Job ID = 14170774 SRX = SRX9720910 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: 00:08:43 21641613 reads; of these: 21641613 (100.00%) were unpaired; of these: 928974 (4.29%) aligned 0 times 14484018 (66.93%) aligned exactly 1 time 6228621 (28.78%) aligned >1 times 95.71% overall alignment rate Time searching: 00:08:43 Overall time: 00:08:43 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] 2499113 / 20712639 = 0.1207 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 @ Sat, 11 Dec 2021 08:48:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9720910/SRX9720910.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9720910/SRX9720910.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9720910/SRX9720910.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9720910/SRX9720910.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 @ Sat, 11 Dec 2021 08:48:47: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:48:47: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:48:56: 1000000 INFO @ Sat, 11 Dec 2021 08:49:05: 2000000 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 @ Sat, 11 Dec 2021 08:49:14: 3000000 INFO @ Sat, 11 Dec 2021 08:49:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9720910/SRX9720910.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9720910/SRX9720910.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9720910/SRX9720910.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9720910/SRX9720910.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 @ Sat, 11 Dec 2021 08:49:16: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:49:16: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:49:23: 4000000 INFO @ Sat, 11 Dec 2021 08:49:27: 1000000 INFO @ Sat, 11 Dec 2021 08:49:32: 5000000 INFO @ Sat, 11 Dec 2021 08:49:36: 2000000 INFO @ Sat, 11 Dec 2021 08:49:41: 6000000 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 @ Sat, 11 Dec 2021 08:49:46: 3000000 INFO @ Sat, 11 Dec 2021 08:49:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9720910/SRX9720910.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9720910/SRX9720910.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9720910/SRX9720910.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9720910/SRX9720910.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 @ Sat, 11 Dec 2021 08:49:46: #1 read tag files... INFO @ Sat, 11 Dec 2021 08:49:46: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 08:49:50: 7000000 INFO @ Sat, 11 Dec 2021 08:49:56: 1000000 INFO @ Sat, 11 Dec 2021 08:49:56: 4000000 INFO @ Sat, 11 Dec 2021 08:49:59: 8000000 INFO @ Sat, 11 Dec 2021 08:50:05: 2000000 INFO @ Sat, 11 Dec 2021 08:50:06: 5000000 INFO @ Sat, 11 Dec 2021 08:50:08: 9000000 INFO @ Sat, 11 Dec 2021 08:50:15: 3000000 INFO @ Sat, 11 Dec 2021 08:50:16: 6000000 INFO @ Sat, 11 Dec 2021 08:50:18: 10000000 INFO @ Sat, 11 Dec 2021 08:50:24: 4000000 INFO @ Sat, 11 Dec 2021 08:50:26: 7000000 INFO @ Sat, 11 Dec 2021 08:50:27: 11000000 INFO @ Sat, 11 Dec 2021 08:50:34: 5000000 INFO @ Sat, 11 Dec 2021 08:50:36: 8000000 INFO @ Sat, 11 Dec 2021 08:50:36: 12000000 INFO @ Sat, 11 Dec 2021 08:50:44: 6000000 INFO @ Sat, 11 Dec 2021 08:50:45: 13000000 INFO @ Sat, 11 Dec 2021 08:50:46: 9000000 INFO @ Sat, 11 Dec 2021 08:50:53: 7000000 INFO @ Sat, 11 Dec 2021 08:50:54: 14000000 INFO @ Sat, 11 Dec 2021 08:50:56: 10000000 INFO @ Sat, 11 Dec 2021 08:51:02: 8000000 INFO @ Sat, 11 Dec 2021 08:51:04: 15000000 INFO @ Sat, 11 Dec 2021 08:51:06: 11000000 INFO @ Sat, 11 Dec 2021 08:51:12: 9000000 INFO @ Sat, 11 Dec 2021 08:51:14: 16000000 INFO @ Sat, 11 Dec 2021 08:51:16: 12000000 INFO @ Sat, 11 Dec 2021 08:51:21: 10000000 INFO @ Sat, 11 Dec 2021 08:51:23: 17000000 INFO @ Sat, 11 Dec 2021 08:51:26: 13000000 INFO @ Sat, 11 Dec 2021 08:51:31: 11000000 INFO @ Sat, 11 Dec 2021 08:51:33: 18000000 INFO @ Sat, 11 Dec 2021 08:51:35: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 08:51:35: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 08:51:35: #1 total tags in treatment: 18213526 INFO @ Sat, 11 Dec 2021 08:51:35: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:51:35: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 08:51:35: #1 tags after filtering in treatment: 18213454 INFO @ Sat, 11 Dec 2021 08:51:35: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 08:51:35: #1 finished! INFO @ Sat, 11 Dec 2021 08:51:35: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:51:35: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 08:51:35: 14000000 INFO @ Sat, 11 Dec 2021 08:51:37: #2 number of paired peaks: 972 WARNING @ Sat, 11 Dec 2021 08:51:37: Fewer paired peaks (972) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 972 pairs to build model! INFO @ Sat, 11 Dec 2021 08:51:37: start model_add_line... INFO @ Sat, 11 Dec 2021 08:51:37: start X-correlation... INFO @ Sat, 11 Dec 2021 08:51:37: end of X-cor INFO @ Sat, 11 Dec 2021 08:51:37: #2 finished! INFO @ Sat, 11 Dec 2021 08:51:37: #2 predicted fragment length is 51 bps INFO @ Sat, 11 Dec 2021 08:51:37: #2 alternative fragment length(s) may be 2,51 bps INFO @ Sat, 11 Dec 2021 08:51:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9720910/SRX9720910.05_model.r WARNING @ Sat, 11 Dec 2021 08:51:37: #2 Since the d (51) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 08:51:37: #2 You may need to consider one of the other alternative d(s): 2,51 WARNING @ Sat, 11 Dec 2021 08:51:37: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 08:51:37: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:51:37: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 08:51:40: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 08:51:45: 15000000 INFO @ Sat, 11 Dec 2021 08:51:49: 13000000 INFO @ Sat, 11 Dec 2021 08:51:55: 16000000 INFO @ Sat, 11 Dec 2021 08:51:58: 14000000 INFO @ Sat, 11 Dec 2021 08:52:05: 17000000 INFO @ Sat, 11 Dec 2021 08:52:08: 15000000 INFO @ Sat, 11 Dec 2021 08:52:16: 18000000 INFO @ Sat, 11 Dec 2021 08:52:17: 16000000 INFO @ Sat, 11 Dec 2021 08:52:18: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 08:52:18: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 08:52:18: #1 total tags in treatment: 18213526 INFO @ Sat, 11 Dec 2021 08:52:18: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:52:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 08:52:19: #1 tags after filtering in treatment: 18213454 INFO @ Sat, 11 Dec 2021 08:52:19: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 08:52:19: #1 finished! INFO @ Sat, 11 Dec 2021 08:52:19: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:52:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 08:52:20: #2 number of paired peaks: 972 WARNING @ Sat, 11 Dec 2021 08:52:20: Fewer paired peaks (972) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 972 pairs to build model! INFO @ Sat, 11 Dec 2021 08:52:20: start model_add_line... INFO @ Sat, 11 Dec 2021 08:52:20: start X-correlation... INFO @ Sat, 11 Dec 2021 08:52:20: end of X-cor INFO @ Sat, 11 Dec 2021 08:52:20: #2 finished! INFO @ Sat, 11 Dec 2021 08:52:20: #2 predicted fragment length is 51 bps INFO @ Sat, 11 Dec 2021 08:52:20: #2 alternative fragment length(s) may be 2,51 bps INFO @ Sat, 11 Dec 2021 08:52:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9720910/SRX9720910.10_model.r WARNING @ Sat, 11 Dec 2021 08:52:20: #2 Since the d (51) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 08:52:20: #2 You may need to consider one of the other alternative d(s): 2,51 WARNING @ Sat, 11 Dec 2021 08:52:20: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 08:52:20: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:52:20: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 08:52:27: 17000000 INFO @ Sat, 11 Dec 2021 08:52:27: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 08:52:36: 18000000 INFO @ Sat, 11 Dec 2021 08:52:38: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 08:52:38: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 08:52:38: #1 total tags in treatment: 18213526 INFO @ Sat, 11 Dec 2021 08:52:38: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 08:52:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 08:52:39: #1 tags after filtering in treatment: 18213454 INFO @ Sat, 11 Dec 2021 08:52:39: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 08:52:39: #1 finished! INFO @ Sat, 11 Dec 2021 08:52:39: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 08:52:39: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 08:52:41: #2 number of paired peaks: 972 WARNING @ Sat, 11 Dec 2021 08:52:41: Fewer paired peaks (972) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 972 pairs to build model! INFO @ Sat, 11 Dec 2021 08:52:41: start model_add_line... INFO @ Sat, 11 Dec 2021 08:52:41: start X-correlation... INFO @ Sat, 11 Dec 2021 08:52:41: end of X-cor INFO @ Sat, 11 Dec 2021 08:52:41: #2 finished! INFO @ Sat, 11 Dec 2021 08:52:41: #2 predicted fragment length is 51 bps INFO @ Sat, 11 Dec 2021 08:52:41: #2 alternative fragment length(s) may be 2,51 bps INFO @ Sat, 11 Dec 2021 08:52:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9720910/SRX9720910.20_model.r WARNING @ Sat, 11 Dec 2021 08:52:41: #2 Since the d (51) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 08:52:41: #2 You may need to consider one of the other alternative d(s): 2,51 WARNING @ Sat, 11 Dec 2021 08:52:41: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 08:52:41: #3 Call peaks... INFO @ Sat, 11 Dec 2021 08:52:41: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 08:52:51: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9720910/SRX9720910.05_peaks.xls INFO @ Sat, 11 Dec 2021 08:52:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9720910/SRX9720910.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:52:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9720910/SRX9720910.05_summits.bed INFO @ Sat, 11 Dec 2021 08:52:51: Done! pass1 - making usageList (595 chroms): 5 millis pass2 - checking and writing primary data (3572 records, 4 fields): 30 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 08:53:08: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 08:53:29: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 08:53:31: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9720910/SRX9720910.10_peaks.xls INFO @ Sat, 11 Dec 2021 08:53:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9720910/SRX9720910.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:53:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9720910/SRX9720910.10_summits.bed INFO @ Sat, 11 Dec 2021 08:53:31: Done! pass1 - making usageList (517 chroms): 3 millis pass2 - checking and writing primary data (2467 records, 4 fields): 25 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 08:53:52: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9720910/SRX9720910.20_peaks.xls INFO @ Sat, 11 Dec 2021 08:53:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9720910/SRX9720910.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 08:53:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9720910/SRX9720910.20_summits.bed INFO @ Sat, 11 Dec 2021 08:53:52: Done! pass1 - making usageList (372 chroms): 2 millis pass2 - checking and writing primary data (1065 records, 4 fields): 19 millis CompletedMACS2peakCalling