Job ID = 6454579 SRX = SRX2325652 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T09:10:55 prefetch.2.10.7: 1) Downloading 'SRR4896340'... 2020-06-21T09:10:55 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T09:18:57 prefetch.2.10.7: HTTPS download succeed 2020-06-21T09:18:57 prefetch.2.10.7: 1) 'SRR4896340' was downloaded successfully 2020-06-21T09:18:57 prefetch.2.10.7: 'SRR4896340' has 0 unresolved dependencies Read 46155667 spots for SRR4896340/SRR4896340.sra Written 46155667 spots for SRR4896340/SRR4896340.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: 00:17:39 46155667 reads; of these: 46155667 (100.00%) were unpaired; of these: 2677749 (5.80%) aligned 0 times 33001405 (71.50%) aligned exactly 1 time 10476513 (22.70%) aligned >1 times 94.20% overall alignment rate Time searching: 00:17:39 Overall time: 00:17:39 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_sort_core] merging from 20 files... [bam_rmdupse_core] 9242035 / 43477918 = 0.2126 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 @ Sun, 21 Jun 2020 18:50:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2325652/SRX2325652.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2325652/SRX2325652.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2325652/SRX2325652.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2325652/SRX2325652.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 @ Sun, 21 Jun 2020 18:50:53: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:50:53: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:50:59: 1000000 INFO @ Sun, 21 Jun 2020 18:51:06: 2000000 INFO @ Sun, 21 Jun 2020 18:51:12: 3000000 INFO @ Sun, 21 Jun 2020 18:51:19: 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 @ Sun, 21 Jun 2020 18:51:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2325652/SRX2325652.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2325652/SRX2325652.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2325652/SRX2325652.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2325652/SRX2325652.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 @ Sun, 21 Jun 2020 18:51:23: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:51:23: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:51:26: 5000000 INFO @ Sun, 21 Jun 2020 18:51:32: 1000000 INFO @ Sun, 21 Jun 2020 18:51:34: 6000000 INFO @ Sun, 21 Jun 2020 18:51:42: 2000000 INFO @ Sun, 21 Jun 2020 18:51:43: 7000000 INFO @ Sun, 21 Jun 2020 18:51:51: 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 @ Sun, 21 Jun 2020 18:51:51: 8000000 INFO @ Sun, 21 Jun 2020 18:51:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2325652/SRX2325652.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2325652/SRX2325652.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2325652/SRX2325652.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2325652/SRX2325652.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 @ Sun, 21 Jun 2020 18:51:53: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:51:53: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:52:00: 9000000 INFO @ Sun, 21 Jun 2020 18:52:00: 4000000 INFO @ Sun, 21 Jun 2020 18:52:03: 1000000 INFO @ Sun, 21 Jun 2020 18:52:09: 10000000 INFO @ Sun, 21 Jun 2020 18:52:10: 5000000 INFO @ Sun, 21 Jun 2020 18:52:12: 2000000 INFO @ Sun, 21 Jun 2020 18:52:17: 11000000 INFO @ Sun, 21 Jun 2020 18:52:19: 6000000 INFO @ Sun, 21 Jun 2020 18:52:22: 3000000 INFO @ Sun, 21 Jun 2020 18:52:26: 12000000 INFO @ Sun, 21 Jun 2020 18:52:29: 7000000 INFO @ Sun, 21 Jun 2020 18:52:31: 4000000 INFO @ Sun, 21 Jun 2020 18:52:34: 13000000 INFO @ Sun, 21 Jun 2020 18:52:38: 8000000 INFO @ Sun, 21 Jun 2020 18:52:41: 5000000 INFO @ Sun, 21 Jun 2020 18:52:43: 14000000 INFO @ Sun, 21 Jun 2020 18:52:48: 9000000 INFO @ Sun, 21 Jun 2020 18:52:50: 6000000 INFO @ Sun, 21 Jun 2020 18:52:51: 15000000 INFO @ Sun, 21 Jun 2020 18:52:57: 10000000 INFO @ Sun, 21 Jun 2020 18:52:59: 7000000 INFO @ Sun, 21 Jun 2020 18:53:00: 16000000 INFO @ Sun, 21 Jun 2020 18:53:07: 11000000 INFO @ Sun, 21 Jun 2020 18:53:08: 17000000 INFO @ Sun, 21 Jun 2020 18:53:09: 8000000 INFO @ Sun, 21 Jun 2020 18:53:17: 18000000 INFO @ Sun, 21 Jun 2020 18:53:17: 12000000 INFO @ Sun, 21 Jun 2020 18:53:18: 9000000 INFO @ Sun, 21 Jun 2020 18:53:25: 19000000 INFO @ Sun, 21 Jun 2020 18:53:27: 13000000 INFO @ Sun, 21 Jun 2020 18:53:27: 10000000 INFO @ Sun, 21 Jun 2020 18:53:34: 20000000 INFO @ Sun, 21 Jun 2020 18:53:36: 14000000 INFO @ Sun, 21 Jun 2020 18:53:36: 11000000 INFO @ Sun, 21 Jun 2020 18:53:43: 21000000 INFO @ Sun, 21 Jun 2020 18:53:46: 12000000 INFO @ Sun, 21 Jun 2020 18:53:46: 15000000 INFO @ Sun, 21 Jun 2020 18:53:51: 22000000 INFO @ Sun, 21 Jun 2020 18:53:55: 13000000 INFO @ Sun, 21 Jun 2020 18:53:56: 16000000 INFO @ Sun, 21 Jun 2020 18:54:00: 23000000 INFO @ Sun, 21 Jun 2020 18:54:05: 14000000 INFO @ Sun, 21 Jun 2020 18:54:05: 17000000 INFO @ Sun, 21 Jun 2020 18:54:09: 24000000 INFO @ Sun, 21 Jun 2020 18:54:14: 15000000 INFO @ Sun, 21 Jun 2020 18:54:15: 18000000 INFO @ Sun, 21 Jun 2020 18:54:18: 25000000 INFO @ Sun, 21 Jun 2020 18:54:24: 16000000 INFO @ Sun, 21 Jun 2020 18:54:25: 19000000 INFO @ Sun, 21 Jun 2020 18:54:26: 26000000 INFO @ Sun, 21 Jun 2020 18:54:34: 17000000 INFO @ Sun, 21 Jun 2020 18:54:35: 27000000 INFO @ Sun, 21 Jun 2020 18:54:35: 20000000 INFO @ Sun, 21 Jun 2020 18:54:44: 18000000 INFO @ Sun, 21 Jun 2020 18:54:44: 28000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 18:54:45: 21000000 INFO @ Sun, 21 Jun 2020 18:54:53: 29000000 INFO @ Sun, 21 Jun 2020 18:54:54: 19000000 INFO @ Sun, 21 Jun 2020 18:54:55: 22000000 INFO @ Sun, 21 Jun 2020 18:55:02: 30000000 INFO @ Sun, 21 Jun 2020 18:55:03: 20000000 INFO @ Sun, 21 Jun 2020 18:55:05: 23000000 INFO @ Sun, 21 Jun 2020 18:55:11: 31000000 INFO @ Sun, 21 Jun 2020 18:55:13: 21000000 INFO @ Sun, 21 Jun 2020 18:55:15: 24000000 INFO @ Sun, 21 Jun 2020 18:55:20: 32000000 INFO @ Sun, 21 Jun 2020 18:55:23: 22000000 INFO @ Sun, 21 Jun 2020 18:55:25: 25000000 INFO @ Sun, 21 Jun 2020 18:55:29: 33000000 INFO @ Sun, 21 Jun 2020 18:55:33: 23000000 INFO @ Sun, 21 Jun 2020 18:55:35: 26000000 INFO @ Sun, 21 Jun 2020 18:55:38: 34000000 INFO @ Sun, 21 Jun 2020 18:55:41: #1 tag size is determined as 76 bps INFO @ Sun, 21 Jun 2020 18:55:41: #1 tag size = 76 INFO @ Sun, 21 Jun 2020 18:55:41: #1 total tags in treatment: 34235883 INFO @ Sun, 21 Jun 2020 18:55:41: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:55:41: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 18:55:41: #1 tags after filtering in treatment: 34235877 INFO @ Sun, 21 Jun 2020 18:55:41: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:55:41: #1 finished! INFO @ Sun, 21 Jun 2020 18:55:41: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:55:41: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:55:43: 24000000 INFO @ Sun, 21 Jun 2020 18:55:44: #2 number of paired peaks: 44 WARNING @ Sun, 21 Jun 2020 18:55:44: Too few paired peaks (44) 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 @ Sun, 21 Jun 2020 18:55:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX2325652/SRX2325652.05_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/dm6/SRX2325652/SRX2325652.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX2325652/SRX2325652.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX2325652/SRX2325652.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:55:45: 27000000 INFO @ Sun, 21 Jun 2020 18:55:53: 25000000 INFO @ Sun, 21 Jun 2020 18:55:55: 28000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 18:56:02: 26000000 INFO @ Sun, 21 Jun 2020 18:56:05: 29000000 INFO @ Sun, 21 Jun 2020 18:56:12: 27000000 INFO @ Sun, 21 Jun 2020 18:56:15: 30000000 INFO @ Sun, 21 Jun 2020 18:56:21: 28000000 INFO @ Sun, 21 Jun 2020 18:56:25: 31000000 INFO @ Sun, 21 Jun 2020 18:56:31: 29000000 INFO @ Sun, 21 Jun 2020 18:56:34: 32000000 INFO @ Sun, 21 Jun 2020 18:56:41: 30000000 INFO @ Sun, 21 Jun 2020 18:56:44: 33000000 INFO @ Sun, 21 Jun 2020 18:56:50: 31000000 INFO @ Sun, 21 Jun 2020 18:56:53: 34000000 INFO @ Sun, 21 Jun 2020 18:56:56: #1 tag size is determined as 76 bps INFO @ Sun, 21 Jun 2020 18:56:56: #1 tag size = 76 INFO @ Sun, 21 Jun 2020 18:56:56: #1 total tags in treatment: 34235883 INFO @ Sun, 21 Jun 2020 18:56:56: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:56:56: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 18:56:57: #1 tags after filtering in treatment: 34235877 INFO @ Sun, 21 Jun 2020 18:56:57: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:56:57: #1 finished! INFO @ Sun, 21 Jun 2020 18:56:57: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:56:57: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:56:59: #2 number of paired peaks: 44 WARNING @ Sun, 21 Jun 2020 18:56:59: Too few paired peaks (44) 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 @ Sun, 21 Jun 2020 18:56:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX2325652/SRX2325652.10_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/dm6/SRX2325652/SRX2325652.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX2325652/SRX2325652.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX2325652/SRX2325652.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:57:00: 32000000 INFO @ Sun, 21 Jun 2020 18:57:08: 33000000 INFO @ Sun, 21 Jun 2020 18:57:17: 34000000 INFO @ Sun, 21 Jun 2020 18:57:19: #1 tag size is determined as 76 bps INFO @ Sun, 21 Jun 2020 18:57:19: #1 tag size = 76 INFO @ Sun, 21 Jun 2020 18:57:19: #1 total tags in treatment: 34235883 INFO @ Sun, 21 Jun 2020 18:57:19: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:57:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 18:57:19: #1 tags after filtering in treatment: 34235877 INFO @ Sun, 21 Jun 2020 18:57:19: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:57:19: #1 finished! INFO @ Sun, 21 Jun 2020 18:57:19: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:57:19: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:57:22: #2 number of paired peaks: 44 WARNING @ Sun, 21 Jun 2020 18:57:22: Too few paired peaks (44) 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 @ Sun, 21 Jun 2020 18:57:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX2325652/SRX2325652.20_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/dm6/SRX2325652/SRX2325652.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX2325652/SRX2325652.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX2325652/SRX2325652.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling