Job ID = 6528096 SRX = SRX4580640 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:35:51 prefetch.2.10.7: 1) Downloading 'SRR7724139'... 2020-06-29T14:35:51 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:42:38 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:42:38 prefetch.2.10.7: 1) 'SRR7724139' was downloaded successfully Read 32140314 spots for SRR7724139/SRR7724139.sra Written 32140314 spots for SRR7724139/SRR7724139.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: 00:08:11 32140314 reads; of these: 32140314 (100.00%) were unpaired; of these: 2691789 (8.38%) aligned 0 times 23517973 (73.17%) aligned exactly 1 time 5930552 (18.45%) aligned >1 times 91.62% overall alignment rate Time searching: 00:08:11 Overall time: 00:08:11 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] 2591250 / 29448525 = 0.0880 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 00:12:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4580640/SRX4580640.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4580640/SRX4580640.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4580640/SRX4580640.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4580640/SRX4580640.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 00:12:03: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:12:03: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:12:09: 1000000 INFO @ Tue, 30 Jun 2020 00:12:15: 2000000 INFO @ Tue, 30 Jun 2020 00:12:21: 3000000 INFO @ Tue, 30 Jun 2020 00:12:27: 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, 30 Jun 2020 00:12:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4580640/SRX4580640.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4580640/SRX4580640.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4580640/SRX4580640.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4580640/SRX4580640.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 00:12:32: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:12:32: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:12:33: 5000000 INFO @ Tue, 30 Jun 2020 00:12:38: 1000000 INFO @ Tue, 30 Jun 2020 00:12:39: 6000000 INFO @ Tue, 30 Jun 2020 00:12:44: 2000000 INFO @ Tue, 30 Jun 2020 00:12:45: 7000000 INFO @ Tue, 30 Jun 2020 00:12:50: 3000000 INFO @ Tue, 30 Jun 2020 00:12:51: 8000000 INFO @ Tue, 30 Jun 2020 00:12:56: 4000000 INFO @ Tue, 30 Jun 2020 00:12:57: 9000000 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 00:13:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4580640/SRX4580640.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4580640/SRX4580640.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4580640/SRX4580640.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4580640/SRX4580640.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 00:13:02: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:13:02: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:13:03: 5000000 INFO @ Tue, 30 Jun 2020 00:13:03: 10000000 INFO @ Tue, 30 Jun 2020 00:13:09: 1000000 INFO @ Tue, 30 Jun 2020 00:13:09: 6000000 INFO @ Tue, 30 Jun 2020 00:13:10: 11000000 INFO @ Tue, 30 Jun 2020 00:13:15: 2000000 INFO @ Tue, 30 Jun 2020 00:13:15: 7000000 INFO @ Tue, 30 Jun 2020 00:13:16: 12000000 INFO @ Tue, 30 Jun 2020 00:13:22: 8000000 INFO @ Tue, 30 Jun 2020 00:13:22: 13000000 INFO @ Tue, 30 Jun 2020 00:13:23: 3000000 INFO @ Tue, 30 Jun 2020 00:13:28: 9000000 INFO @ Tue, 30 Jun 2020 00:13:28: 14000000 INFO @ Tue, 30 Jun 2020 00:13:29: 4000000 INFO @ Tue, 30 Jun 2020 00:13:34: 10000000 INFO @ Tue, 30 Jun 2020 00:13:35: 15000000 INFO @ Tue, 30 Jun 2020 00:13:36: 5000000 INFO @ Tue, 30 Jun 2020 00:13:40: 11000000 INFO @ Tue, 30 Jun 2020 00:13:41: 16000000 INFO @ Tue, 30 Jun 2020 00:13:42: 6000000 INFO @ Tue, 30 Jun 2020 00:13:47: 12000000 INFO @ Tue, 30 Jun 2020 00:13:48: 17000000 INFO @ Tue, 30 Jun 2020 00:13:49: 7000000 INFO @ Tue, 30 Jun 2020 00:13:53: 13000000 INFO @ Tue, 30 Jun 2020 00:13:54: 18000000 INFO @ Tue, 30 Jun 2020 00:13:55: 8000000 INFO @ Tue, 30 Jun 2020 00:13:59: 14000000 INFO @ Tue, 30 Jun 2020 00:14:01: 19000000 INFO @ Tue, 30 Jun 2020 00:14:01: 9000000 INFO @ Tue, 30 Jun 2020 00:14:05: 15000000 INFO @ Tue, 30 Jun 2020 00:14:07: 20000000 INFO @ Tue, 30 Jun 2020 00:14:08: 10000000 INFO @ Tue, 30 Jun 2020 00:14:11: 16000000 INFO @ Tue, 30 Jun 2020 00:14:14: 21000000 INFO @ Tue, 30 Jun 2020 00:14:14: 11000000 INFO @ Tue, 30 Jun 2020 00:14:17: 17000000 INFO @ Tue, 30 Jun 2020 00:14:20: 22000000 INFO @ Tue, 30 Jun 2020 00:14:21: 12000000 INFO @ Tue, 30 Jun 2020 00:14:24: 18000000 INFO @ Tue, 30 Jun 2020 00:14:27: 13000000 INFO @ Tue, 30 Jun 2020 00:14:27: 23000000 INFO @ Tue, 30 Jun 2020 00:14:30: 19000000 INFO @ Tue, 30 Jun 2020 00:14:33: 14000000 INFO @ Tue, 30 Jun 2020 00:14:34: 24000000 INFO @ Tue, 30 Jun 2020 00:14:37: 20000000 INFO @ Tue, 30 Jun 2020 00:14:40: 15000000 INFO @ Tue, 30 Jun 2020 00:14:40: 25000000 INFO @ Tue, 30 Jun 2020 00:14:44: 21000000 INFO @ Tue, 30 Jun 2020 00:14:46: 16000000 INFO @ Tue, 30 Jun 2020 00:14:47: 26000000 INFO @ Tue, 30 Jun 2020 00:14:50: 22000000 INFO @ Tue, 30 Jun 2020 00:14:52: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:14:52: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:14:52: #1 total tags in treatment: 26857275 INFO @ Tue, 30 Jun 2020 00:14:52: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:14:52: #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 00:14:53: 17000000 INFO @ Tue, 30 Jun 2020 00:14:53: #1 tags after filtering in treatment: 26857275 INFO @ Tue, 30 Jun 2020 00:14:53: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:14:53: #1 finished! INFO @ Tue, 30 Jun 2020 00:14:53: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:14:53: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:14:55: #2 number of paired peaks: 95 WARNING @ Tue, 30 Jun 2020 00:14:55: Too few paired peaks (95) 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 @ Tue, 30 Jun 2020 00:14:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4580640/SRX4580640.05_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/SRX4580640/SRX4580640.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4580640/SRX4580640.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4580640/SRX4580640.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:14:56: 23000000 INFO @ Tue, 30 Jun 2020 00:14:58: 18000000 INFO @ Tue, 30 Jun 2020 00:15:02: 24000000 INFO @ Tue, 30 Jun 2020 00:15:04: 19000000 INFO @ Tue, 30 Jun 2020 00:15:09: 25000000 INFO @ Tue, 30 Jun 2020 00:15:10: 20000000 INFO @ Tue, 30 Jun 2020 00:15:15: 26000000 INFO @ Tue, 30 Jun 2020 00:15:16: 21000000 INFO @ Tue, 30 Jun 2020 00:15:21: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:15:21: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:15:21: #1 total tags in treatment: 26857275 INFO @ Tue, 30 Jun 2020 00:15:21: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:15:21: #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 00:15:21: #1 tags after filtering in treatment: 26857275 INFO @ Tue, 30 Jun 2020 00:15:21: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:15:21: #1 finished! INFO @ Tue, 30 Jun 2020 00:15:21: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:15:21: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:15:22: 22000000 INFO @ Tue, 30 Jun 2020 00:15:23: #2 number of paired peaks: 95 WARNING @ Tue, 30 Jun 2020 00:15:23: Too few paired peaks (95) 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 @ Tue, 30 Jun 2020 00:15:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4580640/SRX4580640.10_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/SRX4580640/SRX4580640.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4580640/SRX4580640.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4580640/SRX4580640.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:15:27: 23000000 INFO @ Tue, 30 Jun 2020 00:15:33: 24000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:15:39: 25000000 INFO @ Tue, 30 Jun 2020 00:15:44: 26000000 INFO @ Tue, 30 Jun 2020 00:15:50: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 00:15:50: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 00:15:50: #1 total tags in treatment: 26857275 INFO @ Tue, 30 Jun 2020 00:15:50: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:15:50: #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 00:15:50: #1 tags after filtering in treatment: 26857275 INFO @ Tue, 30 Jun 2020 00:15:50: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:15:50: #1 finished! INFO @ Tue, 30 Jun 2020 00:15:50: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:15:50: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:15:52: #2 number of paired peaks: 95 WARNING @ Tue, 30 Jun 2020 00:15:52: Too few paired peaks (95) 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 @ Tue, 30 Jun 2020 00:15:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX4580640/SRX4580640.20_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/SRX4580640/SRX4580640.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4580640/SRX4580640.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX4580640/SRX4580640.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。