Job ID = 6527712 SRX = SRX2325663 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:03:35 prefetch.2.10.7: 1) Downloading 'SRR4896351'... 2020-06-29T13:03:35 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:20:20 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:20:20 prefetch.2.10.7: 1) 'SRR4896351' was downloaded successfully 2020-06-29T13:20:20 prefetch.2.10.7: 'SRR4896351' has 0 unresolved dependencies Read 123893001 spots for SRR4896351/SRR4896351.sra Written 123893001 spots for SRR4896351/SRR4896351.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: 00:54:12 123893001 reads; of these: 123893001 (100.00%) were unpaired; of these: 15018333 (12.12%) aligned 0 times 84496379 (68.20%) aligned exactly 1 time 24378289 (19.68%) aligned >1 times 87.88% overall alignment rate Time searching: 00:54:12 Overall time: 00:54:12 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 48 files... [bam_rmdupse_core] 70583309 / 108874668 = 0.6483 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 00:26:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2325663/SRX2325663.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2325663/SRX2325663.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2325663/SRX2325663.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2325663/SRX2325663.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 00:26:12: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:26:12: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:26:18: 1000000 INFO @ Tue, 30 Jun 2020 00:26:25: 2000000 INFO @ Tue, 30 Jun 2020 00:26:31: 3000000 INFO @ Tue, 30 Jun 2020 00:26:37: 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 00:26:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2325663/SRX2325663.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2325663/SRX2325663.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2325663/SRX2325663.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2325663/SRX2325663.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 00:26:42: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:26:42: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:26:43: 5000000 INFO @ Tue, 30 Jun 2020 00:26:51: 6000000 INFO @ Tue, 30 Jun 2020 00:26:51: 1000000 INFO @ Tue, 30 Jun 2020 00:26:58: 7000000 INFO @ Tue, 30 Jun 2020 00:27:00: 2000000 INFO @ Tue, 30 Jun 2020 00:27:06: 8000000 INFO @ Tue, 30 Jun 2020 00:27:08: 3000000 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 00:27:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2325663/SRX2325663.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2325663/SRX2325663.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2325663/SRX2325663.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2325663/SRX2325663.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 00:27:12: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:27:12: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:27:13: 9000000 INFO @ Tue, 30 Jun 2020 00:27:17: 4000000 INFO @ Tue, 30 Jun 2020 00:27:21: 1000000 INFO @ Tue, 30 Jun 2020 00:27:21: 10000000 INFO @ Tue, 30 Jun 2020 00:27:26: 5000000 INFO @ Tue, 30 Jun 2020 00:27:29: 11000000 INFO @ Tue, 30 Jun 2020 00:27:30: 2000000 INFO @ Tue, 30 Jun 2020 00:27:34: 6000000 INFO @ Tue, 30 Jun 2020 00:27:37: 12000000 INFO @ Tue, 30 Jun 2020 00:27:38: 3000000 INFO @ Tue, 30 Jun 2020 00:27:43: 7000000 INFO @ Tue, 30 Jun 2020 00:27:44: 13000000 INFO @ Tue, 30 Jun 2020 00:27:47: 4000000 INFO @ Tue, 30 Jun 2020 00:27:51: 8000000 INFO @ Tue, 30 Jun 2020 00:27:52: 14000000 INFO @ Tue, 30 Jun 2020 00:27:55: 5000000 INFO @ Tue, 30 Jun 2020 00:28:00: 9000000 INFO @ Tue, 30 Jun 2020 00:28:00: 15000000 INFO @ Tue, 30 Jun 2020 00:28:04: 6000000 INFO @ Tue, 30 Jun 2020 00:28:08: 16000000 INFO @ Tue, 30 Jun 2020 00:28:08: 10000000 INFO @ Tue, 30 Jun 2020 00:28:12: 7000000 INFO @ Tue, 30 Jun 2020 00:28:15: 17000000 INFO @ Tue, 30 Jun 2020 00:28:17: 11000000 INFO @ Tue, 30 Jun 2020 00:28:21: 8000000 INFO @ Tue, 30 Jun 2020 00:28:23: 18000000 INFO @ Tue, 30 Jun 2020 00:28:25: 12000000 INFO @ Tue, 30 Jun 2020 00:28:29: 9000000 INFO @ Tue, 30 Jun 2020 00:28:31: 19000000 INFO @ Tue, 30 Jun 2020 00:28:33: 13000000 INFO @ Tue, 30 Jun 2020 00:28:38: 10000000 INFO @ Tue, 30 Jun 2020 00:28:39: 20000000 INFO @ Tue, 30 Jun 2020 00:28:42: 14000000 INFO @ Tue, 30 Jun 2020 00:28:46: 11000000 INFO @ Tue, 30 Jun 2020 00:28:47: 21000000 INFO @ Tue, 30 Jun 2020 00:28:50: 15000000 INFO @ Tue, 30 Jun 2020 00:28:54: 22000000 INFO @ Tue, 30 Jun 2020 00:28:55: 12000000 INFO @ Tue, 30 Jun 2020 00:28:59: 16000000 INFO @ Tue, 30 Jun 2020 00:29:02: 23000000 INFO @ Tue, 30 Jun 2020 00:29:03: 13000000 INFO @ Tue, 30 Jun 2020 00:29:07: 17000000 INFO @ Tue, 30 Jun 2020 00:29:10: 24000000 INFO @ Tue, 30 Jun 2020 00:29:12: 14000000 INFO @ Tue, 30 Jun 2020 00:29:15: 18000000 INFO @ Tue, 30 Jun 2020 00:29:17: 25000000 INFO @ Tue, 30 Jun 2020 00:29:20: 15000000 INFO @ Tue, 30 Jun 2020 00:29:24: 19000000 INFO @ Tue, 30 Jun 2020 00:29:25: 26000000 INFO @ Tue, 30 Jun 2020 00:29:29: 16000000 INFO @ Tue, 30 Jun 2020 00:29:32: 20000000 INFO @ Tue, 30 Jun 2020 00:29:33: 27000000 INFO @ Tue, 30 Jun 2020 00:29:37: 17000000 INFO @ Tue, 30 Jun 2020 00:29:40: 21000000 INFO @ Tue, 30 Jun 2020 00:29:40: 28000000 INFO @ Tue, 30 Jun 2020 00:29:46: 18000000 INFO @ Tue, 30 Jun 2020 00:29:48: 29000000 INFO @ Tue, 30 Jun 2020 00:29:49: 22000000 INFO @ Tue, 30 Jun 2020 00:29:54: 19000000 INFO @ Tue, 30 Jun 2020 00:29:56: 30000000 INFO @ Tue, 30 Jun 2020 00:29:57: 23000000 INFO @ Tue, 30 Jun 2020 00:30:02: 20000000 INFO @ Tue, 30 Jun 2020 00:30:04: 31000000 INFO @ Tue, 30 Jun 2020 00:30:05: 24000000 INFO @ Tue, 30 Jun 2020 00:30:11: 21000000 INFO @ Tue, 30 Jun 2020 00:30:12: 32000000 INFO @ Tue, 30 Jun 2020 00:30:14: 25000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:30:19: 22000000 INFO @ Tue, 30 Jun 2020 00:30:19: 33000000 INFO @ Tue, 30 Jun 2020 00:30:22: 26000000 INFO @ Tue, 30 Jun 2020 00:30:27: 34000000 INFO @ Tue, 30 Jun 2020 00:30:28: 23000000 INFO @ Tue, 30 Jun 2020 00:30:30: 27000000 INFO @ Tue, 30 Jun 2020 00:30:35: 35000000 INFO @ Tue, 30 Jun 2020 00:30:36: 24000000 INFO @ Tue, 30 Jun 2020 00:30:39: 28000000 INFO @ Tue, 30 Jun 2020 00:30:43: 36000000 INFO @ Tue, 30 Jun 2020 00:30:44: 25000000 INFO @ Tue, 30 Jun 2020 00:30:47: 29000000 INFO @ Tue, 30 Jun 2020 00:30:51: 37000000 INFO @ Tue, 30 Jun 2020 00:30:53: 26000000 INFO @ Tue, 30 Jun 2020 00:30:55: 30000000 INFO @ Tue, 30 Jun 2020 00:30:58: 38000000 INFO @ Tue, 30 Jun 2020 00:31:01: #1 tag size is determined as 76 bps INFO @ Tue, 30 Jun 2020 00:31:01: #1 tag size = 76 INFO @ Tue, 30 Jun 2020 00:31:01: #1 total tags in treatment: 38291359 INFO @ Tue, 30 Jun 2020 00:31:01: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:31:01: #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 00:31:01: 27000000 INFO @ Tue, 30 Jun 2020 00:31:01: #1 tags after filtering in treatment: 38291359 INFO @ Tue, 30 Jun 2020 00:31:01: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:31:01: #1 finished! INFO @ Tue, 30 Jun 2020 00:31:01: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:31:01: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:31:04: #2 number of paired peaks: 16 WARNING @ Tue, 30 Jun 2020 00:31:04: 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 @ Tue, 30 Jun 2020 00:31:04: Process for pairing-model is terminated! INFO @ Tue, 30 Jun 2020 00:31:04: 31000000 cut: /home/okishinya/chipatlas/results/dm3/SRX2325663/SRX2325663.05_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/SRX2325663/SRX2325663.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325663/SRX2325663.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325663/SRX2325663.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:31:10: 28000000 INFO @ Tue, 30 Jun 2020 00:31:12: 32000000 INFO @ Tue, 30 Jun 2020 00:31:18: 29000000 INFO @ Tue, 30 Jun 2020 00:31:20: 33000000 INFO @ Tue, 30 Jun 2020 00:31:26: 30000000 INFO @ Tue, 30 Jun 2020 00:31:29: 34000000 BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 00:31:35: 31000000 INFO @ Tue, 30 Jun 2020 00:31:37: 35000000 INFO @ Tue, 30 Jun 2020 00:31:43: 32000000 INFO @ Tue, 30 Jun 2020 00:31:46: 36000000 INFO @ Tue, 30 Jun 2020 00:31:52: 33000000 INFO @ Tue, 30 Jun 2020 00:31:54: 37000000 INFO @ Tue, 30 Jun 2020 00:32:00: 34000000 INFO @ Tue, 30 Jun 2020 00:32:02: 38000000 INFO @ Tue, 30 Jun 2020 00:32:05: #1 tag size is determined as 76 bps INFO @ Tue, 30 Jun 2020 00:32:05: #1 tag size = 76 INFO @ Tue, 30 Jun 2020 00:32:05: #1 total tags in treatment: 38291359 INFO @ Tue, 30 Jun 2020 00:32:05: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:32:05: #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 00:32:05: #1 tags after filtering in treatment: 38291359 INFO @ Tue, 30 Jun 2020 00:32:05: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:32:05: #1 finished! INFO @ Tue, 30 Jun 2020 00:32:05: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:32:05: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:32:07: #2 number of paired peaks: 16 WARNING @ Tue, 30 Jun 2020 00:32:07: 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 @ Tue, 30 Jun 2020 00:32:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2325663/SRX2325663.10_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/SRX2325663/SRX2325663.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325663/SRX2325663.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325663/SRX2325663.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:32:08: 35000000 INFO @ Tue, 30 Jun 2020 00:32:16: 36000000 INFO @ Tue, 30 Jun 2020 00:32:23: 37000000 INFO @ Tue, 30 Jun 2020 00:32:30: 38000000 INFO @ Tue, 30 Jun 2020 00:32:33: #1 tag size is determined as 76 bps INFO @ Tue, 30 Jun 2020 00:32:33: #1 tag size = 76 INFO @ Tue, 30 Jun 2020 00:32:33: #1 total tags in treatment: 38291359 INFO @ Tue, 30 Jun 2020 00:32:33: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:32:33: #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 00:32:33: #1 tags after filtering in treatment: 38291359 INFO @ Tue, 30 Jun 2020 00:32:33: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:32:33: #1 finished! INFO @ Tue, 30 Jun 2020 00:32:33: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:32:33: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:32:36: #2 number of paired peaks: 16 WARNING @ Tue, 30 Jun 2020 00:32:36: 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 @ Tue, 30 Jun 2020 00:32:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2325663/SRX2325663.20_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/SRX2325663/SRX2325663.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325663/SRX2325663.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325663/SRX2325663.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling