Job ID = 6530099 SRX = SRX914965 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: 00:06:06 35072902 reads; of these: 35072902 (100.00%) were unpaired; of these: 3162938 (9.02%) aligned 0 times 28414134 (81.01%) aligned exactly 1 time 3495830 (9.97%) aligned >1 times 90.98% overall alignment rate Time searching: 00:06:06 Overall time: 00:06:06 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] 13440467 / 31909964 = 0.4212 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 03:26:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX914965/SRX914965.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX914965/SRX914965.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX914965/SRX914965.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX914965/SRX914965.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 03:26:11: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:26:11: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:26:16: 1000000 INFO @ Tue, 30 Jun 2020 03:26:21: 2000000 INFO @ Tue, 30 Jun 2020 03:26:27: 3000000 INFO @ Tue, 30 Jun 2020 03:26:32: 4000000 INFO @ Tue, 30 Jun 2020 03:26:37: 5000000 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 03:26:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX914965/SRX914965.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX914965/SRX914965.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX914965/SRX914965.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX914965/SRX914965.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 03:26:41: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:26:41: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:26:42: 6000000 INFO @ Tue, 30 Jun 2020 03:26:47: 1000000 INFO @ Tue, 30 Jun 2020 03:26:48: 7000000 INFO @ Tue, 30 Jun 2020 03:26:52: 2000000 INFO @ Tue, 30 Jun 2020 03:26:53: 8000000 INFO @ Tue, 30 Jun 2020 03:26:58: 3000000 INFO @ Tue, 30 Jun 2020 03:26:58: 9000000 INFO @ Tue, 30 Jun 2020 03:27:03: 4000000 INFO @ Tue, 30 Jun 2020 03:27:03: 10000000 INFO @ Tue, 30 Jun 2020 03:27:08: 5000000 INFO @ Tue, 30 Jun 2020 03:27:08: 11000000 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 03:27:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX914965/SRX914965.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX914965/SRX914965.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX914965/SRX914965.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX914965/SRX914965.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 03:27:11: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:27:11: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:27:14: 6000000 INFO @ Tue, 30 Jun 2020 03:27:14: 12000000 INFO @ Tue, 30 Jun 2020 03:27:16: 1000000 INFO @ Tue, 30 Jun 2020 03:27:19: 13000000 INFO @ Tue, 30 Jun 2020 03:27:20: 7000000 INFO @ Tue, 30 Jun 2020 03:27:22: 2000000 INFO @ Tue, 30 Jun 2020 03:27:25: 14000000 INFO @ Tue, 30 Jun 2020 03:27:25: 8000000 INFO @ Tue, 30 Jun 2020 03:27:28: 3000000 INFO @ Tue, 30 Jun 2020 03:27:31: 9000000 INFO @ Tue, 30 Jun 2020 03:27:31: 15000000 INFO @ Tue, 30 Jun 2020 03:27:33: 4000000 INFO @ Tue, 30 Jun 2020 03:27:37: 10000000 INFO @ Tue, 30 Jun 2020 03:27:37: 16000000 INFO @ Tue, 30 Jun 2020 03:27:39: 5000000 INFO @ Tue, 30 Jun 2020 03:27:42: 17000000 INFO @ Tue, 30 Jun 2020 03:27:43: 11000000 INFO @ Tue, 30 Jun 2020 03:27:45: 6000000 INFO @ Tue, 30 Jun 2020 03:27:48: 18000000 INFO @ Tue, 30 Jun 2020 03:27:49: 12000000 INFO @ Tue, 30 Jun 2020 03:27:50: 7000000 INFO @ Tue, 30 Jun 2020 03:27:51: #1 tag size is determined as 40 bps INFO @ Tue, 30 Jun 2020 03:27:51: #1 tag size = 40 INFO @ Tue, 30 Jun 2020 03:27:51: #1 total tags in treatment: 18469497 INFO @ Tue, 30 Jun 2020 03:27:51: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:27:51: #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 03:27:52: #1 tags after filtering in treatment: 18469417 INFO @ Tue, 30 Jun 2020 03:27:52: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:27:52: #1 finished! INFO @ Tue, 30 Jun 2020 03:27:52: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:27:52: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:27:53: #2 number of paired peaks: 213 WARNING @ Tue, 30 Jun 2020 03:27:53: Fewer paired peaks (213) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 213 pairs to build model! INFO @ Tue, 30 Jun 2020 03:27:53: start model_add_line... INFO @ Tue, 30 Jun 2020 03:27:53: start X-correlation... INFO @ Tue, 30 Jun 2020 03:27:53: end of X-cor INFO @ Tue, 30 Jun 2020 03:27:53: #2 finished! INFO @ Tue, 30 Jun 2020 03:27:53: #2 predicted fragment length is 116 bps INFO @ Tue, 30 Jun 2020 03:27:53: #2 alternative fragment length(s) may be 2,40,63,86,116,178,592 bps INFO @ Tue, 30 Jun 2020 03:27:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX914965/SRX914965.05_model.r INFO @ Tue, 30 Jun 2020 03:27:53: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:27:53: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:27:54: 13000000 INFO @ Tue, 30 Jun 2020 03:27:55: 8000000 INFO @ Tue, 30 Jun 2020 03:27:59: 14000000 INFO @ Tue, 30 Jun 2020 03:28:00: 9000000 INFO @ Tue, 30 Jun 2020 03:28:05: 15000000 INFO @ Tue, 30 Jun 2020 03:28:05: 10000000 INFO @ Tue, 30 Jun 2020 03:28:10: 16000000 INFO @ Tue, 30 Jun 2020 03:28:10: 11000000 INFO @ Tue, 30 Jun 2020 03:28:15: 12000000 INFO @ Tue, 30 Jun 2020 03:28:15: 17000000 INFO @ Tue, 30 Jun 2020 03:28:20: 13000000 INFO @ Tue, 30 Jun 2020 03:28:21: 18000000 INFO @ Tue, 30 Jun 2020 03:28:24: #1 tag size is determined as 40 bps INFO @ Tue, 30 Jun 2020 03:28:24: #1 tag size = 40 INFO @ Tue, 30 Jun 2020 03:28:24: #1 total tags in treatment: 18469497 INFO @ Tue, 30 Jun 2020 03:28:24: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:28:24: #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 03:28:24: #1 tags after filtering in treatment: 18469417 INFO @ Tue, 30 Jun 2020 03:28:24: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:28:24: #1 finished! INFO @ Tue, 30 Jun 2020 03:28:24: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:28:24: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:28:25: 14000000 INFO @ Tue, 30 Jun 2020 03:28:26: #2 number of paired peaks: 213 WARNING @ Tue, 30 Jun 2020 03:28:26: Fewer paired peaks (213) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 213 pairs to build model! INFO @ Tue, 30 Jun 2020 03:28:26: start model_add_line... INFO @ Tue, 30 Jun 2020 03:28:26: start X-correlation... INFO @ Tue, 30 Jun 2020 03:28:26: end of X-cor INFO @ Tue, 30 Jun 2020 03:28:26: #2 finished! INFO @ Tue, 30 Jun 2020 03:28:26: #2 predicted fragment length is 116 bps INFO @ Tue, 30 Jun 2020 03:28:26: #2 alternative fragment length(s) may be 2,40,63,86,116,178,592 bps INFO @ Tue, 30 Jun 2020 03:28:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX914965/SRX914965.10_model.r INFO @ Tue, 30 Jun 2020 03:28:26: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:28:26: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:28:27: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 03:28:31: 15000000 INFO @ Tue, 30 Jun 2020 03:28:36: 16000000 INFO @ Tue, 30 Jun 2020 03:28:40: 17000000 INFO @ Tue, 30 Jun 2020 03:28:43: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX914965/SRX914965.05_peaks.xls INFO @ Tue, 30 Jun 2020 03:28:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX914965/SRX914965.05_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:28:43: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX914965/SRX914965.05_summits.bed INFO @ Tue, 30 Jun 2020 03:28:43: Done! pass1 - making usageList (130 chroms): 1 millis pass2 - checking and writing primary data (481 records, 4 fields): 25 millis CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 03:28:45: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 03:28:48: #1 tag size is determined as 40 bps INFO @ Tue, 30 Jun 2020 03:28:48: #1 tag size = 40 INFO @ Tue, 30 Jun 2020 03:28:48: #1 total tags in treatment: 18469497 INFO @ Tue, 30 Jun 2020 03:28:48: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:28:48: #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 03:28:49: #1 tags after filtering in treatment: 18469417 INFO @ Tue, 30 Jun 2020 03:28:49: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:28:49: #1 finished! INFO @ Tue, 30 Jun 2020 03:28:49: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:28:49: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:28:50: #2 number of paired peaks: 213 WARNING @ Tue, 30 Jun 2020 03:28:50: Fewer paired peaks (213) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 213 pairs to build model! INFO @ Tue, 30 Jun 2020 03:28:50: start model_add_line... INFO @ Tue, 30 Jun 2020 03:28:50: start X-correlation... INFO @ Tue, 30 Jun 2020 03:28:50: end of X-cor INFO @ Tue, 30 Jun 2020 03:28:50: #2 finished! INFO @ Tue, 30 Jun 2020 03:28:50: #2 predicted fragment length is 116 bps INFO @ Tue, 30 Jun 2020 03:28:50: #2 alternative fragment length(s) may be 2,40,63,86,116,178,592 bps INFO @ Tue, 30 Jun 2020 03:28:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX914965/SRX914965.20_model.r INFO @ Tue, 30 Jun 2020 03:28:50: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:28:50: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:28:58: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 03:29:14: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX914965/SRX914965.10_peaks.xls INFO @ Tue, 30 Jun 2020 03:29:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX914965/SRX914965.10_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:29:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX914965/SRX914965.10_summits.bed INFO @ Tue, 30 Jun 2020 03:29:14: Done! pass1 - making usageList (101 chroms): 1 millis pass2 - checking and writing primary data (259 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 03:29:22: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 03:29:37: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX914965/SRX914965.20_peaks.xls INFO @ Tue, 30 Jun 2020 03:29:37: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX914965/SRX914965.20_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:29:37: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX914965/SRX914965.20_summits.bed INFO @ Tue, 30 Jun 2020 03:29:37: Done! pass1 - making usageList (79 chroms): 1 millis pass2 - checking and writing primary data (153 records, 4 fields): 6 millis CompletedMACS2peakCalling BigWig に変換しました。