Job ID = 6527727 SRX = SRX2564140 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:15:35 prefetch.2.10.7: 1) Downloading 'SRR5259259'... 2020-06-29T13:15:35 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:19:54 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:19:54 prefetch.2.10.7: 1) 'SRR5259259' was downloaded successfully 2020-06-29T13:19:54 prefetch.2.10.7: 'SRR5259259' has 0 unresolved dependencies Read 34336563 spots for SRR5259259/SRR5259259.sra Written 34336563 spots for SRR5259259/SRR5259259.sra 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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:14:31 34336563 reads; of these: 34336563 (100.00%) were unpaired; of these: 8461133 (24.64%) aligned 0 times 19369912 (56.41%) aligned exactly 1 time 6505518 (18.95%) aligned >1 times 75.36% overall alignment rate Time searching: 00:14:32 Overall time: 00:14:32 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] 7036932 / 25875430 = 0.2720 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 @ Mon, 29 Jun 2020 22:59:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2564140/SRX2564140.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2564140/SRX2564140.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2564140/SRX2564140.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2564140/SRX2564140.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 @ Mon, 29 Jun 2020 22:59:11: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:59:11: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:59:16: 1000000 INFO @ Mon, 29 Jun 2020 22:59:22: 2000000 INFO @ Mon, 29 Jun 2020 22:59:28: 3000000 INFO @ Mon, 29 Jun 2020 22:59:33: 4000000 INFO @ Mon, 29 Jun 2020 22:59:39: 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 @ Mon, 29 Jun 2020 22:59:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2564140/SRX2564140.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2564140/SRX2564140.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2564140/SRX2564140.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2564140/SRX2564140.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 @ Mon, 29 Jun 2020 22:59:41: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:59:41: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:59:45: 6000000 INFO @ Mon, 29 Jun 2020 22:59:47: 1000000 INFO @ Mon, 29 Jun 2020 22:59:50: 7000000 INFO @ Mon, 29 Jun 2020 22:59:53: 2000000 INFO @ Mon, 29 Jun 2020 22:59:56: 8000000 INFO @ Mon, 29 Jun 2020 22:59:59: 3000000 INFO @ Mon, 29 Jun 2020 23:00:02: 9000000 INFO @ Mon, 29 Jun 2020 23:00:05: 4000000 INFO @ Mon, 29 Jun 2020 23:00:08: 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 @ Mon, 29 Jun 2020 23:00:11: 5000000 INFO @ Mon, 29 Jun 2020 23:00:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2564140/SRX2564140.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2564140/SRX2564140.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2564140/SRX2564140.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2564140/SRX2564140.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 @ Mon, 29 Jun 2020 23:00:11: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:00:11: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:00:14: 11000000 INFO @ Mon, 29 Jun 2020 23:00:16: 6000000 INFO @ Mon, 29 Jun 2020 23:00:17: 1000000 INFO @ Mon, 29 Jun 2020 23:00:20: 12000000 INFO @ Mon, 29 Jun 2020 23:00:22: 7000000 INFO @ Mon, 29 Jun 2020 23:00:23: 2000000 INFO @ Mon, 29 Jun 2020 23:00:26: 13000000 INFO @ Mon, 29 Jun 2020 23:00:28: 8000000 INFO @ Mon, 29 Jun 2020 23:00:29: 3000000 INFO @ Mon, 29 Jun 2020 23:00:32: 14000000 INFO @ Mon, 29 Jun 2020 23:00:34: 9000000 INFO @ Mon, 29 Jun 2020 23:00:35: 4000000 INFO @ Mon, 29 Jun 2020 23:00:38: 15000000 INFO @ Mon, 29 Jun 2020 23:00:40: 10000000 INFO @ Mon, 29 Jun 2020 23:00:41: 5000000 INFO @ Mon, 29 Jun 2020 23:00:44: 16000000 INFO @ Mon, 29 Jun 2020 23:00:46: 11000000 INFO @ Mon, 29 Jun 2020 23:00:47: 6000000 INFO @ Mon, 29 Jun 2020 23:00:50: 17000000 INFO @ Mon, 29 Jun 2020 23:00:52: 12000000 INFO @ Mon, 29 Jun 2020 23:00:53: 7000000 INFO @ Mon, 29 Jun 2020 23:00:56: 18000000 INFO @ Mon, 29 Jun 2020 23:00:58: 13000000 INFO @ Mon, 29 Jun 2020 23:00:59: 8000000 INFO @ Mon, 29 Jun 2020 23:01:01: #1 tag size is determined as 74 bps INFO @ Mon, 29 Jun 2020 23:01:01: #1 tag size = 74 INFO @ Mon, 29 Jun 2020 23:01:01: #1 total tags in treatment: 18838498 INFO @ Mon, 29 Jun 2020 23:01:01: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:01:01: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:01:02: #1 tags after filtering in treatment: 18838498 INFO @ Mon, 29 Jun 2020 23:01:02: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:01:02: #1 finished! INFO @ Mon, 29 Jun 2020 23:01:02: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:01:02: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:01:03: #2 number of paired peaks: 78 WARNING @ Mon, 29 Jun 2020 23:01:03: Too few paired peaks (78) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Mon, 29 Jun 2020 23:01:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2564140/SRX2564140.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564140/SRX2564140.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564140/SRX2564140.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564140/SRX2564140.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:01:04: 14000000 INFO @ Mon, 29 Jun 2020 23:01:05: 9000000 INFO @ Mon, 29 Jun 2020 23:01:10: 15000000 INFO @ Mon, 29 Jun 2020 23:01:11: 10000000 INFO @ Mon, 29 Jun 2020 23:01:16: 16000000 INFO @ Mon, 29 Jun 2020 23:01:17: 11000000 INFO @ Mon, 29 Jun 2020 23:01:22: 17000000 INFO @ Mon, 29 Jun 2020 23:01:22: 12000000 INFO @ Mon, 29 Jun 2020 23:01:28: 18000000 INFO @ Mon, 29 Jun 2020 23:01:28: 13000000 INFO @ Mon, 29 Jun 2020 23:01:33: #1 tag size is determined as 74 bps INFO @ Mon, 29 Jun 2020 23:01:33: #1 tag size = 74 INFO @ Mon, 29 Jun 2020 23:01:33: #1 total tags in treatment: 18838498 INFO @ Mon, 29 Jun 2020 23:01:33: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:01:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:01:33: #1 tags after filtering in treatment: 18838498 INFO @ Mon, 29 Jun 2020 23:01:33: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:01:33: #1 finished! INFO @ Mon, 29 Jun 2020 23:01:33: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:01:33: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:01:34: 14000000 INFO @ Mon, 29 Jun 2020 23:01:34: #2 number of paired peaks: 78 WARNING @ Mon, 29 Jun 2020 23:01:34: Too few paired peaks (78) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Mon, 29 Jun 2020 23:01:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2564140/SRX2564140.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564140/SRX2564140.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564140/SRX2564140.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564140/SRX2564140.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:01:40: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:01:46: 16000000 INFO @ Mon, 29 Jun 2020 23:01:51: 17000000 INFO @ Mon, 29 Jun 2020 23:01:57: 18000000 INFO @ Mon, 29 Jun 2020 23:02:02: #1 tag size is determined as 74 bps INFO @ Mon, 29 Jun 2020 23:02:02: #1 tag size = 74 INFO @ Mon, 29 Jun 2020 23:02:02: #1 total tags in treatment: 18838498 INFO @ Mon, 29 Jun 2020 23:02:02: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:02:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:02:02: #1 tags after filtering in treatment: 18838498 INFO @ Mon, 29 Jun 2020 23:02:02: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:02:02: #1 finished! INFO @ Mon, 29 Jun 2020 23:02:02: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:02:02: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:02:04: #2 number of paired peaks: 78 WARNING @ Mon, 29 Jun 2020 23:02:04: Too few paired peaks (78) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Mon, 29 Jun 2020 23:02:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2564140/SRX2564140.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564140/SRX2564140.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564140/SRX2564140.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2564140/SRX2564140.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。