Job ID = 6529296 SRX = SRX1361347 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: 00:15:04 44151115 reads; of these: 44151115 (100.00%) were unpaired; of these: 1397335 (3.16%) aligned 0 times 17706715 (40.10%) aligned exactly 1 time 25047065 (56.73%) aligned >1 times 96.84% overall alignment rate Time searching: 00:15:04 Overall time: 00:15:04 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 20 files... [bam_rmdupse_core] 16999499 / 42753780 = 0.3976 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 02:07:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1361347/SRX1361347.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1361347/SRX1361347.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1361347/SRX1361347.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1361347/SRX1361347.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 02:07:59: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:07:59: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:08:04: 1000000 INFO @ Tue, 30 Jun 2020 02:08:09: 2000000 INFO @ Tue, 30 Jun 2020 02:08:15: 3000000 INFO @ Tue, 30 Jun 2020 02:08:20: 4000000 INFO @ Tue, 30 Jun 2020 02:08:26: 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 02:08:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1361347/SRX1361347.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1361347/SRX1361347.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1361347/SRX1361347.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1361347/SRX1361347.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 02:08:29: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:08:29: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:08:31: 6000000 INFO @ Tue, 30 Jun 2020 02:08:35: 1000000 INFO @ Tue, 30 Jun 2020 02:08:37: 7000000 INFO @ Tue, 30 Jun 2020 02:08:41: 2000000 INFO @ Tue, 30 Jun 2020 02:08:43: 8000000 INFO @ Tue, 30 Jun 2020 02:08:46: 3000000 INFO @ Tue, 30 Jun 2020 02:08:49: 9000000 INFO @ Tue, 30 Jun 2020 02:08:52: 4000000 INFO @ Tue, 30 Jun 2020 02:08:54: 10000000 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 02:08:58: 5000000 INFO @ Tue, 30 Jun 2020 02:08:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1361347/SRX1361347.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1361347/SRX1361347.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1361347/SRX1361347.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1361347/SRX1361347.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 02:08:59: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:08:59: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:09:00: 11000000 INFO @ Tue, 30 Jun 2020 02:09:04: 6000000 INFO @ Tue, 30 Jun 2020 02:09:05: 1000000 INFO @ Tue, 30 Jun 2020 02:09:06: 12000000 INFO @ Tue, 30 Jun 2020 02:09:10: 7000000 INFO @ Tue, 30 Jun 2020 02:09:11: 2000000 INFO @ Tue, 30 Jun 2020 02:09:12: 13000000 INFO @ Tue, 30 Jun 2020 02:09:16: 8000000 INFO @ Tue, 30 Jun 2020 02:09:17: 3000000 INFO @ Tue, 30 Jun 2020 02:09:18: 14000000 INFO @ Tue, 30 Jun 2020 02:09:21: 9000000 INFO @ Tue, 30 Jun 2020 02:09:22: 4000000 INFO @ Tue, 30 Jun 2020 02:09:24: 15000000 INFO @ Tue, 30 Jun 2020 02:09:27: 10000000 INFO @ Tue, 30 Jun 2020 02:09:28: 5000000 INFO @ Tue, 30 Jun 2020 02:09:30: 16000000 INFO @ Tue, 30 Jun 2020 02:09:33: 11000000 INFO @ Tue, 30 Jun 2020 02:09:34: 6000000 INFO @ Tue, 30 Jun 2020 02:09:36: 17000000 INFO @ Tue, 30 Jun 2020 02:09:39: 12000000 INFO @ Tue, 30 Jun 2020 02:09:40: 7000000 INFO @ Tue, 30 Jun 2020 02:09:42: 18000000 INFO @ Tue, 30 Jun 2020 02:09:45: 13000000 INFO @ Tue, 30 Jun 2020 02:09:46: 8000000 INFO @ Tue, 30 Jun 2020 02:09:48: 19000000 INFO @ Tue, 30 Jun 2020 02:09:51: 14000000 INFO @ Tue, 30 Jun 2020 02:09:52: 9000000 INFO @ Tue, 30 Jun 2020 02:09:54: 20000000 INFO @ Tue, 30 Jun 2020 02:09:57: 15000000 INFO @ Tue, 30 Jun 2020 02:09:58: 10000000 INFO @ Tue, 30 Jun 2020 02:10:00: 21000000 INFO @ Tue, 30 Jun 2020 02:10:03: 16000000 INFO @ Tue, 30 Jun 2020 02:10:04: 11000000 INFO @ Tue, 30 Jun 2020 02:10:06: 22000000 INFO @ Tue, 30 Jun 2020 02:10:09: 17000000 INFO @ Tue, 30 Jun 2020 02:10:10: 12000000 INFO @ Tue, 30 Jun 2020 02:10:12: 23000000 INFO @ Tue, 30 Jun 2020 02:10:15: 18000000 INFO @ Tue, 30 Jun 2020 02:10:15: 13000000 INFO @ Tue, 30 Jun 2020 02:10:18: 24000000 INFO @ Tue, 30 Jun 2020 02:10:21: 19000000 INFO @ Tue, 30 Jun 2020 02:10:21: 14000000 INFO @ Tue, 30 Jun 2020 02:10:24: 25000000 INFO @ Tue, 30 Jun 2020 02:10:27: 20000000 INFO @ Tue, 30 Jun 2020 02:10:27: 15000000 INFO @ Tue, 30 Jun 2020 02:10:28: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 02:10:28: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 02:10:28: #1 total tags in treatment: 25754281 INFO @ Tue, 30 Jun 2020 02:10:28: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:10:28: #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 02:10:29: #1 tags after filtering in treatment: 25754256 INFO @ Tue, 30 Jun 2020 02:10:29: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:10:29: #1 finished! INFO @ Tue, 30 Jun 2020 02:10:29: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:10:29: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:10:31: #2 number of paired peaks: 3359 INFO @ Tue, 30 Jun 2020 02:10:31: start model_add_line... INFO @ Tue, 30 Jun 2020 02:10:31: start X-correlation... INFO @ Tue, 30 Jun 2020 02:10:31: end of X-cor INFO @ Tue, 30 Jun 2020 02:10:31: #2 finished! INFO @ Tue, 30 Jun 2020 02:10:31: #2 predicted fragment length is 1 bps INFO @ Tue, 30 Jun 2020 02:10:31: #2 alternative fragment length(s) may be 1,48 bps INFO @ Tue, 30 Jun 2020 02:10:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1361347/SRX1361347.05_model.r WARNING @ Tue, 30 Jun 2020 02:10:31: #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 02:10:31: #2 You may need to consider one of the other alternative d(s): 1,48 WARNING @ Tue, 30 Jun 2020 02:10:31: #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 02:10:31: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:10:31: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:10:33: 21000000 INFO @ Tue, 30 Jun 2020 02:10:33: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 02:10:39: 22000000 INFO @ Tue, 30 Jun 2020 02:10:39: 17000000 INFO @ Tue, 30 Jun 2020 02:10:45: 23000000 INFO @ Tue, 30 Jun 2020 02:10:45: 18000000 INFO @ Tue, 30 Jun 2020 02:10:50: 24000000 INFO @ Tue, 30 Jun 2020 02:10:51: 19000000 INFO @ Tue, 30 Jun 2020 02:10:56: 25000000 INFO @ Tue, 30 Jun 2020 02:10:57: 20000000 INFO @ Tue, 30 Jun 2020 02:11:01: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 02:11:01: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 02:11:01: #1 total tags in treatment: 25754281 INFO @ Tue, 30 Jun 2020 02:11:01: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:11:01: #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 02:11:01: #1 tags after filtering in treatment: 25754256 INFO @ Tue, 30 Jun 2020 02:11:01: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:11:01: #1 finished! INFO @ Tue, 30 Jun 2020 02:11:01: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:11:01: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:11:03: 21000000 INFO @ Tue, 30 Jun 2020 02:11:03: #2 number of paired peaks: 3359 INFO @ Tue, 30 Jun 2020 02:11:03: start model_add_line... INFO @ Tue, 30 Jun 2020 02:11:03: start X-correlation... INFO @ Tue, 30 Jun 2020 02:11:03: end of X-cor INFO @ Tue, 30 Jun 2020 02:11:03: #2 finished! INFO @ Tue, 30 Jun 2020 02:11:03: #2 predicted fragment length is 1 bps INFO @ Tue, 30 Jun 2020 02:11:03: #2 alternative fragment length(s) may be 1,48 bps INFO @ Tue, 30 Jun 2020 02:11:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1361347/SRX1361347.10_model.r WARNING @ Tue, 30 Jun 2020 02:11:04: #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 02:11:04: #2 You may need to consider one of the other alternative d(s): 1,48 WARNING @ Tue, 30 Jun 2020 02:11:04: #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 02:11:04: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:11:04: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:11:04: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 02:11:08: 22000000 INFO @ Tue, 30 Jun 2020 02:11:14: 23000000 BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 02:11:20: 24000000 INFO @ Tue, 30 Jun 2020 02:11:20: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1361347/SRX1361347.05_peaks.xls INFO @ Tue, 30 Jun 2020 02:11:20: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1361347/SRX1361347.05_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:11:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1361347/SRX1361347.05_summits.bed INFO @ Tue, 30 Jun 2020 02:11:20: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 02:11:25: 25000000 INFO @ Tue, 30 Jun 2020 02:11:30: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 02:11:30: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 02:11:30: #1 total tags in treatment: 25754281 INFO @ Tue, 30 Jun 2020 02:11:30: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:11:30: #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 02:11:30: #1 tags after filtering in treatment: 25754256 INFO @ Tue, 30 Jun 2020 02:11:30: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:11:30: #1 finished! INFO @ Tue, 30 Jun 2020 02:11:30: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:11:30: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:11:32: #2 number of paired peaks: 3359 INFO @ Tue, 30 Jun 2020 02:11:32: start model_add_line... INFO @ Tue, 30 Jun 2020 02:11:33: start X-correlation... INFO @ Tue, 30 Jun 2020 02:11:33: end of X-cor INFO @ Tue, 30 Jun 2020 02:11:33: #2 finished! INFO @ Tue, 30 Jun 2020 02:11:33: #2 predicted fragment length is 1 bps INFO @ Tue, 30 Jun 2020 02:11:33: #2 alternative fragment length(s) may be 1,48 bps INFO @ Tue, 30 Jun 2020 02:11:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1361347/SRX1361347.20_model.r WARNING @ Tue, 30 Jun 2020 02:11:33: #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 02:11:33: #2 You may need to consider one of the other alternative d(s): 1,48 WARNING @ Tue, 30 Jun 2020 02:11:33: #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 02:11:33: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:11:33: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:11:37: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 02:11:52: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1361347/SRX1361347.10_peaks.xls INFO @ Tue, 30 Jun 2020 02:11:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1361347/SRX1361347.10_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:11:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1361347/SRX1361347.10_summits.bed INFO @ Tue, 30 Jun 2020 02:11:52: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 02:12:07: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 02:12:23: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1361347/SRX1361347.20_peaks.xls INFO @ Tue, 30 Jun 2020 02:12:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1361347/SRX1361347.20_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:12:23: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1361347/SRX1361347.20_summits.bed INFO @ Tue, 30 Jun 2020 02:12:23: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling