Job ID = 6527903 SRX = SRX3159485 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:01:06 prefetch.2.10.7: 1) Downloading 'SRR6004215'... 2020-06-29T14:01:06 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:06:50 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:06:50 prefetch.2.10.7: 1) 'SRR6004215' was downloaded successfully 2020-06-29T14:06:50 prefetch.2.10.7: 'SRR6004215' has 0 unresolved dependencies Read 42489458 spots for SRR6004215/SRR6004215.sra Written 42489458 spots for SRR6004215/SRR6004215.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: 00:18:27 42489458 reads; of these: 42489458 (100.00%) were unpaired; of these: 903426 (2.13%) aligned 0 times 28608737 (67.33%) aligned exactly 1 time 12977295 (30.54%) aligned >1 times 97.87% overall alignment rate Time searching: 00:18:27 Overall time: 00:18:27 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 20 files... [bam_rmdupse_core] 6582789 / 41586032 = 0.1583 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 @ Mon, 29 Jun 2020 23:49:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3159485/SRX3159485.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3159485/SRX3159485.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3159485/SRX3159485.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3159485/SRX3159485.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 @ Mon, 29 Jun 2020 23:49:49: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:49:49: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:49:55: 1000000 INFO @ Mon, 29 Jun 2020 23:50:01: 2000000 INFO @ Mon, 29 Jun 2020 23:50:08: 3000000 INFO @ Mon, 29 Jun 2020 23:50:14: 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 @ Mon, 29 Jun 2020 23:50:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3159485/SRX3159485.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3159485/SRX3159485.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3159485/SRX3159485.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3159485/SRX3159485.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 @ Mon, 29 Jun 2020 23:50:19: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:50:19: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:50:21: 5000000 INFO @ Mon, 29 Jun 2020 23:50:25: 1000000 INFO @ Mon, 29 Jun 2020 23:50:27: 6000000 INFO @ Mon, 29 Jun 2020 23:50:32: 2000000 INFO @ Mon, 29 Jun 2020 23:50:34: 7000000 INFO @ Mon, 29 Jun 2020 23:50:39: 3000000 INFO @ Mon, 29 Jun 2020 23:50:40: 8000000 INFO @ Mon, 29 Jun 2020 23:50:45: 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 @ Mon, 29 Jun 2020 23:50:47: 9000000 INFO @ Mon, 29 Jun 2020 23:50:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3159485/SRX3159485.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3159485/SRX3159485.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3159485/SRX3159485.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3159485/SRX3159485.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 @ Mon, 29 Jun 2020 23:50:49: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:50:49: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:50:51: 5000000 INFO @ Mon, 29 Jun 2020 23:50:53: 10000000 INFO @ Mon, 29 Jun 2020 23:50:55: 1000000 INFO @ Mon, 29 Jun 2020 23:50:57: 6000000 INFO @ Mon, 29 Jun 2020 23:51:00: 11000000 INFO @ Mon, 29 Jun 2020 23:51:02: 2000000 INFO @ Mon, 29 Jun 2020 23:51:04: 7000000 INFO @ Mon, 29 Jun 2020 23:51:06: 12000000 INFO @ Mon, 29 Jun 2020 23:51:09: 3000000 INFO @ Mon, 29 Jun 2020 23:51:10: 8000000 INFO @ Mon, 29 Jun 2020 23:51:13: 13000000 INFO @ Mon, 29 Jun 2020 23:51:15: 4000000 INFO @ Mon, 29 Jun 2020 23:51:17: 9000000 INFO @ Mon, 29 Jun 2020 23:51:19: 14000000 INFO @ Mon, 29 Jun 2020 23:51:22: 5000000 INFO @ Mon, 29 Jun 2020 23:51:23: 10000000 INFO @ Mon, 29 Jun 2020 23:51:26: 15000000 INFO @ Mon, 29 Jun 2020 23:51:30: 6000000 INFO @ Mon, 29 Jun 2020 23:51:30: 11000000 INFO @ Mon, 29 Jun 2020 23:51:32: 16000000 INFO @ Mon, 29 Jun 2020 23:51:36: 12000000 INFO @ Mon, 29 Jun 2020 23:51:37: 7000000 INFO @ Mon, 29 Jun 2020 23:51:39: 17000000 INFO @ Mon, 29 Jun 2020 23:51:43: 13000000 INFO @ Mon, 29 Jun 2020 23:51:43: 8000000 INFO @ Mon, 29 Jun 2020 23:51:45: 18000000 INFO @ Mon, 29 Jun 2020 23:51:49: 14000000 INFO @ Mon, 29 Jun 2020 23:51:49: 9000000 INFO @ Mon, 29 Jun 2020 23:51:52: 19000000 INFO @ Mon, 29 Jun 2020 23:51:56: 15000000 INFO @ Mon, 29 Jun 2020 23:51:56: 10000000 INFO @ Mon, 29 Jun 2020 23:51:58: 20000000 INFO @ Mon, 29 Jun 2020 23:52:02: 16000000 INFO @ Mon, 29 Jun 2020 23:52:02: 11000000 INFO @ Mon, 29 Jun 2020 23:52:04: 21000000 INFO @ Mon, 29 Jun 2020 23:52:08: 12000000 INFO @ Mon, 29 Jun 2020 23:52:08: 17000000 INFO @ Mon, 29 Jun 2020 23:52:10: 22000000 INFO @ Mon, 29 Jun 2020 23:52:15: 13000000 INFO @ Mon, 29 Jun 2020 23:52:15: 18000000 INFO @ Mon, 29 Jun 2020 23:52:17: 23000000 INFO @ Mon, 29 Jun 2020 23:52:21: 19000000 INFO @ Mon, 29 Jun 2020 23:52:22: 14000000 INFO @ Mon, 29 Jun 2020 23:52:23: 24000000 INFO @ Mon, 29 Jun 2020 23:52:28: 20000000 INFO @ Mon, 29 Jun 2020 23:52:29: 15000000 INFO @ Mon, 29 Jun 2020 23:52:30: 25000000 INFO @ Mon, 29 Jun 2020 23:52:34: 21000000 INFO @ Mon, 29 Jun 2020 23:52:35: 16000000 INFO @ Mon, 29 Jun 2020 23:52:36: 26000000 INFO @ Mon, 29 Jun 2020 23:52:40: 22000000 INFO @ Mon, 29 Jun 2020 23:52:42: 17000000 INFO @ Mon, 29 Jun 2020 23:52:43: 27000000 INFO @ Mon, 29 Jun 2020 23:52:47: 23000000 INFO @ Mon, 29 Jun 2020 23:52:48: 18000000 INFO @ Mon, 29 Jun 2020 23:52:49: 28000000 INFO @ Mon, 29 Jun 2020 23:52:53: 24000000 INFO @ Mon, 29 Jun 2020 23:52:55: 19000000 INFO @ Mon, 29 Jun 2020 23:52:56: 29000000 INFO @ Mon, 29 Jun 2020 23:52:59: 25000000 INFO @ Mon, 29 Jun 2020 23:53:01: 20000000 INFO @ Mon, 29 Jun 2020 23:53:02: 30000000 INFO @ Mon, 29 Jun 2020 23:53:06: 26000000 INFO @ Mon, 29 Jun 2020 23:53:07: 21000000 INFO @ Mon, 29 Jun 2020 23:53:08: 31000000 INFO @ Mon, 29 Jun 2020 23:53:12: 27000000 INFO @ Mon, 29 Jun 2020 23:53:14: 22000000 INFO @ Mon, 29 Jun 2020 23:53:15: 32000000 INFO @ Mon, 29 Jun 2020 23:53:19: 28000000 INFO @ Mon, 29 Jun 2020 23:53:20: 23000000 INFO @ Mon, 29 Jun 2020 23:53:21: 33000000 INFO @ Mon, 29 Jun 2020 23:53:25: 29000000 INFO @ Mon, 29 Jun 2020 23:53:27: 24000000 INFO @ Mon, 29 Jun 2020 23:53:27: 34000000 INFO @ Mon, 29 Jun 2020 23:53:32: 30000000 INFO @ Mon, 29 Jun 2020 23:53:33: 25000000 INFO @ Mon, 29 Jun 2020 23:53:33: 35000000 INFO @ Mon, 29 Jun 2020 23:53:34: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:53:34: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:53:34: #1 total tags in treatment: 35003243 INFO @ Mon, 29 Jun 2020 23:53:34: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:53:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:53:34: #1 tags after filtering in treatment: 35003243 INFO @ Mon, 29 Jun 2020 23:53:34: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:53:34: #1 finished! INFO @ Mon, 29 Jun 2020 23:53:34: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:53:34: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:53:37: #2 number of paired peaks: 5 WARNING @ Mon, 29 Jun 2020 23:53:37: Too few paired peaks (5) 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 @ Mon, 29 Jun 2020 23:53:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3159485/SRX3159485.05_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/SRX3159485/SRX3159485.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159485/SRX3159485.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159485/SRX3159485.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:53:38: 31000000 INFO @ Mon, 29 Jun 2020 23:53:40: 26000000 INFO @ Mon, 29 Jun 2020 23:53:44: 32000000 INFO @ Mon, 29 Jun 2020 23:53:46: 27000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:53:50: 33000000 INFO @ Mon, 29 Jun 2020 23:53:53: 28000000 INFO @ Mon, 29 Jun 2020 23:53:56: 34000000 INFO @ Mon, 29 Jun 2020 23:53:59: 29000000 INFO @ Mon, 29 Jun 2020 23:54:02: 35000000 INFO @ Mon, 29 Jun 2020 23:54:02: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:54:02: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:54:02: #1 total tags in treatment: 35003243 INFO @ Mon, 29 Jun 2020 23:54:02: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:54:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:54:03: #1 tags after filtering in treatment: 35003243 INFO @ Mon, 29 Jun 2020 23:54:03: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:54:03: #1 finished! INFO @ Mon, 29 Jun 2020 23:54:03: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:54:03: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:54:05: #2 number of paired peaks: 5 WARNING @ Mon, 29 Jun 2020 23:54:05: Too few paired peaks (5) 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 @ Mon, 29 Jun 2020 23:54:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3159485/SRX3159485.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 6 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159485/SRX3159485.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159485/SRX3159485.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159485/SRX3159485.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:54:06: 30000000 INFO @ Mon, 29 Jun 2020 23:54:12: 31000000 INFO @ Mon, 29 Jun 2020 23:54:18: 32000000 INFO @ Mon, 29 Jun 2020 23:54:24: 33000000 INFO @ Mon, 29 Jun 2020 23:54:30: 34000000 INFO @ Mon, 29 Jun 2020 23:54:36: 35000000 INFO @ Mon, 29 Jun 2020 23:54:37: #1 tag size is determined as 51 bps INFO @ Mon, 29 Jun 2020 23:54:37: #1 tag size = 51 INFO @ Mon, 29 Jun 2020 23:54:37: #1 total tags in treatment: 35003243 INFO @ Mon, 29 Jun 2020 23:54:37: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:54:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 29 Jun 2020 23:54:37: #1 tags after filtering in treatment: 35003243 INFO @ Mon, 29 Jun 2020 23:54:37: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:54:37: #1 finished! INFO @ Mon, 29 Jun 2020 23:54:37: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:54:37: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:54:40: #2 number of paired peaks: 5 WARNING @ Mon, 29 Jun 2020 23:54:40: Too few paired peaks (5) 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 @ Mon, 29 Jun 2020 23:54:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3159485/SRX3159485.20_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/SRX3159485/SRX3159485.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159485/SRX3159485.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3159485/SRX3159485.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。