872216 INFO @ Fri, 10 Dec 2021 13:29:06: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 13:29:06: #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 13:29:07: #1 tags after filtering in treatment: 15872135 INFO @ Fri, 10 Dec 2021 13:29:07: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 13:29:07: #1 finished! INFO @ Fri, 10 Dec 2021 13:29:07: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 13:29:07: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 13:29:08: #2 number of paired peaks: 4601 INFO @ Fri, 10 Dec 2021 13:29:08: start model_add_line... INFO @ Fri, 10 Dec 2021 13:29:08: 9000000 INFO @ Fri, 10 Dec 2021 13:29:08: start X-correlation... INFO @ Fri, 10 Dec 2021 13:29:08: end of X-cor INFO @ Fri, 10 Dec 2021 13:29:08: #2 finished! INFO @ Fri, 10 Dec 2021 13:29:08: #2 predicted fragment length is 122 bps INFO @ Fri, 10 Dec 2021 13:29:08: #2 alternative fragment length(s) may be 122 bps INFO @ Fri, 10 Dec 2021 13:29:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9090279/SRX9090279.10_model.r INFO @ Fri, 10 Dec 2021 13:29:08: #3 Call peaks... INFO @ Fri, 10 Dec 2021 13:29:08: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 13:29:09: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 13:29:14: 10000000 INFO @ Fri, 10 Dec 2021 13:29:20: 11000000 INFO @ Fri, 10 Dec 2021 13:29:26: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9090279/SRX9090279.05_peaks.xls INFO @ Fri, 10 Dec 2021 13:29:26: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9090279/SRX9090279.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 13:29:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9090279/SRX9090279.05_summits.bed INFO @ Fri, 10 Dec 2021 13:29:26: Done! INFO @ Fri, 10 Dec 2021 13:29:26: 12000000 pass1 - making usageList (656 chroms): 2 millis pass2 - checking and writing primary data (8331 records, 4 fields): 43 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 13:29:32: 13000000 INFO @ Fri, 10 Dec 2021 13:29:38: 14000000 INFO @ Fri, 10 Dec 2021 13:29:43: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 13:29:44: 15000000 INFO @ Fri, 10 Dec 2021 13:29:50: #1 tag size is determined as 49 bps INFO @ Fri, 10 Dec 2021 13:29:50: #1 tag size = 49 INFO @ Fri, 10 Dec 2021 13:29:50: #1 total tags in treatment: 15872216 INFO @ Fri, 10 Dec 2021 13:29:50: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 13:29:50: #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 13:29:50: #1 tags after filtering in treatment: 15872135 INFO @ Fri, 10 Dec 2021 13:29:50: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 13:29:50: #1 finished! INFO @ Fri, 10 Dec 2021 13:29:50: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 13:29:50: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 13:29:51: #2 number of paired peaks: 4601 INFO @ Fri, 10 Dec 2021 13:29:51: start model_add_line... INFO @ Fri, 10 Dec 2021 13:29:52: start X-correlation... INFO @ Fri, 10 Dec 2021 13:29:52: end of X-cor INFO @ Fri, 10 Dec 2021 13:29:52: #2 finished! INFO @ Fri, 10 Dec 2021 13:29:52: #2 predicted fragment length is 122 bps INFO @ Fri, 10 Dec 2021 13:29:52: #2 alternative fragment length(s) may be 122 bps INFO @ Fri, 10 Dec 2021 13:29:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9090279/SRX9090279.20_model.r INFO @ Fri, 10 Dec 2021 13:29:52: #3 Call peaks... INFO @ Fri, 10 Dec 2021 13:29:52: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 13:29:59: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9090279/SRX9090279.10_peaks.xls INFO @ Fri, 10 Dec 2021 13:29:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9090279/SRX9090279.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 13:29:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9090279/SRX9090279.10_summits.bed INFO @ Fri, 10 Dec 2021 13:29:59: Done! pass1 - making usageList (547 chroms): 2 millis pass2 - checking and writing primary data (6711 records, 4 fields): 30 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 13:30:27: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 13:30:43: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9090279/SRX9090279.20_peaks.xls INFO @ Fri, 10 Dec 2021 13:30:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9090279/SRX9090279.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 13:30:44: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9090279/SRX9090279.20_summits.bed INFO @ Fri, 10 Dec 2021 13:30:44: Done! pass1 - making usageList (369 chroms): 2 millis pass2 - checking and writing primary data (4500 records, 4 fields): 15 millis CompletedMACS2peakCalling