Job ID = 6529171 SRX = SRX025480 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: 00:14:25 55648600 reads; of these: 55648600 (100.00%) were unpaired; of these: 2147583 (3.86%) aligned 0 times 40314264 (72.44%) aligned exactly 1 time 13186753 (23.70%) aligned >1 times 96.14% overall alignment rate Time searching: 00:14:25 Overall time: 00:14:25 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] 34783939 / 53501017 = 0.6502 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 01:55:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX025480/SRX025480.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX025480/SRX025480.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX025480/SRX025480.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX025480/SRX025480.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 01:55:44: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:55:44: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:55:51: 1000000 INFO @ Tue, 30 Jun 2020 01:55:58: 2000000 INFO @ Tue, 30 Jun 2020 01:56:05: 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 01:56:12: 4000000 INFO @ Tue, 30 Jun 2020 01:56:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX025480/SRX025480.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX025480/SRX025480.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX025480/SRX025480.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX025480/SRX025480.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 01:56:13: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:56:13: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:56:20: 5000000 INFO @ Tue, 30 Jun 2020 01:56:21: 1000000 INFO @ Tue, 30 Jun 2020 01:56:27: 6000000 INFO @ Tue, 30 Jun 2020 01:56:28: 2000000 INFO @ Tue, 30 Jun 2020 01:56:35: 7000000 INFO @ Tue, 30 Jun 2020 01:56:35: 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 01:56:42: 4000000 INFO @ Tue, 30 Jun 2020 01:56:43: 8000000 INFO @ Tue, 30 Jun 2020 01:56:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX025480/SRX025480.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX025480/SRX025480.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX025480/SRX025480.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX025480/SRX025480.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 01:56:44: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:56:44: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:56:49: 5000000 INFO @ Tue, 30 Jun 2020 01:56:51: 9000000 INFO @ Tue, 30 Jun 2020 01:56:51: 1000000 INFO @ Tue, 30 Jun 2020 01:56:56: 6000000 INFO @ Tue, 30 Jun 2020 01:56:59: 10000000 INFO @ Tue, 30 Jun 2020 01:56:59: 2000000 INFO @ Tue, 30 Jun 2020 01:57:03: 7000000 INFO @ Tue, 30 Jun 2020 01:57:07: 11000000 INFO @ Tue, 30 Jun 2020 01:57:07: 3000000 INFO @ Tue, 30 Jun 2020 01:57:10: 8000000 INFO @ Tue, 30 Jun 2020 01:57:14: 12000000 INFO @ Tue, 30 Jun 2020 01:57:15: 4000000 INFO @ Tue, 30 Jun 2020 01:57:17: 9000000 INFO @ Tue, 30 Jun 2020 01:57:22: 5000000 INFO @ Tue, 30 Jun 2020 01:57:22: 13000000 INFO @ Tue, 30 Jun 2020 01:57:25: 10000000 INFO @ Tue, 30 Jun 2020 01:57:30: 6000000 INFO @ Tue, 30 Jun 2020 01:57:30: 14000000 INFO @ Tue, 30 Jun 2020 01:57:32: 11000000 INFO @ Tue, 30 Jun 2020 01:57:38: 7000000 INFO @ Tue, 30 Jun 2020 01:57:39: 15000000 INFO @ Tue, 30 Jun 2020 01:57:39: 12000000 INFO @ Tue, 30 Jun 2020 01:57:45: 8000000 INFO @ Tue, 30 Jun 2020 01:57:46: 13000000 INFO @ Tue, 30 Jun 2020 01:57:46: 16000000 INFO @ Tue, 30 Jun 2020 01:57:53: 9000000 INFO @ Tue, 30 Jun 2020 01:57:53: 14000000 INFO @ Tue, 30 Jun 2020 01:57:54: 17000000 INFO @ Tue, 30 Jun 2020 01:58:01: 15000000 INFO @ Tue, 30 Jun 2020 01:58:01: 10000000 INFO @ Tue, 30 Jun 2020 01:58:01: 18000000 INFO @ Tue, 30 Jun 2020 01:58:07: #1 tag size is determined as 36 bps INFO @ Tue, 30 Jun 2020 01:58:07: #1 tag size = 36 INFO @ Tue, 30 Jun 2020 01:58:07: #1 total tags in treatment: 18717078 INFO @ Tue, 30 Jun 2020 01:58:07: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:58:07: #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 01:58:07: #1 tags after filtering in treatment: 18717078 INFO @ Tue, 30 Jun 2020 01:58:07: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:58:07: #1 finished! INFO @ Tue, 30 Jun 2020 01:58:07: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:58:07: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:58:08: 16000000 INFO @ Tue, 30 Jun 2020 01:58:09: 11000000 INFO @ Tue, 30 Jun 2020 01:58:09: #2 number of paired peaks: 1060 INFO @ Tue, 30 Jun 2020 01:58:09: start model_add_line... INFO @ Tue, 30 Jun 2020 01:58:09: start X-correlation... INFO @ Tue, 30 Jun 2020 01:58:09: end of X-cor INFO @ Tue, 30 Jun 2020 01:58:09: #2 finished! INFO @ Tue, 30 Jun 2020 01:58:09: #2 predicted fragment length is 2 bps INFO @ Tue, 30 Jun 2020 01:58:09: #2 alternative fragment length(s) may be 2,33 bps INFO @ Tue, 30 Jun 2020 01:58:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX025480/SRX025480.05_model.r WARNING @ Tue, 30 Jun 2020 01:58:09: #2 Since the d (2) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 01:58:09: #2 You may need to consider one of the other alternative d(s): 2,33 WARNING @ Tue, 30 Jun 2020 01:58:09: #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 01:58:09: #3 Call peaks... INFO @ Tue, 30 Jun 2020 01:58:09: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 01:58:14: 17000000 INFO @ Tue, 30 Jun 2020 01:58:16: 12000000 INFO @ Tue, 30 Jun 2020 01:58:21: 18000000 INFO @ Tue, 30 Jun 2020 01:58:24: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 01:58:26: #1 tag size is determined as 36 bps INFO @ Tue, 30 Jun 2020 01:58:26: #1 tag size = 36 INFO @ Tue, 30 Jun 2020 01:58:26: #1 total tags in treatment: 18717078 INFO @ Tue, 30 Jun 2020 01:58:26: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:58:26: #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 01:58:27: #1 tags after filtering in treatment: 18717078 INFO @ Tue, 30 Jun 2020 01:58:27: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:58:27: #1 finished! INFO @ Tue, 30 Jun 2020 01:58:27: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:58:27: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:58:28: #2 number of paired peaks: 1060 INFO @ Tue, 30 Jun 2020 01:58:28: start model_add_line... INFO @ Tue, 30 Jun 2020 01:58:29: start X-correlation... INFO @ Tue, 30 Jun 2020 01:58:29: end of X-cor INFO @ Tue, 30 Jun 2020 01:58:29: #2 finished! INFO @ Tue, 30 Jun 2020 01:58:29: #2 predicted fragment length is 2 bps INFO @ Tue, 30 Jun 2020 01:58:29: #2 alternative fragment length(s) may be 2,33 bps INFO @ Tue, 30 Jun 2020 01:58:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX025480/SRX025480.10_model.r WARNING @ Tue, 30 Jun 2020 01:58:29: #2 Since the d (2) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 01:58:29: #2 You may need to consider one of the other alternative d(s): 2,33 WARNING @ Tue, 30 Jun 2020 01:58:29: #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 01:58:29: #3 Call peaks... INFO @ Tue, 30 Jun 2020 01:58:29: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 01:58:31: 14000000 INFO @ Tue, 30 Jun 2020 01:58:39: 15000000 INFO @ Tue, 30 Jun 2020 01:58:46: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 01:58:46: 16000000 INFO @ Tue, 30 Jun 2020 01:58:53: 17000000 INFO @ Tue, 30 Jun 2020 01:59:00: 18000000 INFO @ Tue, 30 Jun 2020 01:59:03: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX025480/SRX025480.05_peaks.xls INFO @ Tue, 30 Jun 2020 01:59:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX025480/SRX025480.05_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 01:59:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX025480/SRX025480.05_summits.bed INFO @ Tue, 30 Jun 2020 01:59:03: Done! pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:59:05: #1 tag size is determined as 36 bps INFO @ Tue, 30 Jun 2020 01:59:05: #1 tag size = 36 INFO @ Tue, 30 Jun 2020 01:59:05: #1 total tags in treatment: 18717078 INFO @ Tue, 30 Jun 2020 01:59:05: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:59:05: #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 01:59:05: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 01:59:05: #1 tags after filtering in treatment: 18717078 INFO @ Tue, 30 Jun 2020 01:59:05: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:59:05: #1 finished! INFO @ Tue, 30 Jun 2020 01:59:05: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:59:05: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:59:07: #2 number of paired peaks: 1060 INFO @ Tue, 30 Jun 2020 01:59:07: start model_add_line... INFO @ Tue, 30 Jun 2020 01:59:07: start X-correlation... INFO @ Tue, 30 Jun 2020 01:59:07: end of X-cor INFO @ Tue, 30 Jun 2020 01:59:07: #2 finished! INFO @ Tue, 30 Jun 2020 01:59:07: #2 predicted fragment length is 2 bps INFO @ Tue, 30 Jun 2020 01:59:07: #2 alternative fragment length(s) may be 2,33 bps INFO @ Tue, 30 Jun 2020 01:59:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX025480/SRX025480.20_model.r WARNING @ Tue, 30 Jun 2020 01:59:07: #2 Since the d (2) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 01:59:07: #2 You may need to consider one of the other alternative d(s): 2,33 WARNING @ Tue, 30 Jun 2020 01:59:07: #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 01:59:07: #3 Call peaks... INFO @ Tue, 30 Jun 2020 01:59:07: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 01:59:22: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX025480/SRX025480.10_peaks.xls INFO @ Tue, 30 Jun 2020 01:59:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX025480/SRX025480.10_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 01:59:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX025480/SRX025480.10_summits.bed INFO @ Tue, 30 Jun 2020 01:59:22: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:59:43: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 02:00:01: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX025480/SRX025480.20_peaks.xls INFO @ Tue, 30 Jun 2020 02:00:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX025480/SRX025480.20_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:00:01: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX025480/SRX025480.20_summits.bed INFO @ Tue, 30 Jun 2020 02:00:01: Done! pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling