Job ID = 6528324 SRX = SRX5343153 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:35:02 prefetch.2.10.7: 1) Downloading 'SRR8540853'... 2020-06-29T14:35:02 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:40:07 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:40:07 prefetch.2.10.7: 1) 'SRR8540853' was downloaded successfully 2020-06-29T14:40:07 prefetch.2.10.7: 'SRR8540853' has 0 unresolved dependencies Read 31676147 spots for SRR8540853/SRR8540853.sra Written 31676147 spots for SRR8540853/SRR8540853.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: 00:00:01 Multiseed full-index search: 00:13:57 31676147 reads; of these: 31676147 (100.00%) were unpaired; of these: 1107703 (3.50%) aligned 0 times 20926263 (66.06%) aligned exactly 1 time 9642181 (30.44%) aligned >1 times 96.50% overall alignment rate Time searching: 00:13:58 Overall time: 00:13:58 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] 3884365 / 30568444 = 0.1271 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 00:15:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343153/SRX5343153.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343153/SRX5343153.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343153/SRX5343153.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343153/SRX5343153.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 00:15:03: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:15:03: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:15:11: 1000000 INFO @ Tue, 30 Jun 2020 00:15:19: 2000000 INFO @ Tue, 30 Jun 2020 00:15:27: 3000000 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 00:15:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343153/SRX5343153.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343153/SRX5343153.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343153/SRX5343153.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343153/SRX5343153.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 00:15:33: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:15:33: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:15:34: 4000000 INFO @ Tue, 30 Jun 2020 00:15:42: 1000000 INFO @ Tue, 30 Jun 2020 00:15:43: 5000000 INFO @ Tue, 30 Jun 2020 00:15:50: 2000000 INFO @ Tue, 30 Jun 2020 00:15:52: 6000000 INFO @ Tue, 30 Jun 2020 00:15:59: 3000000 INFO @ Tue, 30 Jun 2020 00:16:01: 7000000 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 00:16:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX5343153/SRX5343153.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX5343153/SRX5343153.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX5343153/SRX5343153.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX5343153/SRX5343153.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 00:16:04: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:16:04: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:16:08: 4000000 INFO @ Tue, 30 Jun 2020 00:16:09: 8000000 INFO @ Tue, 30 Jun 2020 00:16:12: 1000000 INFO @ Tue, 30 Jun 2020 00:16:16: 5000000 INFO @ Tue, 30 Jun 2020 00:16:18: 9000000 INFO @ Tue, 30 Jun 2020 00:16:21: 2000000 INFO @ Tue, 30 Jun 2020 00:16:25: 6000000 INFO @ Tue, 30 Jun 2020 00:16:27: 10000000 INFO @ Tue, 30 Jun 2020 00:16:29: 3000000 INFO @ Tue, 30 Jun 2020 00:16:34: 7000000 INFO @ Tue, 30 Jun 2020 00:16:35: 11000000 INFO @ Tue, 30 Jun 2020 00:16:38: 4000000 INFO @ Tue, 30 Jun 2020 00:16:42: 8000000 INFO @ Tue, 30 Jun 2020 00:16:44: 12000000 INFO @ Tue, 30 Jun 2020 00:16:47: 5000000 INFO @ Tue, 30 Jun 2020 00:16:51: 9000000 INFO @ Tue, 30 Jun 2020 00:16:52: 13000000 INFO @ Tue, 30 Jun 2020 00:16:55: 6000000 INFO @ Tue, 30 Jun 2020 00:17:00: 10000000 INFO @ Tue, 30 Jun 2020 00:17:01: 14000000 INFO @ Tue, 30 Jun 2020 00:17:04: 7000000 INFO @ Tue, 30 Jun 2020 00:17:08: 11000000 INFO @ Tue, 30 Jun 2020 00:17:10: 15000000 INFO @ Tue, 30 Jun 2020 00:17:12: 8000000 INFO @ Tue, 30 Jun 2020 00:17:16: 12000000 INFO @ Tue, 30 Jun 2020 00:17:18: 16000000 INFO @ Tue, 30 Jun 2020 00:17:21: 9000000 INFO @ Tue, 30 Jun 2020 00:17:25: 13000000 INFO @ Tue, 30 Jun 2020 00:17:26: 17000000 INFO @ Tue, 30 Jun 2020 00:17:30: 10000000 INFO @ Tue, 30 Jun 2020 00:17:34: 14000000 INFO @ Tue, 30 Jun 2020 00:17:35: 18000000 INFO @ Tue, 30 Jun 2020 00:17:38: 11000000 INFO @ Tue, 30 Jun 2020 00:17:42: 15000000 INFO @ Tue, 30 Jun 2020 00:17:43: 19000000 INFO @ Tue, 30 Jun 2020 00:17:47: 12000000 INFO @ Tue, 30 Jun 2020 00:17:51: 16000000 INFO @ Tue, 30 Jun 2020 00:17:52: 20000000 INFO @ Tue, 30 Jun 2020 00:17:56: 13000000 INFO @ Tue, 30 Jun 2020 00:17:59: 17000000 INFO @ Tue, 30 Jun 2020 00:18:00: 21000000 INFO @ Tue, 30 Jun 2020 00:18:04: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:18:08: 18000000 INFO @ Tue, 30 Jun 2020 00:18:08: 22000000 INFO @ Tue, 30 Jun 2020 00:18:13: 15000000 INFO @ Tue, 30 Jun 2020 00:18:16: 19000000 INFO @ Tue, 30 Jun 2020 00:18:16: 23000000 INFO @ Tue, 30 Jun 2020 00:18:22: 16000000 INFO @ Tue, 30 Jun 2020 00:18:25: 20000000 INFO @ Tue, 30 Jun 2020 00:18:25: 24000000 INFO @ Tue, 30 Jun 2020 00:18:30: 17000000 INFO @ Tue, 30 Jun 2020 00:18:33: 21000000 INFO @ Tue, 30 Jun 2020 00:18:34: 25000000 INFO @ Tue, 30 Jun 2020 00:18:39: 18000000 INFO @ Tue, 30 Jun 2020 00:18:41: 22000000 INFO @ Tue, 30 Jun 2020 00:18:42: 26000000 INFO @ Tue, 30 Jun 2020 00:18:47: 19000000 INFO @ Tue, 30 Jun 2020 00:18:48: #1 tag size is determined as 65 bps INFO @ Tue, 30 Jun 2020 00:18:48: #1 tag size = 65 INFO @ Tue, 30 Jun 2020 00:18:48: #1 total tags in treatment: 26684079 INFO @ Tue, 30 Jun 2020 00:18:48: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:18:48: #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 00:18:49: #1 tags after filtering in treatment: 26684079 INFO @ Tue, 30 Jun 2020 00:18:49: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:18:49: #1 finished! INFO @ Tue, 30 Jun 2020 00:18:49: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:18:49: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:18:49: 23000000 INFO @ Tue, 30 Jun 2020 00:18:50: #2 number of paired peaks: 55 WARNING @ Tue, 30 Jun 2020 00:18:50: Too few paired peaks (55) 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 00:18:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343153/SRX5343153.05_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/SRX5343153/SRX5343153.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343153/SRX5343153.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343153/SRX5343153.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:18:56: 20000000 INFO @ Tue, 30 Jun 2020 00:18:58: 24000000 INFO @ Tue, 30 Jun 2020 00:19:04: 21000000 INFO @ Tue, 30 Jun 2020 00:19:06: 25000000 BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 00:19:12: 22000000 INFO @ Tue, 30 Jun 2020 00:19:15: 26000000 INFO @ Tue, 30 Jun 2020 00:19:21: #1 tag size is determined as 65 bps INFO @ Tue, 30 Jun 2020 00:19:21: #1 tag size = 65 INFO @ Tue, 30 Jun 2020 00:19:21: #1 total tags in treatment: 26684079 INFO @ Tue, 30 Jun 2020 00:19:21: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:19:21: #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 00:19:21: 23000000 INFO @ Tue, 30 Jun 2020 00:19:21: #1 tags after filtering in treatment: 26684079 INFO @ Tue, 30 Jun 2020 00:19:21: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:19:21: #1 finished! INFO @ Tue, 30 Jun 2020 00:19:21: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:19:21: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:19:23: #2 number of paired peaks: 55 WARNING @ Tue, 30 Jun 2020 00:19:23: Too few paired peaks (55) 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 00:19:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343153/SRX5343153.10_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/SRX5343153/SRX5343153.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343153/SRX5343153.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343153/SRX5343153.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:19:29: 24000000 INFO @ Tue, 30 Jun 2020 00:19:36: 25000000 INFO @ Tue, 30 Jun 2020 00:19:44: 26000000 INFO @ Tue, 30 Jun 2020 00:19:50: #1 tag size is determined as 65 bps INFO @ Tue, 30 Jun 2020 00:19:50: #1 tag size = 65 INFO @ Tue, 30 Jun 2020 00:19:50: #1 total tags in treatment: 26684079 INFO @ Tue, 30 Jun 2020 00:19:50: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:19:50: #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 00:19:50: #1 tags after filtering in treatment: 26684079 INFO @ Tue, 30 Jun 2020 00:19:50: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:19:50: #1 finished! INFO @ Tue, 30 Jun 2020 00:19:50: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:19:50: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:19:52: #2 number of paired peaks: 55 WARNING @ Tue, 30 Jun 2020 00:19:52: Too few paired peaks (55) 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 00:19:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX5343153/SRX5343153.20_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/SRX5343153/SRX5343153.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343153/SRX5343153.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX5343153/SRX5343153.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling