Job ID = 6527909 SRX = SRX3167262 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:00:21 prefetch.2.10.7: 1) Downloading 'SRR6014265'... 2020-06-29T14:00:21 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:05:10 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:05:10 prefetch.2.10.7: 1) 'SRR6014265' was downloaded successfully Read 30083496 spots for SRR6014265/SRR6014265.sra Written 30083496 spots for SRR6014265/SRR6014265.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: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:09:14 30083496 reads; of these: 30083496 (100.00%) were unpaired; of these: 1525090 (5.07%) aligned 0 times 21714233 (72.18%) aligned exactly 1 time 6844173 (22.75%) aligned >1 times 94.93% overall alignment rate Time searching: 00:09:14 Overall time: 00:09:14 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] 4385678 / 28558406 = 0.1536 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 23:29:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3167262/SRX3167262.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3167262/SRX3167262.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3167262/SRX3167262.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3167262/SRX3167262.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 23:29:55: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:29:55: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:30:01: 1000000 INFO @ Mon, 29 Jun 2020 23:30:07: 2000000 INFO @ Mon, 29 Jun 2020 23:30:13: 3000000 INFO @ Mon, 29 Jun 2020 23:30:19: 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 @ Mon, 29 Jun 2020 23:30:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3167262/SRX3167262.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3167262/SRX3167262.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3167262/SRX3167262.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3167262/SRX3167262.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 23:30:25: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:30:25: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:30:25: 5000000 INFO @ Mon, 29 Jun 2020 23:30:30: 1000000 INFO @ Mon, 29 Jun 2020 23:30:31: 6000000 INFO @ Mon, 29 Jun 2020 23:30:36: 2000000 INFO @ Mon, 29 Jun 2020 23:30:38: 7000000 INFO @ Mon, 29 Jun 2020 23:30:42: 3000000 INFO @ Mon, 29 Jun 2020 23:30:44: 8000000 INFO @ Mon, 29 Jun 2020 23:30:47: 4000000 INFO @ Mon, 29 Jun 2020 23:30:50: 9000000 INFO @ Mon, 29 Jun 2020 23:30:53: 5000000 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 23:30:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3167262/SRX3167262.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3167262/SRX3167262.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3167262/SRX3167262.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3167262/SRX3167262.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 23:30:55: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:30:55: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:30:57: 10000000 INFO @ Mon, 29 Jun 2020 23:30:58: 6000000 INFO @ Mon, 29 Jun 2020 23:31:01: 1000000 INFO @ Mon, 29 Jun 2020 23:31:03: 11000000 INFO @ Mon, 29 Jun 2020 23:31:04: 7000000 INFO @ Mon, 29 Jun 2020 23:31:08: 2000000 INFO @ Mon, 29 Jun 2020 23:31:09: 12000000 INFO @ Mon, 29 Jun 2020 23:31:10: 8000000 INFO @ Mon, 29 Jun 2020 23:31:14: 3000000 INFO @ Mon, 29 Jun 2020 23:31:15: 9000000 INFO @ Mon, 29 Jun 2020 23:31:16: 13000000 INFO @ Mon, 29 Jun 2020 23:31:20: 4000000 INFO @ Mon, 29 Jun 2020 23:31:21: 10000000 INFO @ Mon, 29 Jun 2020 23:31:23: 14000000 INFO @ Mon, 29 Jun 2020 23:31:27: 11000000 INFO @ Mon, 29 Jun 2020 23:31:27: 5000000 INFO @ Mon, 29 Jun 2020 23:31:29: 15000000 INFO @ Mon, 29 Jun 2020 23:31:32: 12000000 INFO @ Mon, 29 Jun 2020 23:31:33: 6000000 INFO @ Mon, 29 Jun 2020 23:31:36: 16000000 INFO @ Mon, 29 Jun 2020 23:31:38: 13000000 INFO @ Mon, 29 Jun 2020 23:31:39: 7000000 INFO @ Mon, 29 Jun 2020 23:31:42: 17000000 INFO @ Mon, 29 Jun 2020 23:31:44: 14000000 INFO @ Mon, 29 Jun 2020 23:31:46: 8000000 INFO @ Mon, 29 Jun 2020 23:31:48: 18000000 INFO @ Mon, 29 Jun 2020 23:31:50: 15000000 INFO @ Mon, 29 Jun 2020 23:31:52: 9000000 INFO @ Mon, 29 Jun 2020 23:31:54: 19000000 INFO @ Mon, 29 Jun 2020 23:31:55: 16000000 INFO @ Mon, 29 Jun 2020 23:31:58: 10000000 INFO @ Mon, 29 Jun 2020 23:32:01: 20000000 INFO @ Mon, 29 Jun 2020 23:32:01: 17000000 INFO @ Mon, 29 Jun 2020 23:32:05: 11000000 INFO @ Mon, 29 Jun 2020 23:32:07: 18000000 INFO @ Mon, 29 Jun 2020 23:32:07: 21000000 INFO @ Mon, 29 Jun 2020 23:32:11: 12000000 INFO @ Mon, 29 Jun 2020 23:32:13: 19000000 INFO @ Mon, 29 Jun 2020 23:32:13: 22000000 INFO @ Mon, 29 Jun 2020 23:32:18: 13000000 INFO @ Mon, 29 Jun 2020 23:32:19: 20000000 INFO @ Mon, 29 Jun 2020 23:32:20: 23000000 INFO @ Mon, 29 Jun 2020 23:32:24: 14000000 INFO @ Mon, 29 Jun 2020 23:32:24: 21000000 INFO @ Mon, 29 Jun 2020 23:32:26: 24000000 INFO @ Mon, 29 Jun 2020 23:32:27: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:32:27: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:32:27: #1 total tags in treatment: 24172728 INFO @ Mon, 29 Jun 2020 23:32:27: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:32:27: #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 23:32:28: #1 tags after filtering in treatment: 24172728 INFO @ Mon, 29 Jun 2020 23:32:28: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:32:28: #1 finished! INFO @ Mon, 29 Jun 2020 23:32:28: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:32:28: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:32:29: #2 number of paired peaks: 94 WARNING @ Mon, 29 Jun 2020 23:32:29: Too few paired peaks (94) 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 23:32:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3167262/SRX3167262.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3167262/SRX3167262.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3167262/SRX3167262.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3167262/SRX3167262.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:32:30: 22000000 INFO @ Mon, 29 Jun 2020 23:32:31: 15000000 INFO @ Mon, 29 Jun 2020 23:32:36: 23000000 INFO @ Mon, 29 Jun 2020 23:32:37: 16000000 INFO @ Mon, 29 Jun 2020 23:32:41: 24000000 INFO @ Mon, 29 Jun 2020 23:32:42: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:32:42: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:32:42: #1 total tags in treatment: 24172728 INFO @ Mon, 29 Jun 2020 23:32:42: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:32:42: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:32:43: #1 tags after filtering in treatment: 24172728 INFO @ Mon, 29 Jun 2020 23:32:43: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:32:43: #1 finished! INFO @ Mon, 29 Jun 2020 23:32:43: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:32:43: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:32:43: 17000000 INFO @ Mon, 29 Jun 2020 23:32:44: #2 number of paired peaks: 94 WARNING @ Mon, 29 Jun 2020 23:32:44: Too few paired peaks (94) 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 23:32:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3167262/SRX3167262.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3167262/SRX3167262.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3167262/SRX3167262.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3167262/SRX3167262.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:32:49: 18000000 INFO @ Mon, 29 Jun 2020 23:32:55: 19000000 INFO @ Mon, 29 Jun 2020 23:33:01: 20000000 INFO @ Mon, 29 Jun 2020 23:33:07: 21000000 INFO @ Mon, 29 Jun 2020 23:33:13: 22000000 INFO @ Mon, 29 Jun 2020 23:33:19: 23000000 INFO @ Mon, 29 Jun 2020 23:33:25: 24000000 INFO @ Mon, 29 Jun 2020 23:33:27: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:33:27: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:33:27: #1 total tags in treatment: 24172728 INFO @ Mon, 29 Jun 2020 23:33:27: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:33:27: #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 23:33:27: #1 tags after filtering in treatment: 24172728 INFO @ Mon, 29 Jun 2020 23:33:27: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:33:27: #1 finished! INFO @ Mon, 29 Jun 2020 23:33:27: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:33:27: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:33:28: #2 number of paired peaks: 94 WARNING @ Mon, 29 Jun 2020 23:33:28: Too few paired peaks (94) 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 23:33:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3167262/SRX3167262.20_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/SRX3167262/SRX3167262.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3167262/SRX3167262.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3167262/SRX3167262.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。