Job ID = 6498693 SRX = SRX699542 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-25T23:57:34 prefetch.2.10.7: 1) Downloading 'SRR1573541'... 2020-06-25T23:57:34 prefetch.2.10.7: Downloading via HTTPS... 2020-06-26T00:00:47 prefetch.2.10.7: HTTPS download succeed 2020-06-26T00:00:47 prefetch.2.10.7: 1) 'SRR1573541' was downloaded successfully Read 48706360 spots for SRR1573541/SRR1573541.sra Written 48706360 spots for SRR1573541/SRR1573541.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: 00:10:00 48706360 reads; of these: 48706360 (100.00%) were unpaired; of these: 8648671 (17.76%) aligned 0 times 36220903 (74.37%) aligned exactly 1 time 3836786 (7.88%) aligned >1 times 82.24% overall alignment rate Time searching: 00:10:00 Overall time: 00:10:00 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] 4626805 / 40057689 = 0.1155 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 @ Fri, 26 Jun 2020 09:21:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX699542/SRX699542.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX699542/SRX699542.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX699542/SRX699542.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX699542/SRX699542.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 @ Fri, 26 Jun 2020 09:21:25: #1 read tag files... INFO @ Fri, 26 Jun 2020 09:21:25: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 09:21:31: 1000000 INFO @ Fri, 26 Jun 2020 09:21:38: 2000000 INFO @ Fri, 26 Jun 2020 09:21:44: 3000000 INFO @ Fri, 26 Jun 2020 09:21:50: 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 @ Fri, 26 Jun 2020 09:21:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX699542/SRX699542.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX699542/SRX699542.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX699542/SRX699542.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX699542/SRX699542.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 @ Fri, 26 Jun 2020 09:21:55: #1 read tag files... INFO @ Fri, 26 Jun 2020 09:21:55: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 09:21:57: 5000000 INFO @ Fri, 26 Jun 2020 09:22:02: 1000000 INFO @ Fri, 26 Jun 2020 09:22:04: 6000000 INFO @ Fri, 26 Jun 2020 09:22:08: 2000000 INFO @ Fri, 26 Jun 2020 09:22:10: 7000000 INFO @ Fri, 26 Jun 2020 09:22:15: 3000000 INFO @ Fri, 26 Jun 2020 09:22:17: 8000000 INFO @ Fri, 26 Jun 2020 09:22:22: 4000000 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 @ Fri, 26 Jun 2020 09:22:24: 9000000 INFO @ Fri, 26 Jun 2020 09:22:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX699542/SRX699542.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX699542/SRX699542.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX699542/SRX699542.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX699542/SRX699542.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 @ Fri, 26 Jun 2020 09:22:25: #1 read tag files... INFO @ Fri, 26 Jun 2020 09:22:25: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 09:22:29: 5000000 INFO @ Fri, 26 Jun 2020 09:22:31: 10000000 INFO @ Fri, 26 Jun 2020 09:22:32: 1000000 INFO @ Fri, 26 Jun 2020 09:22:36: 6000000 INFO @ Fri, 26 Jun 2020 09:22:37: 11000000 INFO @ Fri, 26 Jun 2020 09:22:39: 2000000 INFO @ Fri, 26 Jun 2020 09:22:43: 7000000 INFO @ Fri, 26 Jun 2020 09:22:44: 12000000 INFO @ Fri, 26 Jun 2020 09:22:46: 3000000 INFO @ Fri, 26 Jun 2020 09:22:49: 8000000 INFO @ Fri, 26 Jun 2020 09:22:51: 13000000 INFO @ Fri, 26 Jun 2020 09:22:53: 4000000 INFO @ Fri, 26 Jun 2020 09:22:56: 9000000 INFO @ Fri, 26 Jun 2020 09:22:58: 14000000 INFO @ Fri, 26 Jun 2020 09:23:00: 5000000 INFO @ Fri, 26 Jun 2020 09:23:03: 10000000 INFO @ Fri, 26 Jun 2020 09:23:05: 15000000 INFO @ Fri, 26 Jun 2020 09:23:06: 6000000 INFO @ Fri, 26 Jun 2020 09:23:10: 11000000 INFO @ Fri, 26 Jun 2020 09:23:12: 16000000 INFO @ Fri, 26 Jun 2020 09:23:13: 7000000 INFO @ Fri, 26 Jun 2020 09:23:17: 12000000 INFO @ Fri, 26 Jun 2020 09:23:19: 17000000 INFO @ Fri, 26 Jun 2020 09:23:20: 8000000 INFO @ Fri, 26 Jun 2020 09:23:23: 13000000 INFO @ Fri, 26 Jun 2020 09:23:25: 18000000 INFO @ Fri, 26 Jun 2020 09:23:27: 9000000 INFO @ Fri, 26 Jun 2020 09:23:30: 14000000 INFO @ Fri, 26 Jun 2020 09:23:33: 19000000 INFO @ Fri, 26 Jun 2020 09:23:34: 10000000 INFO @ Fri, 26 Jun 2020 09:23:37: 15000000 INFO @ Fri, 26 Jun 2020 09:23:40: 20000000 INFO @ Fri, 26 Jun 2020 09:23:40: 11000000 INFO @ Fri, 26 Jun 2020 09:23:44: 16000000 INFO @ Fri, 26 Jun 2020 09:23:47: 21000000 INFO @ Fri, 26 Jun 2020 09:23:47: 12000000 INFO @ Fri, 26 Jun 2020 09:23:51: 17000000 INFO @ Fri, 26 Jun 2020 09:23:54: 22000000 INFO @ Fri, 26 Jun 2020 09:23:54: 13000000 INFO @ Fri, 26 Jun 2020 09:23:58: 18000000 INFO @ Fri, 26 Jun 2020 09:24:01: 14000000 INFO @ Fri, 26 Jun 2020 09:24:01: 23000000 INFO @ Fri, 26 Jun 2020 09:24:04: 19000000 INFO @ Fri, 26 Jun 2020 09:24:08: 15000000 INFO @ Fri, 26 Jun 2020 09:24:08: 24000000 INFO @ Fri, 26 Jun 2020 09:24:11: 20000000 INFO @ Fri, 26 Jun 2020 09:24:15: 16000000 INFO @ Fri, 26 Jun 2020 09:24:16: 25000000 INFO @ Fri, 26 Jun 2020 09:24:18: 21000000 INFO @ Fri, 26 Jun 2020 09:24:22: 17000000 INFO @ Fri, 26 Jun 2020 09:24:23: 26000000 INFO @ Fri, 26 Jun 2020 09:24:25: 22000000 INFO @ Fri, 26 Jun 2020 09:24:28: 18000000 INFO @ Fri, 26 Jun 2020 09:24:30: 27000000 INFO @ Fri, 26 Jun 2020 09:24:32: 23000000 INFO @ Fri, 26 Jun 2020 09:24:35: 19000000 INFO @ Fri, 26 Jun 2020 09:24:37: 28000000 INFO @ Fri, 26 Jun 2020 09:24:39: 24000000 INFO @ Fri, 26 Jun 2020 09:24:42: 20000000 INFO @ Fri, 26 Jun 2020 09:24:45: 29000000 INFO @ Fri, 26 Jun 2020 09:24:46: 25000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 09:24:49: 21000000 INFO @ Fri, 26 Jun 2020 09:24:52: 30000000 INFO @ Fri, 26 Jun 2020 09:24:52: 26000000 INFO @ Fri, 26 Jun 2020 09:24:57: 22000000 INFO @ Fri, 26 Jun 2020 09:24:59: 31000000 INFO @ Fri, 26 Jun 2020 09:24:59: 27000000 INFO @ Fri, 26 Jun 2020 09:25:04: 23000000 INFO @ Fri, 26 Jun 2020 09:25:06: 32000000 INFO @ Fri, 26 Jun 2020 09:25:06: 28000000 INFO @ Fri, 26 Jun 2020 09:25:11: 24000000 INFO @ Fri, 26 Jun 2020 09:25:13: 33000000 INFO @ Fri, 26 Jun 2020 09:25:13: 29000000 INFO @ Fri, 26 Jun 2020 09:25:18: 25000000 INFO @ Fri, 26 Jun 2020 09:25:20: 30000000 INFO @ Fri, 26 Jun 2020 09:25:20: 34000000 INFO @ Fri, 26 Jun 2020 09:25:25: 26000000 INFO @ Fri, 26 Jun 2020 09:25:27: 31000000 INFO @ Fri, 26 Jun 2020 09:25:27: 35000000 INFO @ Fri, 26 Jun 2020 09:25:30: #1 tag size is determined as 36 bps INFO @ Fri, 26 Jun 2020 09:25:30: #1 tag size = 36 INFO @ Fri, 26 Jun 2020 09:25:30: #1 total tags in treatment: 35430884 INFO @ Fri, 26 Jun 2020 09:25:30: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 09:25:30: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 09:25:31: #1 tags after filtering in treatment: 35430884 INFO @ Fri, 26 Jun 2020 09:25:31: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 09:25:31: #1 finished! INFO @ Fri, 26 Jun 2020 09:25:31: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 09:25:31: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 09:25:32: 27000000 INFO @ Fri, 26 Jun 2020 09:25:33: #2 number of paired peaks: 16 WARNING @ Fri, 26 Jun 2020 09:25:33: Too few paired peaks (16) 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 @ Fri, 26 Jun 2020 09:25:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX699542/SRX699542.05_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/SRX699542/SRX699542.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX699542/SRX699542.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX699542/SRX699542.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 09:25:34: 32000000 INFO @ Fri, 26 Jun 2020 09:25:39: 28000000 INFO @ Fri, 26 Jun 2020 09:25:41: 33000000 INFO @ Fri, 26 Jun 2020 09:25:47: 29000000 INFO @ Fri, 26 Jun 2020 09:25:48: 34000000 INFO @ Fri, 26 Jun 2020 09:25:54: 30000000 INFO @ Fri, 26 Jun 2020 09:25:55: 35000000 INFO @ Fri, 26 Jun 2020 09:25:58: #1 tag size is determined as 36 bps INFO @ Fri, 26 Jun 2020 09:25:58: #1 tag size = 36 INFO @ Fri, 26 Jun 2020 09:25:58: #1 total tags in treatment: 35430884 INFO @ Fri, 26 Jun 2020 09:25:58: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 09:25:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 09:25:58: #1 tags after filtering in treatment: 35430884 INFO @ Fri, 26 Jun 2020 09:25:58: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 09:25:58: #1 finished! INFO @ Fri, 26 Jun 2020 09:25:58: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 09:25:58: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 09:26:00: #2 number of paired peaks: 16 WARNING @ Fri, 26 Jun 2020 09:26:00: Too few paired peaks (16) 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 @ Fri, 26 Jun 2020 09:26:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX699542/SRX699542.10_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/SRX699542/SRX699542.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX699542/SRX699542.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX699542/SRX699542.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 09:26:01: 31000000 BigWig に変換しました。 INFO @ Fri, 26 Jun 2020 09:26:07: 32000000 INFO @ Fri, 26 Jun 2020 09:26:14: 33000000 INFO @ Fri, 26 Jun 2020 09:26:21: 34000000 INFO @ Fri, 26 Jun 2020 09:26:27: 35000000 INFO @ Fri, 26 Jun 2020 09:26:30: #1 tag size is determined as 36 bps INFO @ Fri, 26 Jun 2020 09:26:30: #1 tag size = 36 INFO @ Fri, 26 Jun 2020 09:26:30: #1 total tags in treatment: 35430884 INFO @ Fri, 26 Jun 2020 09:26:30: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 09:26:30: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 09:26:31: #1 tags after filtering in treatment: 35430884 INFO @ Fri, 26 Jun 2020 09:26:31: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 09:26:31: #1 finished! INFO @ Fri, 26 Jun 2020 09:26:31: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 09:26:31: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 09:26:33: #2 number of paired peaks: 16 WARNING @ Fri, 26 Jun 2020 09:26:33: Too few paired peaks (16) 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 @ Fri, 26 Jun 2020 09:26:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX699542/SRX699542.20_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/SRX699542/SRX699542.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX699542/SRX699542.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX699542/SRX699542.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling