Job ID = 6529177 SRX = SRX030152 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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:05:09 24829903 reads; of these: 24829903 (100.00%) were unpaired; of these: 691108 (2.78%) aligned 0 times 20308493 (81.79%) aligned exactly 1 time 3830302 (15.43%) aligned >1 times 97.22% 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] 4620550 / 24138795 = 0.1914 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 30 Jun 2020 01:47:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX030152/SRX030152.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX030152/SRX030152.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX030152/SRX030152.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX030152/SRX030152.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, 30 Jun 2020 01:47:22: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:47:22: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:47:29: 1000000 INFO @ Tue, 30 Jun 2020 01:47:35: 2000000 INFO @ Tue, 30 Jun 2020 01:47:42: 3000000 INFO @ Tue, 30 Jun 2020 01:47:48: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 30 Jun 2020 01:47:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX030152/SRX030152.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX030152/SRX030152.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX030152/SRX030152.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX030152/SRX030152.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, 30 Jun 2020 01:47:53: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:47:53: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:47:55: 5000000 INFO @ Tue, 30 Jun 2020 01:48:00: 1000000 INFO @ Tue, 30 Jun 2020 01:48:02: 6000000 INFO @ Tue, 30 Jun 2020 01:48:07: 2000000 INFO @ Tue, 30 Jun 2020 01:48:09: 7000000 INFO @ Tue, 30 Jun 2020 01:48:14: 3000000 INFO @ Tue, 30 Jun 2020 01:48:16: 8000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 30 Jun 2020 01:48:20: 4000000 INFO @ Tue, 30 Jun 2020 01:48:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX030152/SRX030152.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX030152/SRX030152.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX030152/SRX030152.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX030152/SRX030152.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, 30 Jun 2020 01:48:22: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:48:22: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:48:23: 9000000 INFO @ Tue, 30 Jun 2020 01:48:27: 5000000 INFO @ Tue, 30 Jun 2020 01:48:29: 1000000 INFO @ Tue, 30 Jun 2020 01:48:30: 10000000 INFO @ Tue, 30 Jun 2020 01:48:34: 6000000 INFO @ Tue, 30 Jun 2020 01:48:36: 2000000 INFO @ Tue, 30 Jun 2020 01:48:37: 11000000 INFO @ Tue, 30 Jun 2020 01:48:40: 7000000 INFO @ Tue, 30 Jun 2020 01:48:43: 3000000 INFO @ Tue, 30 Jun 2020 01:48:45: 12000000 INFO @ Tue, 30 Jun 2020 01:48:47: 8000000 INFO @ Tue, 30 Jun 2020 01:48:50: 4000000 INFO @ Tue, 30 Jun 2020 01:48:52: 13000000 INFO @ Tue, 30 Jun 2020 01:48:54: 9000000 INFO @ Tue, 30 Jun 2020 01:48:56: 5000000 INFO @ Tue, 30 Jun 2020 01:48:59: 14000000 INFO @ Tue, 30 Jun 2020 01:49:01: 10000000 INFO @ Tue, 30 Jun 2020 01:49:03: 6000000 INFO @ Tue, 30 Jun 2020 01:49:07: 15000000 INFO @ Tue, 30 Jun 2020 01:49:07: 11000000 INFO @ Tue, 30 Jun 2020 01:49:10: 7000000 INFO @ Tue, 30 Jun 2020 01:49:14: 16000000 INFO @ Tue, 30 Jun 2020 01:49:14: 12000000 INFO @ Tue, 30 Jun 2020 01:49:16: 8000000 INFO @ Tue, 30 Jun 2020 01:49:21: 13000000 INFO @ Tue, 30 Jun 2020 01:49:22: 17000000 INFO @ Tue, 30 Jun 2020 01:49:23: 9000000 INFO @ Tue, 30 Jun 2020 01:49:28: 14000000 INFO @ Tue, 30 Jun 2020 01:49:29: 18000000 INFO @ Tue, 30 Jun 2020 01:49:30: 10000000 INFO @ Tue, 30 Jun 2020 01:49:34: 15000000 INFO @ Tue, 30 Jun 2020 01:49:36: 19000000 INFO @ Tue, 30 Jun 2020 01:49:37: 11000000 INFO @ Tue, 30 Jun 2020 01:49:40: #1 tag size is determined as 36 bps INFO @ Tue, 30 Jun 2020 01:49:40: #1 tag size = 36 INFO @ Tue, 30 Jun 2020 01:49:40: #1 total tags in treatment: 19518245 INFO @ Tue, 30 Jun 2020 01:49:40: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:49:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:49:41: #1 tags after filtering in treatment: 19518239 INFO @ Tue, 30 Jun 2020 01:49:41: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:49:41: #1 finished! INFO @ Tue, 30 Jun 2020 01:49:41: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:49:41: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:49:42: 16000000 INFO @ Tue, 30 Jun 2020 01:49:42: #2 number of paired peaks: 133 WARNING @ Tue, 30 Jun 2020 01:49:42: Fewer paired peaks (133) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 133 pairs to build model! INFO @ Tue, 30 Jun 2020 01:49:42: start model_add_line... INFO @ Tue, 30 Jun 2020 01:49:42: start X-correlation... INFO @ Tue, 30 Jun 2020 01:49:42: end of X-cor INFO @ Tue, 30 Jun 2020 01:49:42: #2 finished! INFO @ Tue, 30 Jun 2020 01:49:42: #2 predicted fragment length is 116 bps INFO @ Tue, 30 Jun 2020 01:49:42: #2 alternative fragment length(s) may be 4,61,116 bps INFO @ Tue, 30 Jun 2020 01:49:42: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX030152/SRX030152.05_model.r INFO @ Tue, 30 Jun 2020 01:49:42: #3 Call peaks... INFO @ Tue, 30 Jun 2020 01:49:42: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 01:49:44: 12000000 INFO @ Tue, 30 Jun 2020 01:49:48: 17000000 INFO @ Tue, 30 Jun 2020 01:49:50: 13000000 INFO @ Tue, 30 Jun 2020 01:49:55: 18000000 INFO @ Tue, 30 Jun 2020 01:49:57: 14000000 INFO @ Tue, 30 Jun 2020 01:50:01: 19000000 INFO @ Tue, 30 Jun 2020 01:50:03: 15000000 INFO @ Tue, 30 Jun 2020 01:50:05: #1 tag size is determined as 36 bps INFO @ Tue, 30 Jun 2020 01:50:05: #1 tag size = 36 INFO @ Tue, 30 Jun 2020 01:50:05: #1 total tags in treatment: 19518245 INFO @ Tue, 30 Jun 2020 01:50:05: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:50:05: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:50:05: #1 tags after filtering in treatment: 19518239 INFO @ Tue, 30 Jun 2020 01:50:05: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:50:05: #1 finished! INFO @ Tue, 30 Jun 2020 01:50:05: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:50:05: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:50:07: #2 number of paired peaks: 133 WARNING @ Tue, 30 Jun 2020 01:50:07: Fewer paired peaks (133) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 133 pairs to build model! INFO @ Tue, 30 Jun 2020 01:50:07: start model_add_line... INFO @ Tue, 30 Jun 2020 01:50:07: start X-correlation... INFO @ Tue, 30 Jun 2020 01:50:07: end of X-cor INFO @ Tue, 30 Jun 2020 01:50:07: #2 finished! INFO @ Tue, 30 Jun 2020 01:50:07: #2 predicted fragment length is 116 bps INFO @ Tue, 30 Jun 2020 01:50:07: #2 alternative fragment length(s) may be 4,61,116 bps INFO @ Tue, 30 Jun 2020 01:50:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX030152/SRX030152.10_model.r INFO @ Tue, 30 Jun 2020 01:50:07: #3 Call peaks... INFO @ Tue, 30 Jun 2020 01:50:07: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 01:50:10: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 01:50:16: 17000000 INFO @ Tue, 30 Jun 2020 01:50:23: 18000000 INFO @ Tue, 30 Jun 2020 01:50:29: 19000000 INFO @ Tue, 30 Jun 2020 01:50:29: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 01:50:32: #1 tag size is determined as 36 bps INFO @ Tue, 30 Jun 2020 01:50:32: #1 tag size = 36 INFO @ Tue, 30 Jun 2020 01:50:32: #1 total tags in treatment: 19518245 INFO @ Tue, 30 Jun 2020 01:50:32: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:50:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:50:33: #1 tags after filtering in treatment: 19518239 INFO @ Tue, 30 Jun 2020 01:50:33: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:50:33: #1 finished! INFO @ Tue, 30 Jun 2020 01:50:33: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:50:33: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:50:35: #2 number of paired peaks: 133 WARNING @ Tue, 30 Jun 2020 01:50:35: Fewer paired peaks (133) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 133 pairs to build model! INFO @ Tue, 30 Jun 2020 01:50:35: start model_add_line... INFO @ Tue, 30 Jun 2020 01:50:35: start X-correlation... INFO @ Tue, 30 Jun 2020 01:50:35: end of X-cor INFO @ Tue, 30 Jun 2020 01:50:35: #2 finished! INFO @ Tue, 30 Jun 2020 01:50:35: #2 predicted fragment length is 116 bps INFO @ Tue, 30 Jun 2020 01:50:35: #2 alternative fragment length(s) may be 4,61,116 bps INFO @ Tue, 30 Jun 2020 01:50:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX030152/SRX030152.20_model.r INFO @ Tue, 30 Jun 2020 01:50:35: #3 Call peaks... INFO @ Tue, 30 Jun 2020 01:50:35: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 01:50:53: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX030152/SRX030152.05_peaks.xls INFO @ Tue, 30 Jun 2020 01:50:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX030152/SRX030152.05_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 01:50:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX030152/SRX030152.05_summits.bed INFO @ Tue, 30 Jun 2020 01:50:53: Done! INFO @ Tue, 30 Jun 2020 01:50:53: #3 Call peaks for each chromosome... pass1 - making usageList (391 chroms): 2 millis pass2 - checking and writing primary data (3226 records, 4 fields): 17 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 01:51:17: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX030152/SRX030152.10_peaks.xls INFO @ Tue, 30 Jun 2020 01:51:17: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX030152/SRX030152.10_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 01:51:17: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX030152/SRX030152.10_summits.bed INFO @ Tue, 30 Jun 2020 01:51:17: Done! pass1 - making usageList (206 chroms): 1 millis pass2 - checking and writing primary data (804 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:51:22: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 01:51:46: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX030152/SRX030152.20_peaks.xls INFO @ Tue, 30 Jun 2020 01:51:46: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX030152/SRX030152.20_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 01:51:46: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX030152/SRX030152.20_summits.bed INFO @ Tue, 30 Jun 2020 01:51:46: Done! pass1 - making usageList (115 chroms): 3 millis pass2 - checking and writing primary data (219 records, 4 fields): 5 millis CompletedMACS2peakCalling