Job ID = 6529732 SRX = SRX4580638 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: 00:17:38 58279959 reads; of these: 58279959 (100.00%) were unpaired; of these: 19385541 (33.26%) aligned 0 times 17687517 (30.35%) aligned exactly 1 time 21206901 (36.39%) aligned >1 times 66.74% overall alignment rate Time searching: 00:17:38 Overall time: 00:17:38 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 16 files... [bam_rmdupse_core] 17191039 / 38894418 = 0.4420 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 03:15:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4580638/SRX4580638.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4580638/SRX4580638.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4580638/SRX4580638.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4580638/SRX4580638.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 03:15:56: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:15:56: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:16:02: 1000000 INFO @ Tue, 30 Jun 2020 03:16:07: 2000000 INFO @ Tue, 30 Jun 2020 03:16:12: 3000000 INFO @ Tue, 30 Jun 2020 03:16:17: 4000000 INFO @ Tue, 30 Jun 2020 03:16:22: 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 03:16:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4580638/SRX4580638.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4580638/SRX4580638.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4580638/SRX4580638.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4580638/SRX4580638.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 03:16:26: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:16:26: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:16:27: 6000000 INFO @ Tue, 30 Jun 2020 03:16:32: 1000000 INFO @ Tue, 30 Jun 2020 03:16:32: 7000000 INFO @ Tue, 30 Jun 2020 03:16:37: 2000000 INFO @ Tue, 30 Jun 2020 03:16:38: 8000000 INFO @ Tue, 30 Jun 2020 03:16:42: 3000000 INFO @ Tue, 30 Jun 2020 03:16:43: 9000000 INFO @ Tue, 30 Jun 2020 03:16:48: 4000000 INFO @ Tue, 30 Jun 2020 03:16:49: 10000000 INFO @ Tue, 30 Jun 2020 03:16:53: 5000000 INFO @ Tue, 30 Jun 2020 03:16:54: 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 03:16:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4580638/SRX4580638.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4580638/SRX4580638.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4580638/SRX4580638.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4580638/SRX4580638.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 03:16:56: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:16:56: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:16:59: 6000000 INFO @ Tue, 30 Jun 2020 03:17:00: 12000000 INFO @ Tue, 30 Jun 2020 03:17:02: 1000000 INFO @ Tue, 30 Jun 2020 03:17:05: 7000000 INFO @ Tue, 30 Jun 2020 03:17:05: 13000000 INFO @ Tue, 30 Jun 2020 03:17:08: 2000000 INFO @ Tue, 30 Jun 2020 03:17:11: 8000000 INFO @ Tue, 30 Jun 2020 03:17:11: 14000000 INFO @ Tue, 30 Jun 2020 03:17:14: 3000000 INFO @ Tue, 30 Jun 2020 03:17:17: 9000000 INFO @ Tue, 30 Jun 2020 03:17:17: 15000000 INFO @ Tue, 30 Jun 2020 03:17:19: 4000000 INFO @ Tue, 30 Jun 2020 03:17:22: 10000000 INFO @ Tue, 30 Jun 2020 03:17:22: 16000000 INFO @ Tue, 30 Jun 2020 03:17:25: 5000000 INFO @ Tue, 30 Jun 2020 03:17:28: 11000000 INFO @ Tue, 30 Jun 2020 03:17:29: 17000000 INFO @ Tue, 30 Jun 2020 03:17:31: 6000000 INFO @ Tue, 30 Jun 2020 03:17:34: 12000000 INFO @ Tue, 30 Jun 2020 03:17:34: 18000000 INFO @ Tue, 30 Jun 2020 03:17:37: 7000000 INFO @ Tue, 30 Jun 2020 03:17:40: 19000000 INFO @ Tue, 30 Jun 2020 03:17:40: 13000000 INFO @ Tue, 30 Jun 2020 03:17:43: 8000000 INFO @ Tue, 30 Jun 2020 03:17:46: 20000000 INFO @ Tue, 30 Jun 2020 03:17:46: 14000000 INFO @ Tue, 30 Jun 2020 03:17:49: 9000000 INFO @ Tue, 30 Jun 2020 03:17:51: 21000000 INFO @ Tue, 30 Jun 2020 03:17:52: 15000000 INFO @ Tue, 30 Jun 2020 03:17:55: 10000000 INFO @ Tue, 30 Jun 2020 03:17:56: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:17:56: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:17:56: #1 total tags in treatment: 21703379 INFO @ Tue, 30 Jun 2020 03:17:56: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:17:56: #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 03:17:56: #1 tags after filtering in treatment: 21703349 INFO @ Tue, 30 Jun 2020 03:17:56: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:17:56: #1 finished! INFO @ Tue, 30 Jun 2020 03:17:56: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:17:56: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:17:58: 16000000 INFO @ Tue, 30 Jun 2020 03:17:58: #2 number of paired peaks: 3079 INFO @ Tue, 30 Jun 2020 03:17:58: start model_add_line... INFO @ Tue, 30 Jun 2020 03:17:58: start X-correlation... INFO @ Tue, 30 Jun 2020 03:17:58: end of X-cor INFO @ Tue, 30 Jun 2020 03:17:58: #2 finished! INFO @ Tue, 30 Jun 2020 03:17:58: #2 predicted fragment length is 1 bps INFO @ Tue, 30 Jun 2020 03:17:58: #2 alternative fragment length(s) may be 1,45 bps INFO @ Tue, 30 Jun 2020 03:17:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4580638/SRX4580638.05_model.r WARNING @ Tue, 30 Jun 2020 03:17:58: #2 Since the d (1) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 03:17:58: #2 You may need to consider one of the other alternative d(s): 1,45 WARNING @ Tue, 30 Jun 2020 03:17:58: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 30 Jun 2020 03:17:58: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:17:58: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:18:00: 11000000 INFO @ Tue, 30 Jun 2020 03:18:04: 17000000 INFO @ Tue, 30 Jun 2020 03:18:06: 12000000 INFO @ Tue, 30 Jun 2020 03:18:10: 18000000 INFO @ Tue, 30 Jun 2020 03:18:12: 13000000 INFO @ Tue, 30 Jun 2020 03:18:16: 19000000 INFO @ Tue, 30 Jun 2020 03:18:18: 14000000 INFO @ Tue, 30 Jun 2020 03:18:22: 20000000 INFO @ Tue, 30 Jun 2020 03:18:24: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 03:18:29: 21000000 INFO @ Tue, 30 Jun 2020 03:18:30: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 03:18:30: 16000000 INFO @ Tue, 30 Jun 2020 03:18:34: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:18:34: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:18:34: #1 total tags in treatment: 21703379 INFO @ Tue, 30 Jun 2020 03:18:34: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:18:34: #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 03:18:34: #1 tags after filtering in treatment: 21703349 INFO @ Tue, 30 Jun 2020 03:18:34: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:18:34: #1 finished! INFO @ Tue, 30 Jun 2020 03:18:34: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:18:34: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:18:36: #2 number of paired peaks: 3079 INFO @ Tue, 30 Jun 2020 03:18:36: start model_add_line... INFO @ Tue, 30 Jun 2020 03:18:36: start X-correlation... INFO @ Tue, 30 Jun 2020 03:18:36: end of X-cor INFO @ Tue, 30 Jun 2020 03:18:36: #2 finished! INFO @ Tue, 30 Jun 2020 03:18:36: #2 predicted fragment length is 1 bps INFO @ Tue, 30 Jun 2020 03:18:36: #2 alternative fragment length(s) may be 1,45 bps INFO @ Tue, 30 Jun 2020 03:18:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4580638/SRX4580638.10_model.r WARNING @ Tue, 30 Jun 2020 03:18:36: #2 Since the d (1) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 03:18:36: #2 You may need to consider one of the other alternative d(s): 1,45 WARNING @ Tue, 30 Jun 2020 03:18:36: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 30 Jun 2020 03:18:36: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:18:36: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:18:37: 17000000 INFO @ Tue, 30 Jun 2020 03:18:43: 18000000 INFO @ Tue, 30 Jun 2020 03:18:46: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4580638/SRX4580638.05_peaks.xls INFO @ Tue, 30 Jun 2020 03:18:46: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4580638/SRX4580638.05_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:18:46: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4580638/SRX4580638.05_summits.bed INFO @ Tue, 30 Jun 2020 03:18:46: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 03:18:49: 19000000 INFO @ Tue, 30 Jun 2020 03:18:54: 20000000 INFO @ Tue, 30 Jun 2020 03:19:00: 21000000 INFO @ Tue, 30 Jun 2020 03:19:04: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:19:04: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:19:04: #1 total tags in treatment: 21703379 INFO @ Tue, 30 Jun 2020 03:19:04: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:19:04: #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 03:19:05: #1 tags after filtering in treatment: 21703349 INFO @ Tue, 30 Jun 2020 03:19:05: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:19:05: #1 finished! INFO @ Tue, 30 Jun 2020 03:19:05: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:19:05: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:19:07: #2 number of paired peaks: 3079 INFO @ Tue, 30 Jun 2020 03:19:07: start model_add_line... INFO @ Tue, 30 Jun 2020 03:19:07: start X-correlation... INFO @ Tue, 30 Jun 2020 03:19:07: end of X-cor INFO @ Tue, 30 Jun 2020 03:19:07: #2 finished! INFO @ Tue, 30 Jun 2020 03:19:07: #2 predicted fragment length is 1 bps INFO @ Tue, 30 Jun 2020 03:19:07: #2 alternative fragment length(s) may be 1,45 bps INFO @ Tue, 30 Jun 2020 03:19:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4580638/SRX4580638.20_model.r WARNING @ Tue, 30 Jun 2020 03:19:07: #2 Since the d (1) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 03:19:07: #2 You may need to consider one of the other alternative d(s): 1,45 WARNING @ Tue, 30 Jun 2020 03:19:07: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 30 Jun 2020 03:19:07: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:19:07: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 03:19:09: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 03:19:24: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4580638/SRX4580638.10_peaks.xls INFO @ Tue, 30 Jun 2020 03:19:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4580638/SRX4580638.10_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:19:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4580638/SRX4580638.10_summits.bed INFO @ Tue, 30 Jun 2020 03:19:24: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 03:19:39: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 03:19:54: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4580638/SRX4580638.20_peaks.xls INFO @ Tue, 30 Jun 2020 03:19:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4580638/SRX4580638.20_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:19:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4580638/SRX4580638.20_summits.bed INFO @ Tue, 30 Jun 2020 03:19:54: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling