Job ID = 6529365 SRX = SRX2055963 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: 00:08:05 24311469 reads; of these: 24311469 (100.00%) were unpaired; of these: 675474 (2.78%) aligned 0 times 15570748 (64.05%) aligned exactly 1 time 8065247 (33.17%) aligned >1 times 97.22% overall alignment rate Time searching: 00:08:05 Overall time: 00:08:05 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] 3583681 / 23635995 = 0.1516 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 02:06:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2055963/SRX2055963.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2055963/SRX2055963.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2055963/SRX2055963.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2055963/SRX2055963.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 02:06:30: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:06:30: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:06:35: 1000000 INFO @ Tue, 30 Jun 2020 02:06:41: 2000000 INFO @ Tue, 30 Jun 2020 02:06:46: 3000000 INFO @ Tue, 30 Jun 2020 02:06:52: 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 02:06:57: 5000000 INFO @ Tue, 30 Jun 2020 02:07:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2055963/SRX2055963.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2055963/SRX2055963.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2055963/SRX2055963.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2055963/SRX2055963.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 02:07:00: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:07:00: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:07:03: 6000000 INFO @ Tue, 30 Jun 2020 02:07:05: 1000000 INFO @ Tue, 30 Jun 2020 02:07:08: 7000000 INFO @ Tue, 30 Jun 2020 02:07:11: 2000000 INFO @ Tue, 30 Jun 2020 02:07:14: 8000000 INFO @ Tue, 30 Jun 2020 02:07:16: 3000000 INFO @ Tue, 30 Jun 2020 02:07:19: 9000000 INFO @ Tue, 30 Jun 2020 02:07:22: 4000000 INFO @ Tue, 30 Jun 2020 02:07:25: 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 02:07:27: 5000000 INFO @ Tue, 30 Jun 2020 02:07:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2055963/SRX2055963.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2055963/SRX2055963.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2055963/SRX2055963.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2055963/SRX2055963.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 02:07:30: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:07:30: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:07:31: 11000000 INFO @ Tue, 30 Jun 2020 02:07:33: 6000000 INFO @ Tue, 30 Jun 2020 02:07:36: 1000000 INFO @ Tue, 30 Jun 2020 02:07:37: 12000000 INFO @ Tue, 30 Jun 2020 02:07:39: 7000000 INFO @ Tue, 30 Jun 2020 02:07:43: 2000000 INFO @ Tue, 30 Jun 2020 02:07:44: 13000000 INFO @ Tue, 30 Jun 2020 02:07:45: 8000000 INFO @ Tue, 30 Jun 2020 02:07:49: 3000000 INFO @ Tue, 30 Jun 2020 02:07:50: 14000000 INFO @ Tue, 30 Jun 2020 02:07:51: 9000000 INFO @ Tue, 30 Jun 2020 02:07:55: 4000000 INFO @ Tue, 30 Jun 2020 02:07:56: 10000000 INFO @ Tue, 30 Jun 2020 02:07:56: 15000000 INFO @ Tue, 30 Jun 2020 02:08:01: 5000000 INFO @ Tue, 30 Jun 2020 02:08:02: 11000000 INFO @ Tue, 30 Jun 2020 02:08:03: 16000000 INFO @ Tue, 30 Jun 2020 02:08:07: 6000000 INFO @ Tue, 30 Jun 2020 02:08:07: 12000000 INFO @ Tue, 30 Jun 2020 02:08:09: 17000000 INFO @ Tue, 30 Jun 2020 02:08:13: 13000000 INFO @ Tue, 30 Jun 2020 02:08:13: 7000000 INFO @ Tue, 30 Jun 2020 02:08:15: 18000000 INFO @ Tue, 30 Jun 2020 02:08:19: 14000000 INFO @ Tue, 30 Jun 2020 02:08:19: 8000000 INFO @ Tue, 30 Jun 2020 02:08:21: 19000000 INFO @ Tue, 30 Jun 2020 02:08:24: 15000000 INFO @ Tue, 30 Jun 2020 02:08:25: 9000000 INFO @ Tue, 30 Jun 2020 02:08:28: 20000000 INFO @ Tue, 30 Jun 2020 02:08:28: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 02:08:28: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 02:08:28: #1 total tags in treatment: 20052314 INFO @ Tue, 30 Jun 2020 02:08:28: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:08:28: #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 02:08:29: #1 tags after filtering in treatment: 20052251 INFO @ Tue, 30 Jun 2020 02:08:29: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:08:29: #1 finished! INFO @ Tue, 30 Jun 2020 02:08:29: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:08:29: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:08:30: 16000000 INFO @ Tue, 30 Jun 2020 02:08:31: #2 number of paired peaks: 1806 INFO @ Tue, 30 Jun 2020 02:08:31: start model_add_line... INFO @ Tue, 30 Jun 2020 02:08:31: start X-correlation... INFO @ Tue, 30 Jun 2020 02:08:31: end of X-cor INFO @ Tue, 30 Jun 2020 02:08:31: #2 finished! INFO @ Tue, 30 Jun 2020 02:08:31: #2 predicted fragment length is 1 bps INFO @ Tue, 30 Jun 2020 02:08:31: #2 alternative fragment length(s) may be 1,44 bps INFO @ Tue, 30 Jun 2020 02:08:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2055963/SRX2055963.05_model.r WARNING @ Tue, 30 Jun 2020 02:08:31: #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 02:08:31: #2 You may need to consider one of the other alternative d(s): 1,44 WARNING @ Tue, 30 Jun 2020 02:08:31: #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 02:08:31: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:08:31: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:08:31: 10000000 INFO @ Tue, 30 Jun 2020 02:08:37: 17000000 INFO @ Tue, 30 Jun 2020 02:08:37: 11000000 INFO @ Tue, 30 Jun 2020 02:08:42: 18000000 INFO @ Tue, 30 Jun 2020 02:08:42: 12000000 INFO @ Tue, 30 Jun 2020 02:08:48: 19000000 INFO @ Tue, 30 Jun 2020 02:08:48: 13000000 INFO @ Tue, 30 Jun 2020 02:08:54: 14000000 INFO @ Tue, 30 Jun 2020 02:08:54: 20000000 INFO @ Tue, 30 Jun 2020 02:08:54: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 02:08:54: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 02:08:54: #1 total tags in treatment: 20052314 INFO @ Tue, 30 Jun 2020 02:08:54: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:08:54: #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 02:08:55: #1 tags after filtering in treatment: 20052251 INFO @ Tue, 30 Jun 2020 02:08:55: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:08:55: #1 finished! INFO @ Tue, 30 Jun 2020 02:08:55: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:08:55: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:08:57: #2 number of paired peaks: 1806 INFO @ Tue, 30 Jun 2020 02:08:57: start model_add_line... INFO @ Tue, 30 Jun 2020 02:08:57: start X-correlation... INFO @ Tue, 30 Jun 2020 02:08:57: end of X-cor INFO @ Tue, 30 Jun 2020 02:08:57: #2 finished! INFO @ Tue, 30 Jun 2020 02:08:57: #2 predicted fragment length is 1 bps INFO @ Tue, 30 Jun 2020 02:08:57: #2 alternative fragment length(s) may be 1,44 bps INFO @ Tue, 30 Jun 2020 02:08:57: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2055963/SRX2055963.10_model.r WARNING @ Tue, 30 Jun 2020 02:08:57: #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 02:08:57: #2 You may need to consider one of the other alternative d(s): 1,44 WARNING @ Tue, 30 Jun 2020 02:08:57: #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 02:08:57: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:08:57: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:08:59: 15000000 INFO @ Tue, 30 Jun 2020 02:09:02: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 02:09:05: 16000000 INFO @ Tue, 30 Jun 2020 02:09:11: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 02:09:17: 18000000 INFO @ Tue, 30 Jun 2020 02:09:17: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2055963/SRX2055963.05_peaks.xls INFO @ Tue, 30 Jun 2020 02:09:17: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2055963/SRX2055963.05_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:09:17: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2055963/SRX2055963.05_summits.bed INFO @ Tue, 30 Jun 2020 02:09:17: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 02:09:22: 19000000 INFO @ Tue, 30 Jun 2020 02:09:28: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 02:09:28: 20000000 INFO @ Tue, 30 Jun 2020 02:09:29: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 02:09:29: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 02:09:29: #1 total tags in treatment: 20052314 INFO @ Tue, 30 Jun 2020 02:09:29: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:09:29: #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 02:09:30: #1 tags after filtering in treatment: 20052251 INFO @ Tue, 30 Jun 2020 02:09:30: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:09:30: #1 finished! INFO @ Tue, 30 Jun 2020 02:09:30: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:09:30: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:09:31: #2 number of paired peaks: 1806 INFO @ Tue, 30 Jun 2020 02:09:31: start model_add_line... INFO @ Tue, 30 Jun 2020 02:09:32: start X-correlation... INFO @ Tue, 30 Jun 2020 02:09:32: end of X-cor INFO @ Tue, 30 Jun 2020 02:09:32: #2 finished! INFO @ Tue, 30 Jun 2020 02:09:32: #2 predicted fragment length is 1 bps INFO @ Tue, 30 Jun 2020 02:09:32: #2 alternative fragment length(s) may be 1,44 bps INFO @ Tue, 30 Jun 2020 02:09:32: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2055963/SRX2055963.20_model.r WARNING @ Tue, 30 Jun 2020 02:09:32: #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 02:09:32: #2 You may need to consider one of the other alternative d(s): 1,44 WARNING @ Tue, 30 Jun 2020 02:09:32: #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 02:09:32: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:09:32: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:09:43: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2055963/SRX2055963.10_peaks.xls INFO @ Tue, 30 Jun 2020 02:09:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2055963/SRX2055963.10_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:09:43: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2055963/SRX2055963.10_summits.bed INFO @ Tue, 30 Jun 2020 02:09:43: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 02:10:03: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 02:10:18: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2055963/SRX2055963.20_peaks.xls INFO @ Tue, 30 Jun 2020 02:10:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2055963/SRX2055963.20_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:10:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2055963/SRX2055963.20_summits.bed INFO @ Tue, 30 Jun 2020 02:10:18: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling