Job ID = 6527650 SRX = SRX1847048 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:42:45 prefetch.2.10.7: 1) Downloading 'SRR3669865'... 2020-06-29T13:42:45 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:48:44 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:48:44 prefetch.2.10.7: 1) 'SRR3669865' was downloaded successfully Read 33320269 spots for SRR3669865/SRR3669865.sra Written 33320269 spots for SRR3669865/SRR3669865.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: 00:12:27 33320269 reads; of these: 33320269 (100.00%) were unpaired; of these: 1407003 (4.22%) aligned 0 times 21902801 (65.73%) aligned exactly 1 time 10010465 (30.04%) aligned >1 times 95.78% overall alignment rate Time searching: 00:12:28 Overall time: 00:12:28 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 16 files... [bam_rmdupse_core] 8918898 / 31913266 = 0.2795 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 23:17:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1847048/SRX1847048.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1847048/SRX1847048.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1847048/SRX1847048.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1847048/SRX1847048.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 23:17:34: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:17:34: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:17:39: 1000000 INFO @ Mon, 29 Jun 2020 23:17:44: 2000000 INFO @ Mon, 29 Jun 2020 23:17:49: 3000000 INFO @ Mon, 29 Jun 2020 23:17:55: 4000000 INFO @ Mon, 29 Jun 2020 23:18:00: 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 23:18:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1847048/SRX1847048.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1847048/SRX1847048.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1847048/SRX1847048.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1847048/SRX1847048.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 23:18:04: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:18:04: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:18:05: 6000000 INFO @ Mon, 29 Jun 2020 23:18:09: 1000000 INFO @ Mon, 29 Jun 2020 23:18:10: 7000000 INFO @ Mon, 29 Jun 2020 23:18:15: 2000000 INFO @ Mon, 29 Jun 2020 23:18:16: 8000000 INFO @ Mon, 29 Jun 2020 23:18:20: 3000000 INFO @ Mon, 29 Jun 2020 23:18:21: 9000000 INFO @ Mon, 29 Jun 2020 23:18:26: 4000000 INFO @ Mon, 29 Jun 2020 23:18:27: 10000000 INFO @ Mon, 29 Jun 2020 23:18:31: 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 23:18:32: 11000000 INFO @ Mon, 29 Jun 2020 23:18:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX1847048/SRX1847048.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX1847048/SRX1847048.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX1847048/SRX1847048.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX1847048/SRX1847048.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 23:18:34: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:18:34: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:18:37: 6000000 INFO @ Mon, 29 Jun 2020 23:18:38: 12000000 INFO @ Mon, 29 Jun 2020 23:18:40: 1000000 INFO @ Mon, 29 Jun 2020 23:18:43: 7000000 INFO @ Mon, 29 Jun 2020 23:18:44: 13000000 INFO @ Mon, 29 Jun 2020 23:18:46: 2000000 INFO @ Mon, 29 Jun 2020 23:18:49: 8000000 INFO @ Mon, 29 Jun 2020 23:18:50: 14000000 INFO @ Mon, 29 Jun 2020 23:18:52: 3000000 INFO @ Mon, 29 Jun 2020 23:18:55: 9000000 INFO @ Mon, 29 Jun 2020 23:18:55: 15000000 INFO @ Mon, 29 Jun 2020 23:18:58: 4000000 INFO @ Mon, 29 Jun 2020 23:19:00: 10000000 INFO @ Mon, 29 Jun 2020 23:19:01: 16000000 INFO @ Mon, 29 Jun 2020 23:19:03: 5000000 INFO @ Mon, 29 Jun 2020 23:19:06: 11000000 INFO @ Mon, 29 Jun 2020 23:19:07: 17000000 INFO @ Mon, 29 Jun 2020 23:19:09: 6000000 INFO @ Mon, 29 Jun 2020 23:19:12: 12000000 INFO @ Mon, 29 Jun 2020 23:19:13: 18000000 INFO @ Mon, 29 Jun 2020 23:19:15: 7000000 INFO @ Mon, 29 Jun 2020 23:19:17: 13000000 INFO @ Mon, 29 Jun 2020 23:19:19: 19000000 INFO @ Mon, 29 Jun 2020 23:19:20: 8000000 INFO @ Mon, 29 Jun 2020 23:19:23: 14000000 INFO @ Mon, 29 Jun 2020 23:19:25: 20000000 INFO @ Mon, 29 Jun 2020 23:19:26: 9000000 INFO @ Mon, 29 Jun 2020 23:19:29: 15000000 INFO @ Mon, 29 Jun 2020 23:19:30: 21000000 INFO @ Mon, 29 Jun 2020 23:19:32: 10000000 INFO @ Mon, 29 Jun 2020 23:19:34: 16000000 INFO @ Mon, 29 Jun 2020 23:19:36: 22000000 INFO @ Mon, 29 Jun 2020 23:19:37: 11000000 INFO @ Mon, 29 Jun 2020 23:19:40: 17000000 INFO @ Mon, 29 Jun 2020 23:19:42: #1 tag size is determined as 49 bps INFO @ Mon, 29 Jun 2020 23:19:42: #1 tag size = 49 INFO @ Mon, 29 Jun 2020 23:19:42: #1 total tags in treatment: 22994368 INFO @ Mon, 29 Jun 2020 23:19:42: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:19:42: #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 23:19:42: #1 tags after filtering in treatment: 22994368 INFO @ Mon, 29 Jun 2020 23:19:42: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:19:42: #1 finished! INFO @ Mon, 29 Jun 2020 23:19:42: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:19:42: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:19:43: 12000000 INFO @ Mon, 29 Jun 2020 23:19:44: #2 number of paired peaks: 21 WARNING @ Mon, 29 Jun 2020 23:19:44: Too few paired peaks (21) 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 23:19:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1847048/SRX1847048.05_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/SRX1847048/SRX1847048.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1847048/SRX1847048.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1847048/SRX1847048.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:19:45: 18000000 INFO @ Mon, 29 Jun 2020 23:19:48: 13000000 INFO @ Mon, 29 Jun 2020 23:19:51: 19000000 INFO @ Mon, 29 Jun 2020 23:19:54: 14000000 INFO @ Mon, 29 Jun 2020 23:19:56: 20000000 INFO @ Mon, 29 Jun 2020 23:19:59: 15000000 INFO @ Mon, 29 Jun 2020 23:20:02: 21000000 INFO @ Mon, 29 Jun 2020 23:20:05: 16000000 INFO @ Mon, 29 Jun 2020 23:20:07: 22000000 INFO @ Mon, 29 Jun 2020 23:20:10: 17000000 INFO @ Mon, 29 Jun 2020 23:20:13: #1 tag size is determined as 49 bps INFO @ Mon, 29 Jun 2020 23:20:13: #1 tag size = 49 INFO @ Mon, 29 Jun 2020 23:20:13: #1 total tags in treatment: 22994368 INFO @ Mon, 29 Jun 2020 23:20:13: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:20:13: #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 23:20:13: #1 tags after filtering in treatment: 22994368 INFO @ Mon, 29 Jun 2020 23:20:13: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:20:13: #1 finished! INFO @ Mon, 29 Jun 2020 23:20:13: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:20:13: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:20:15: #2 number of paired peaks: 21 WARNING @ Mon, 29 Jun 2020 23:20:15: Too few paired peaks (21) 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 23:20:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1847048/SRX1847048.10_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/SRX1847048/SRX1847048.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1847048/SRX1847048.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1847048/SRX1847048.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:20:16: 18000000 INFO @ Mon, 29 Jun 2020 23:20:21: 19000000 INFO @ Mon, 29 Jun 2020 23:20:27: 20000000 INFO @ Mon, 29 Jun 2020 23:20:32: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:20:37: 22000000 INFO @ Mon, 29 Jun 2020 23:20:43: #1 tag size is determined as 49 bps INFO @ Mon, 29 Jun 2020 23:20:43: #1 tag size = 49 INFO @ Mon, 29 Jun 2020 23:20:43: #1 total tags in treatment: 22994368 INFO @ Mon, 29 Jun 2020 23:20:43: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:20:43: #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 23:20:43: #1 tags after filtering in treatment: 22994368 INFO @ Mon, 29 Jun 2020 23:20:43: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:20:43: #1 finished! INFO @ Mon, 29 Jun 2020 23:20:43: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:20:43: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:20:44: #2 number of paired peaks: 21 WARNING @ Mon, 29 Jun 2020 23:20:44: Too few paired peaks (21) 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 23:20:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX1847048/SRX1847048.20_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/SRX1847048/SRX1847048.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1847048/SRX1847048.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX1847048/SRX1847048.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。