Job ID = 6529276 SRX = SRX1167419 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: 00:15:49 37699681 reads; of these: 37699681 (100.00%) were unpaired; of these: 1376776 (3.65%) aligned 0 times 12495081 (33.14%) aligned exactly 1 time 23827824 (63.20%) aligned >1 times 96.35% overall alignment rate Time searching: 00:15:49 Overall time: 00:15:49 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] 11598091 / 36322905 = 0.3193 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 02:41:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1167419/SRX1167419.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1167419/SRX1167419.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1167419/SRX1167419.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1167419/SRX1167419.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 02:41:36: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:41:36: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:41:43: 1000000 INFO @ Tue, 30 Jun 2020 02:41:51: 2000000 INFO @ Tue, 30 Jun 2020 02:41:58: 3000000 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 02:42:05: 4000000 INFO @ Tue, 30 Jun 2020 02:42:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1167419/SRX1167419.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1167419/SRX1167419.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1167419/SRX1167419.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1167419/SRX1167419.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 02:42:06: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:42:06: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:42:13: 5000000 INFO @ Tue, 30 Jun 2020 02:42:14: 1000000 INFO @ Tue, 30 Jun 2020 02:42:20: 6000000 INFO @ Tue, 30 Jun 2020 02:42:21: 2000000 INFO @ Tue, 30 Jun 2020 02:42:28: 7000000 INFO @ Tue, 30 Jun 2020 02:42:29: 3000000 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 02:42:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1167419/SRX1167419.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1167419/SRX1167419.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1167419/SRX1167419.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1167419/SRX1167419.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 02:42:36: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:42:36: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:42:36: 8000000 INFO @ Tue, 30 Jun 2020 02:42:37: 4000000 INFO @ Tue, 30 Jun 2020 02:42:44: 9000000 INFO @ Tue, 30 Jun 2020 02:42:44: 1000000 INFO @ Tue, 30 Jun 2020 02:42:45: 5000000 INFO @ Tue, 30 Jun 2020 02:42:52: 2000000 INFO @ Tue, 30 Jun 2020 02:42:52: 10000000 INFO @ Tue, 30 Jun 2020 02:42:53: 6000000 INFO @ Tue, 30 Jun 2020 02:42:59: 3000000 INFO @ Tue, 30 Jun 2020 02:43:00: 11000000 INFO @ Tue, 30 Jun 2020 02:43:01: 7000000 INFO @ Tue, 30 Jun 2020 02:43:07: 4000000 INFO @ Tue, 30 Jun 2020 02:43:08: 12000000 INFO @ Tue, 30 Jun 2020 02:43:10: 8000000 INFO @ Tue, 30 Jun 2020 02:43:15: 5000000 INFO @ Tue, 30 Jun 2020 02:43:15: 13000000 INFO @ Tue, 30 Jun 2020 02:43:18: 9000000 INFO @ Tue, 30 Jun 2020 02:43:23: 6000000 INFO @ Tue, 30 Jun 2020 02:43:23: 14000000 INFO @ Tue, 30 Jun 2020 02:43:26: 10000000 INFO @ Tue, 30 Jun 2020 02:43:30: 7000000 INFO @ Tue, 30 Jun 2020 02:43:30: 15000000 INFO @ Tue, 30 Jun 2020 02:43:34: 11000000 INFO @ Tue, 30 Jun 2020 02:43:38: 16000000 INFO @ Tue, 30 Jun 2020 02:43:38: 8000000 INFO @ Tue, 30 Jun 2020 02:43:43: 12000000 INFO @ Tue, 30 Jun 2020 02:43:46: 17000000 INFO @ Tue, 30 Jun 2020 02:43:46: 9000000 INFO @ Tue, 30 Jun 2020 02:43:51: 13000000 INFO @ Tue, 30 Jun 2020 02:43:53: 18000000 INFO @ Tue, 30 Jun 2020 02:43:53: 10000000 INFO @ Tue, 30 Jun 2020 02:43:59: 14000000 INFO @ Tue, 30 Jun 2020 02:44:01: 11000000 INFO @ Tue, 30 Jun 2020 02:44:01: 19000000 INFO @ Tue, 30 Jun 2020 02:44:07: 15000000 INFO @ Tue, 30 Jun 2020 02:44:08: 12000000 INFO @ Tue, 30 Jun 2020 02:44:09: 20000000 INFO @ Tue, 30 Jun 2020 02:44:15: 16000000 INFO @ Tue, 30 Jun 2020 02:44:16: 13000000 INFO @ Tue, 30 Jun 2020 02:44:16: 21000000 INFO @ Tue, 30 Jun 2020 02:44:23: 14000000 INFO @ Tue, 30 Jun 2020 02:44:23: 22000000 INFO @ Tue, 30 Jun 2020 02:44:24: 17000000 INFO @ Tue, 30 Jun 2020 02:44:30: 15000000 INFO @ Tue, 30 Jun 2020 02:44:31: 23000000 INFO @ Tue, 30 Jun 2020 02:44:32: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 02:44:38: 16000000 INFO @ Tue, 30 Jun 2020 02:44:38: 24000000 INFO @ Tue, 30 Jun 2020 02:44:41: 19000000 INFO @ Tue, 30 Jun 2020 02:44:43: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 02:44:43: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 02:44:43: #1 total tags in treatment: 24724814 INFO @ Tue, 30 Jun 2020 02:44:43: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:44:43: #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 02:44:45: #1 tags after filtering in treatment: 24724814 INFO @ Tue, 30 Jun 2020 02:44:45: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:44:45: #1 finished! INFO @ Tue, 30 Jun 2020 02:44:45: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:44:45: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:44:45: 17000000 INFO @ Tue, 30 Jun 2020 02:44:46: #2 number of paired peaks: 2024 INFO @ Tue, 30 Jun 2020 02:44:46: start model_add_line... INFO @ Tue, 30 Jun 2020 02:44:47: start X-correlation... INFO @ Tue, 30 Jun 2020 02:44:47: end of X-cor INFO @ Tue, 30 Jun 2020 02:44:47: #2 finished! INFO @ Tue, 30 Jun 2020 02:44:47: #2 predicted fragment length is 1 bps INFO @ Tue, 30 Jun 2020 02:44:47: #2 alternative fragment length(s) may be 1,30 bps INFO @ Tue, 30 Jun 2020 02:44:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1167419/SRX1167419.05_model.r WARNING @ Tue, 30 Jun 2020 02:44:47: #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 02:44:47: #2 You may need to consider one of the other alternative d(s): 1,30 WARNING @ Tue, 30 Jun 2020 02:44:47: #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 02:44:47: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:44:47: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:44:49: 20000000 INFO @ Tue, 30 Jun 2020 02:44:52: 18000000 INFO @ Tue, 30 Jun 2020 02:44:57: 21000000 INFO @ Tue, 30 Jun 2020 02:45:00: 19000000 INFO @ Tue, 30 Jun 2020 02:45:05: 22000000 INFO @ Tue, 30 Jun 2020 02:45:08: 20000000 INFO @ Tue, 30 Jun 2020 02:45:13: 23000000 INFO @ Tue, 30 Jun 2020 02:45:15: 21000000 INFO @ Tue, 30 Jun 2020 02:45:19: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 02:45:20: 24000000 INFO @ Tue, 30 Jun 2020 02:45:21: 22000000 INFO @ Tue, 30 Jun 2020 02:45:26: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 02:45:26: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 02:45:26: #1 total tags in treatment: 24724814 INFO @ Tue, 30 Jun 2020 02:45:26: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:45:26: #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 02:45:27: #1 tags after filtering in treatment: 24724814 INFO @ Tue, 30 Jun 2020 02:45:27: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:45:27: #1 finished! INFO @ Tue, 30 Jun 2020 02:45:27: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:45:27: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 02:45:28: 23000000 INFO @ Tue, 30 Jun 2020 02:45:29: #2 number of paired peaks: 2024 INFO @ Tue, 30 Jun 2020 02:45:29: start model_add_line... INFO @ Tue, 30 Jun 2020 02:45:29: start X-correlation... INFO @ Tue, 30 Jun 2020 02:45:29: end of X-cor INFO @ Tue, 30 Jun 2020 02:45:29: #2 finished! INFO @ Tue, 30 Jun 2020 02:45:29: #2 predicted fragment length is 1 bps INFO @ Tue, 30 Jun 2020 02:45:29: #2 alternative fragment length(s) may be 1,30 bps INFO @ Tue, 30 Jun 2020 02:45:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1167419/SRX1167419.10_model.r WARNING @ Tue, 30 Jun 2020 02:45:29: #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 02:45:29: #2 You may need to consider one of the other alternative d(s): 1,30 WARNING @ Tue, 30 Jun 2020 02:45:29: #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 02:45:29: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:45:29: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:45:34: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1167419/SRX1167419.05_peaks.xls INFO @ Tue, 30 Jun 2020 02:45:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1167419/SRX1167419.05_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:45:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1167419/SRX1167419.05_summits.bed INFO @ Tue, 30 Jun 2020 02:45:34: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 02:45:35: 24000000 INFO @ Tue, 30 Jun 2020 02:45:40: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 02:45:40: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 02:45:40: #1 total tags in treatment: 24724814 INFO @ Tue, 30 Jun 2020 02:45:40: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:45:40: #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 02:45:41: #1 tags after filtering in treatment: 24724814 INFO @ Tue, 30 Jun 2020 02:45:41: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:45:41: #1 finished! INFO @ Tue, 30 Jun 2020 02:45:41: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:45:41: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:45:42: #2 number of paired peaks: 2024 INFO @ Tue, 30 Jun 2020 02:45:42: start model_add_line... INFO @ Tue, 30 Jun 2020 02:45:43: start X-correlation... INFO @ Tue, 30 Jun 2020 02:45:43: end of X-cor INFO @ Tue, 30 Jun 2020 02:45:43: #2 finished! INFO @ Tue, 30 Jun 2020 02:45:43: #2 predicted fragment length is 1 bps INFO @ Tue, 30 Jun 2020 02:45:43: #2 alternative fragment length(s) may be 1,30 bps INFO @ Tue, 30 Jun 2020 02:45:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1167419/SRX1167419.20_model.r WARNING @ Tue, 30 Jun 2020 02:45:43: #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 02:45:43: #2 You may need to consider one of the other alternative d(s): 1,30 WARNING @ Tue, 30 Jun 2020 02:45:43: #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 02:45:43: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:45:43: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:46:01: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 02:46:14: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 02:46:16: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1167419/SRX1167419.10_peaks.xls INFO @ Tue, 30 Jun 2020 02:46:16: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1167419/SRX1167419.10_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:46:16: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1167419/SRX1167419.10_summits.bed INFO @ Tue, 30 Jun 2020 02:46:16: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 02:46:29: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1167419/SRX1167419.20_peaks.xls INFO @ Tue, 30 Jun 2020 02:46:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1167419/SRX1167419.20_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:46:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1167419/SRX1167419.20_summits.bed INFO @ Tue, 30 Jun 2020 02:46:29: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling