Job ID = 6626462 SRX = SRX5734950 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 24034986 spots for SRR8955175/SRR8955175.sra Written 24034986 spots for SRR8955175/SRR8955175.sra fastq に変換しました。 bowtie でマッピング中... Your job 6626626 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:13:27 24034986 reads; of these: 24034986 (100.00%) were unpaired; of these: 1921880 (8.00%) aligned 0 times 16004213 (66.59%) aligned exactly 1 time 6108893 (25.42%) aligned >1 times 92.00% overall alignment rate Time searching: 00:13:27 Overall time: 00:13:27 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 8545783 / 22113106 = 0.3865 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, 14 Jul 2020 07:25:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5734950/SRX5734950.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5734950/SRX5734950.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5734950/SRX5734950.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5734950/SRX5734950.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, 14 Jul 2020 07:25:12: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:25:12: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:25:18: 1000000 INFO @ Tue, 14 Jul 2020 07:25:24: 2000000 INFO @ Tue, 14 Jul 2020 07:25:30: 3000000 INFO @ Tue, 14 Jul 2020 07:25:36: 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, 14 Jul 2020 07:25:41: 5000000 INFO @ Tue, 14 Jul 2020 07:25:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5734950/SRX5734950.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5734950/SRX5734950.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5734950/SRX5734950.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5734950/SRX5734950.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, 14 Jul 2020 07:25:42: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:25:42: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:25:47: 6000000 INFO @ Tue, 14 Jul 2020 07:25:48: 1000000 INFO @ Tue, 14 Jul 2020 07:25:53: 7000000 INFO @ Tue, 14 Jul 2020 07:25:54: 2000000 INFO @ Tue, 14 Jul 2020 07:25:59: 8000000 INFO @ Tue, 14 Jul 2020 07:26:00: 3000000 INFO @ Tue, 14 Jul 2020 07:26:05: 9000000 INFO @ Tue, 14 Jul 2020 07:26:06: 4000000 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, 14 Jul 2020 07:26:10: 10000000 INFO @ Tue, 14 Jul 2020 07:26:12: 5000000 INFO @ Tue, 14 Jul 2020 07:26:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5734950/SRX5734950.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5734950/SRX5734950.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5734950/SRX5734950.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5734950/SRX5734950.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, 14 Jul 2020 07:26:12: #1 read tag files... INFO @ Tue, 14 Jul 2020 07:26:12: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 07:26:16: 11000000 INFO @ Tue, 14 Jul 2020 07:26:18: 6000000 INFO @ Tue, 14 Jul 2020 07:26:19: 1000000 INFO @ Tue, 14 Jul 2020 07:26:22: 12000000 INFO @ Tue, 14 Jul 2020 07:26:24: 7000000 INFO @ Tue, 14 Jul 2020 07:26:26: 2000000 INFO @ Tue, 14 Jul 2020 07:26:29: 13000000 INFO @ Tue, 14 Jul 2020 07:26:30: 8000000 INFO @ Tue, 14 Jul 2020 07:26:32: #1 tag size is determined as 78 bps INFO @ Tue, 14 Jul 2020 07:26:32: #1 tag size = 78 INFO @ Tue, 14 Jul 2020 07:26:32: #1 total tags in treatment: 13567323 INFO @ Tue, 14 Jul 2020 07:26:32: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:26:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 07:26:32: #1 tags after filtering in treatment: 13567323 INFO @ Tue, 14 Jul 2020 07:26:32: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:26:32: #1 finished! INFO @ Tue, 14 Jul 2020 07:26:32: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:26:32: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:26:33: 3000000 INFO @ Tue, 14 Jul 2020 07:26:34: #2 number of paired peaks: 1236 INFO @ Tue, 14 Jul 2020 07:26:34: start model_add_line... INFO @ Tue, 14 Jul 2020 07:26:34: start X-correlation... INFO @ Tue, 14 Jul 2020 07:26:34: end of X-cor INFO @ Tue, 14 Jul 2020 07:26:34: #2 finished! INFO @ Tue, 14 Jul 2020 07:26:34: #2 predicted fragment length is 1 bps INFO @ Tue, 14 Jul 2020 07:26:34: #2 alternative fragment length(s) may be 1 bps INFO @ Tue, 14 Jul 2020 07:26:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5734950/SRX5734950.05_model.r WARNING @ Tue, 14 Jul 2020 07:26:34: #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, 14 Jul 2020 07:26:34: #2 You may need to consider one of the other alternative d(s): 1 WARNING @ Tue, 14 Jul 2020 07:26:34: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 14 Jul 2020 07:26:34: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:26:34: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:26:36: 9000000 INFO @ Tue, 14 Jul 2020 07:26:41: 4000000 INFO @ Tue, 14 Jul 2020 07:26:42: 10000000 INFO @ Tue, 14 Jul 2020 07:26:48: 5000000 INFO @ Tue, 14 Jul 2020 07:26:48: 11000000 INFO @ Tue, 14 Jul 2020 07:26:54: 12000000 INFO @ Tue, 14 Jul 2020 07:26:55: 6000000 INFO @ Tue, 14 Jul 2020 07:26:57: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:27:00: 13000000 INFO @ Tue, 14 Jul 2020 07:27:02: 7000000 INFO @ Tue, 14 Jul 2020 07:27:03: #1 tag size is determined as 78 bps INFO @ Tue, 14 Jul 2020 07:27:03: #1 tag size = 78 INFO @ Tue, 14 Jul 2020 07:27:03: #1 total tags in treatment: 13567323 INFO @ Tue, 14 Jul 2020 07:27:03: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:27:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 07:27:04: #1 tags after filtering in treatment: 13567323 INFO @ Tue, 14 Jul 2020 07:27:04: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:27:04: #1 finished! INFO @ Tue, 14 Jul 2020 07:27:04: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:27:04: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:27:05: #2 number of paired peaks: 1236 INFO @ Tue, 14 Jul 2020 07:27:05: start model_add_line... INFO @ Tue, 14 Jul 2020 07:27:05: start X-correlation... INFO @ Tue, 14 Jul 2020 07:27:05: end of X-cor INFO @ Tue, 14 Jul 2020 07:27:05: #2 finished! INFO @ Tue, 14 Jul 2020 07:27:05: #2 predicted fragment length is 1 bps INFO @ Tue, 14 Jul 2020 07:27:05: #2 alternative fragment length(s) may be 1 bps INFO @ Tue, 14 Jul 2020 07:27:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5734950/SRX5734950.10_model.r WARNING @ Tue, 14 Jul 2020 07:27:05: #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, 14 Jul 2020 07:27:05: #2 You may need to consider one of the other alternative d(s): 1 WARNING @ Tue, 14 Jul 2020 07:27:05: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 14 Jul 2020 07:27:05: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:27:05: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 07:27:08: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5734950/SRX5734950.05_peaks.xls INFO @ Tue, 14 Jul 2020 07:27:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5734950/SRX5734950.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:27:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5734950/SRX5734950.05_summits.bed INFO @ Tue, 14 Jul 2020 07:27:08: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 07:27:09: 8000000 INFO @ Tue, 14 Jul 2020 07:27:16: 9000000 INFO @ Tue, 14 Jul 2020 07:27:21: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 07:27:27: 11000000 INFO @ Tue, 14 Jul 2020 07:27:29: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:27:33: 12000000 INFO @ Tue, 14 Jul 2020 07:27:39: 13000000 INFO @ Tue, 14 Jul 2020 07:27:41: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5734950/SRX5734950.10_peaks.xls INFO @ Tue, 14 Jul 2020 07:27:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5734950/SRX5734950.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:27:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5734950/SRX5734950.10_summits.bed INFO @ Tue, 14 Jul 2020 07:27:41: Done! pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 07:27:42: #1 tag size is determined as 78 bps INFO @ Tue, 14 Jul 2020 07:27:42: #1 tag size = 78 INFO @ Tue, 14 Jul 2020 07:27:42: #1 total tags in treatment: 13567323 INFO @ Tue, 14 Jul 2020 07:27:42: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 07:27:42: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 07:27:42: #1 tags after filtering in treatment: 13567323 INFO @ Tue, 14 Jul 2020 07:27:42: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 07:27:42: #1 finished! INFO @ Tue, 14 Jul 2020 07:27:42: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 07:27:42: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 07:27:44: #2 number of paired peaks: 1236 INFO @ Tue, 14 Jul 2020 07:27:44: start model_add_line... INFO @ Tue, 14 Jul 2020 07:27:44: start X-correlation... INFO @ Tue, 14 Jul 2020 07:27:44: end of X-cor INFO @ Tue, 14 Jul 2020 07:27:44: #2 finished! INFO @ Tue, 14 Jul 2020 07:27:44: #2 predicted fragment length is 1 bps INFO @ Tue, 14 Jul 2020 07:27:44: #2 alternative fragment length(s) may be 1 bps INFO @ Tue, 14 Jul 2020 07:27:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX5734950/SRX5734950.20_model.r WARNING @ Tue, 14 Jul 2020 07:27:44: #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, 14 Jul 2020 07:27:44: #2 You may need to consider one of the other alternative d(s): 1 WARNING @ Tue, 14 Jul 2020 07:27:44: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 14 Jul 2020 07:27:44: #3 Call peaks... INFO @ Tue, 14 Jul 2020 07:27:44: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 07:28:08: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 07:28:19: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX5734950/SRX5734950.20_peaks.xls INFO @ Tue, 14 Jul 2020 07:28:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX5734950/SRX5734950.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 07:28:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX5734950/SRX5734950.20_summits.bed INFO @ Tue, 14 Jul 2020 07:28:19: Done! pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling