Job ID = 6529470 SRX = SRX287699 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: 00:04:24 18185990 reads; of these: 18185990 (100.00%) were unpaired; of these: 1630125 (8.96%) aligned 0 times 15027222 (82.63%) aligned exactly 1 time 1528643 (8.41%) aligned >1 times 91.04% overall alignment rate Time searching: 00:04:24 Overall time: 00:04:24 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] 1522434 / 16555865 = 0.0920 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 02:18:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287699/SRX287699.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287699/SRX287699.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287699/SRX287699.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287699/SRX287699.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 02:18:26: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:18:26: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:18:32: 1000000 INFO @ Tue, 30 Jun 2020 02:18:38: 2000000 INFO @ Tue, 30 Jun 2020 02:18:44: 3000000 INFO @ Tue, 30 Jun 2020 02:18:50: 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 02:18:56: 5000000 INFO @ Tue, 30 Jun 2020 02:18:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287699/SRX287699.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287699/SRX287699.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287699/SRX287699.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287699/SRX287699.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 02:18:56: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:18:56: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:19:02: 6000000 INFO @ Tue, 30 Jun 2020 02:19:02: 1000000 INFO @ Tue, 30 Jun 2020 02:19:08: 7000000 INFO @ Tue, 30 Jun 2020 02:19:08: 2000000 INFO @ Tue, 30 Jun 2020 02:19:14: 3000000 INFO @ Tue, 30 Jun 2020 02:19:14: 8000000 INFO @ Tue, 30 Jun 2020 02:19:20: 4000000 INFO @ Tue, 30 Jun 2020 02:19:20: 9000000 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 02:19:26: 5000000 INFO @ Tue, 30 Jun 2020 02:19:26: 10000000 INFO @ Tue, 30 Jun 2020 02:19:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287699/SRX287699.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287699/SRX287699.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287699/SRX287699.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287699/SRX287699.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 02:19:26: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:19:26: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:19:32: 1000000 INFO @ Tue, 30 Jun 2020 02:19:32: 6000000 INFO @ Tue, 30 Jun 2020 02:19:32: 11000000 INFO @ Tue, 30 Jun 2020 02:19:37: 2000000 INFO @ Tue, 30 Jun 2020 02:19:38: 7000000 INFO @ Tue, 30 Jun 2020 02:19:38: 12000000 INFO @ Tue, 30 Jun 2020 02:19:43: 3000000 INFO @ Tue, 30 Jun 2020 02:19:44: 8000000 INFO @ Tue, 30 Jun 2020 02:19:44: 13000000 INFO @ Tue, 30 Jun 2020 02:19:49: 4000000 INFO @ Tue, 30 Jun 2020 02:19:50: 9000000 INFO @ Tue, 30 Jun 2020 02:19:51: 14000000 INFO @ Tue, 30 Jun 2020 02:19:55: 5000000 INFO @ Tue, 30 Jun 2020 02:19:56: 10000000 INFO @ Tue, 30 Jun 2020 02:19:57: 15000000 INFO @ Tue, 30 Jun 2020 02:19:58: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 02:19:58: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 02:19:58: #1 total tags in treatment: 15033431 INFO @ Tue, 30 Jun 2020 02:19:58: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:19:58: #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 02:19:58: #1 tags after filtering in treatment: 15033416 INFO @ Tue, 30 Jun 2020 02:19:58: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:19:58: #1 finished! INFO @ Tue, 30 Jun 2020 02:19:58: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:19:58: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:19:59: #2 number of paired peaks: 112 WARNING @ Tue, 30 Jun 2020 02:19:59: Fewer paired peaks (112) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 112 pairs to build model! INFO @ Tue, 30 Jun 2020 02:19:59: start model_add_line... INFO @ Tue, 30 Jun 2020 02:19:59: start X-correlation... INFO @ Tue, 30 Jun 2020 02:19:59: end of X-cor INFO @ Tue, 30 Jun 2020 02:19:59: #2 finished! INFO @ Tue, 30 Jun 2020 02:19:59: #2 predicted fragment length is 117 bps INFO @ Tue, 30 Jun 2020 02:19:59: #2 alternative fragment length(s) may be 117 bps INFO @ Tue, 30 Jun 2020 02:19:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287699/SRX287699.05_model.r INFO @ Tue, 30 Jun 2020 02:19:59: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:19:59: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:20:00: 6000000 INFO @ Tue, 30 Jun 2020 02:20:02: 11000000 INFO @ Tue, 30 Jun 2020 02:20:06: 7000000 INFO @ Tue, 30 Jun 2020 02:20:08: 12000000 INFO @ Tue, 30 Jun 2020 02:20:12: 8000000 INFO @ Tue, 30 Jun 2020 02:20:15: 13000000 INFO @ Tue, 30 Jun 2020 02:20:18: 9000000 INFO @ Tue, 30 Jun 2020 02:20:21: 14000000 INFO @ Tue, 30 Jun 2020 02:20:24: 10000000 INFO @ Tue, 30 Jun 2020 02:20:27: 15000000 INFO @ Tue, 30 Jun 2020 02:20:28: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 02:20:28: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 02:20:28: #1 total tags in treatment: 15033431 INFO @ Tue, 30 Jun 2020 02:20:28: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:20:28: #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 02:20:28: #1 tags after filtering in treatment: 15033416 INFO @ Tue, 30 Jun 2020 02:20:28: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:20:28: #1 finished! INFO @ Tue, 30 Jun 2020 02:20:28: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:20:28: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:20:29: #2 number of paired peaks: 112 WARNING @ Tue, 30 Jun 2020 02:20:29: Fewer paired peaks (112) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 112 pairs to build model! INFO @ Tue, 30 Jun 2020 02:20:29: start model_add_line... INFO @ Tue, 30 Jun 2020 02:20:29: start X-correlation... INFO @ Tue, 30 Jun 2020 02:20:29: end of X-cor INFO @ Tue, 30 Jun 2020 02:20:29: #2 finished! INFO @ Tue, 30 Jun 2020 02:20:29: #2 predicted fragment length is 117 bps INFO @ Tue, 30 Jun 2020 02:20:29: #2 alternative fragment length(s) may be 117 bps INFO @ Tue, 30 Jun 2020 02:20:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287699/SRX287699.10_model.r INFO @ Tue, 30 Jun 2020 02:20:29: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:20:29: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:20:30: 11000000 INFO @ Tue, 30 Jun 2020 02:20:35: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 02:20:36: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 02:20:42: 13000000 INFO @ Tue, 30 Jun 2020 02:20:48: 14000000 INFO @ Tue, 30 Jun 2020 02:20:52: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287699/SRX287699.05_peaks.xls INFO @ Tue, 30 Jun 2020 02:20:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287699/SRX287699.05_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:20:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287699/SRX287699.05_summits.bed INFO @ Tue, 30 Jun 2020 02:20:52: Done! pass1 - making usageList (103 chroms): 1 millis pass2 - checking and writing primary data (2870 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 02:20:54: 15000000 INFO @ Tue, 30 Jun 2020 02:20:54: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 02:20:54: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 02:20:54: #1 total tags in treatment: 15033431 INFO @ Tue, 30 Jun 2020 02:20:54: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:20:54: #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 02:20:55: #1 tags after filtering in treatment: 15033416 INFO @ Tue, 30 Jun 2020 02:20:55: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:20:55: #1 finished! INFO @ Tue, 30 Jun 2020 02:20:55: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:20:55: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:20:56: #2 number of paired peaks: 112 WARNING @ Tue, 30 Jun 2020 02:20:56: Fewer paired peaks (112) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 112 pairs to build model! INFO @ Tue, 30 Jun 2020 02:20:56: start model_add_line... INFO @ Tue, 30 Jun 2020 02:20:56: start X-correlation... INFO @ Tue, 30 Jun 2020 02:20:56: end of X-cor INFO @ Tue, 30 Jun 2020 02:20:56: #2 finished! INFO @ Tue, 30 Jun 2020 02:20:56: #2 predicted fragment length is 117 bps INFO @ Tue, 30 Jun 2020 02:20:56: #2 alternative fragment length(s) may be 117 bps INFO @ Tue, 30 Jun 2020 02:20:56: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287699/SRX287699.20_model.r INFO @ Tue, 30 Jun 2020 02:20:56: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:20:56: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:21:03: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 02:21:21: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287699/SRX287699.10_peaks.xls INFO @ Tue, 30 Jun 2020 02:21:21: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287699/SRX287699.10_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:21:21: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287699/SRX287699.10_summits.bed INFO @ Tue, 30 Jun 2020 02:21:21: Done! pass1 - making usageList (72 chroms): 1 millis pass2 - checking and writing primary data (808 records, 4 fields): 5 millis CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 02:21:31: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 02:21:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287699/SRX287699.20_peaks.xls INFO @ Tue, 30 Jun 2020 02:21:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287699/SRX287699.20_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:21:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287699/SRX287699.20_summits.bed INFO @ Tue, 30 Jun 2020 02:21:49: Done! pass1 - making usageList (42 chroms): 1 millis pass2 - checking and writing primary data (161 records, 4 fields): 2 millis CompletedMACS2peakCalling