Job ID = 6529649 SRX = SRX3663167 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: 00:06:45 28508523 reads; of these: 28508523 (100.00%) were unpaired; of these: 4258911 (14.94%) aligned 0 times 20815683 (73.02%) aligned exactly 1 time 3433929 (12.05%) aligned >1 times 85.06% overall alignment rate Time searching: 00:06:45 Overall time: 00:06:45 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] 2204691 / 24249612 = 0.0909 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 02:48:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3663167/SRX3663167.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3663167/SRX3663167.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3663167/SRX3663167.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3663167/SRX3663167.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 02:48:07: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:48:07: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:48:14: 1000000 INFO @ Tue, 30 Jun 2020 02:48:20: 2000000 INFO @ Tue, 30 Jun 2020 02:48:26: 3000000 INFO @ Tue, 30 Jun 2020 02:48:32: 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 02:48:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3663167/SRX3663167.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3663167/SRX3663167.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3663167/SRX3663167.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3663167/SRX3663167.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 02:48:38: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:48:38: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:48:38: 5000000 INFO @ Tue, 30 Jun 2020 02:48:44: 1000000 INFO @ Tue, 30 Jun 2020 02:48:44: 6000000 INFO @ Tue, 30 Jun 2020 02:48:51: 2000000 INFO @ Tue, 30 Jun 2020 02:48:51: 7000000 INFO @ Tue, 30 Jun 2020 02:48:57: 8000000 INFO @ Tue, 30 Jun 2020 02:48:57: 3000000 INFO @ Tue, 30 Jun 2020 02:49:04: 9000000 INFO @ Tue, 30 Jun 2020 02:49:04: 4000000 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 02:49:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3663167/SRX3663167.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3663167/SRX3663167.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3663167/SRX3663167.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3663167/SRX3663167.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 02:49:08: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:49:08: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:49:10: 10000000 INFO @ Tue, 30 Jun 2020 02:49:11: 5000000 INFO @ Tue, 30 Jun 2020 02:49:14: 1000000 INFO @ Tue, 30 Jun 2020 02:49:17: 11000000 INFO @ Tue, 30 Jun 2020 02:49:17: 6000000 INFO @ Tue, 30 Jun 2020 02:49:21: 2000000 INFO @ Tue, 30 Jun 2020 02:49:23: 12000000 INFO @ Tue, 30 Jun 2020 02:49:23: 7000000 INFO @ Tue, 30 Jun 2020 02:49:27: 3000000 INFO @ Tue, 30 Jun 2020 02:49:29: 13000000 INFO @ Tue, 30 Jun 2020 02:49:30: 8000000 INFO @ Tue, 30 Jun 2020 02:49:33: 4000000 INFO @ Tue, 30 Jun 2020 02:49:36: 14000000 INFO @ Tue, 30 Jun 2020 02:49:36: 9000000 INFO @ Tue, 30 Jun 2020 02:49:40: 5000000 INFO @ Tue, 30 Jun 2020 02:49:42: 15000000 INFO @ Tue, 30 Jun 2020 02:49:42: 10000000 INFO @ Tue, 30 Jun 2020 02:49:46: 6000000 INFO @ Tue, 30 Jun 2020 02:49:48: 16000000 INFO @ Tue, 30 Jun 2020 02:49:49: 11000000 INFO @ Tue, 30 Jun 2020 02:49:53: 7000000 INFO @ Tue, 30 Jun 2020 02:49:55: 17000000 INFO @ Tue, 30 Jun 2020 02:49:55: 12000000 INFO @ Tue, 30 Jun 2020 02:49:59: 8000000 INFO @ Tue, 30 Jun 2020 02:50:01: 18000000 INFO @ Tue, 30 Jun 2020 02:50:02: 13000000 INFO @ Tue, 30 Jun 2020 02:50:05: 9000000 INFO @ Tue, 30 Jun 2020 02:50:08: 19000000 INFO @ Tue, 30 Jun 2020 02:50:08: 14000000 INFO @ Tue, 30 Jun 2020 02:50:12: 10000000 INFO @ Tue, 30 Jun 2020 02:50:14: 20000000 INFO @ Tue, 30 Jun 2020 02:50:15: 15000000 INFO @ Tue, 30 Jun 2020 02:50:18: 11000000 INFO @ Tue, 30 Jun 2020 02:50:21: 21000000 INFO @ Tue, 30 Jun 2020 02:50:21: 16000000 INFO @ Tue, 30 Jun 2020 02:50:25: 12000000 INFO @ Tue, 30 Jun 2020 02:50:27: 17000000 INFO @ Tue, 30 Jun 2020 02:50:28: 22000000 INFO @ Tue, 30 Jun 2020 02:50:28: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 02:50:28: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 02:50:28: #1 total tags in treatment: 22044921 INFO @ Tue, 30 Jun 2020 02:50:28: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:50:28: #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 02:50:29: #1 tags after filtering in treatment: 22044808 INFO @ Tue, 30 Jun 2020 02:50:29: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:50:29: #1 finished! INFO @ Tue, 30 Jun 2020 02:50:29: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:50:29: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:50:30: #2 number of paired peaks: 163 WARNING @ Tue, 30 Jun 2020 02:50:30: Fewer paired peaks (163) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 163 pairs to build model! INFO @ Tue, 30 Jun 2020 02:50:30: start model_add_line... INFO @ Tue, 30 Jun 2020 02:50:30: start X-correlation... INFO @ Tue, 30 Jun 2020 02:50:30: end of X-cor INFO @ Tue, 30 Jun 2020 02:50:30: #2 finished! INFO @ Tue, 30 Jun 2020 02:50:30: #2 predicted fragment length is 127 bps INFO @ Tue, 30 Jun 2020 02:50:30: #2 alternative fragment length(s) may be 3,87,127,159,171 bps INFO @ Tue, 30 Jun 2020 02:50:30: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3663167/SRX3663167.05_model.r INFO @ Tue, 30 Jun 2020 02:50:30: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:50:30: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:50:31: 13000000 INFO @ Tue, 30 Jun 2020 02:50:34: 18000000 INFO @ Tue, 30 Jun 2020 02:50:38: 14000000 INFO @ Tue, 30 Jun 2020 02:50:41: 19000000 INFO @ Tue, 30 Jun 2020 02:50:44: 15000000 INFO @ Tue, 30 Jun 2020 02:50:47: 20000000 INFO @ Tue, 30 Jun 2020 02:50:51: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 02:50:54: 21000000 INFO @ Tue, 30 Jun 2020 02:50:57: 17000000 INFO @ Tue, 30 Jun 2020 02:51:01: 22000000 INFO @ Tue, 30 Jun 2020 02:51:01: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 02:51:01: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 02:51:01: #1 total tags in treatment: 22044921 INFO @ Tue, 30 Jun 2020 02:51:01: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:51:01: #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 02:51:02: #1 tags after filtering in treatment: 22044808 INFO @ Tue, 30 Jun 2020 02:51:02: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:51:02: #1 finished! INFO @ Tue, 30 Jun 2020 02:51:02: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:51:02: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:51:03: #2 number of paired peaks: 163 WARNING @ Tue, 30 Jun 2020 02:51:03: Fewer paired peaks (163) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 163 pairs to build model! INFO @ Tue, 30 Jun 2020 02:51:03: start model_add_line... INFO @ Tue, 30 Jun 2020 02:51:03: start X-correlation... INFO @ Tue, 30 Jun 2020 02:51:03: end of X-cor INFO @ Tue, 30 Jun 2020 02:51:03: #2 finished! INFO @ Tue, 30 Jun 2020 02:51:03: #2 predicted fragment length is 127 bps INFO @ Tue, 30 Jun 2020 02:51:03: #2 alternative fragment length(s) may be 3,87,127,159,171 bps INFO @ Tue, 30 Jun 2020 02:51:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3663167/SRX3663167.10_model.r INFO @ Tue, 30 Jun 2020 02:51:03: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:51:03: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:51:04: 18000000 INFO @ Tue, 30 Jun 2020 02:51:10: 19000000 INFO @ Tue, 30 Jun 2020 02:51:14: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 02:51:16: 20000000 INFO @ Tue, 30 Jun 2020 02:51:22: 21000000 INFO @ Tue, 30 Jun 2020 02:51:29: 22000000 INFO @ Tue, 30 Jun 2020 02:51:29: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 02:51:29: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 02:51:29: #1 total tags in treatment: 22044921 INFO @ Tue, 30 Jun 2020 02:51:29: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:51:29: #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 02:51:30: #1 tags after filtering in treatment: 22044808 INFO @ Tue, 30 Jun 2020 02:51:30: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:51:30: #1 finished! INFO @ Tue, 30 Jun 2020 02:51:30: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:51:30: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:51:31: #2 number of paired peaks: 163 WARNING @ Tue, 30 Jun 2020 02:51:31: Fewer paired peaks (163) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 163 pairs to build model! INFO @ Tue, 30 Jun 2020 02:51:31: start model_add_line... INFO @ Tue, 30 Jun 2020 02:51:31: start X-correlation... INFO @ Tue, 30 Jun 2020 02:51:31: end of X-cor INFO @ Tue, 30 Jun 2020 02:51:31: #2 finished! INFO @ Tue, 30 Jun 2020 02:51:31: #2 predicted fragment length is 127 bps INFO @ Tue, 30 Jun 2020 02:51:31: #2 alternative fragment length(s) may be 3,87,127,159,171 bps INFO @ Tue, 30 Jun 2020 02:51:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3663167/SRX3663167.20_model.r INFO @ Tue, 30 Jun 2020 02:51:31: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:51:31: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:51:36: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3663167/SRX3663167.05_peaks.xls INFO @ Tue, 30 Jun 2020 02:51:36: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3663167/SRX3663167.05_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:51:36: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3663167/SRX3663167.05_summits.bed INFO @ Tue, 30 Jun 2020 02:51:36: Done! pass1 - making usageList (181 chroms): 1 millis pass2 - checking and writing primary data (464 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 02:51:47: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 02:52:09: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3663167/SRX3663167.10_peaks.xls INFO @ Tue, 30 Jun 2020 02:52:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3663167/SRX3663167.10_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:52:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3663167/SRX3663167.10_summits.bed INFO @ Tue, 30 Jun 2020 02:52:09: Done! pass1 - making usageList (113 chroms): 0 millis pass2 - checking and writing primary data (271 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 02:52:17: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 02:52:38: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3663167/SRX3663167.20_peaks.xls INFO @ Tue, 30 Jun 2020 02:52:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3663167/SRX3663167.20_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:52:38: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3663167/SRX3663167.20_summits.bed INFO @ Tue, 30 Jun 2020 02:52:38: Done! pass1 - making usageList (73 chroms): 1 millis pass2 - checking and writing primary data (144 records, 4 fields): 3 millis CompletedMACS2peakCalling