Job ID = 6454206 SRX = SRX1872293 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T08:52:04 prefetch.2.10.7: 1) Downloading 'SRR3712754'... 2020-06-21T08:52:04 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T09:01:46 prefetch.2.10.7: HTTPS download succeed 2020-06-21T09:01:46 prefetch.2.10.7: 1) 'SRR3712754' was downloaded successfully Read 33449159 spots for SRR3712754/SRR3712754.sra Written 33449159 spots for SRR3712754/SRR3712754.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: 00:08:01 33449159 reads; of these: 33449159 (100.00%) were unpaired; of these: 2245361 (6.71%) aligned 0 times 27345308 (81.75%) aligned exactly 1 time 3858490 (11.54%) aligned >1 times 93.29% overall alignment rate Time searching: 00:08:01 Overall time: 00:08:01 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 16 files... [bam_rmdupse_core] 5456390 / 31203798 = 0.1749 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 18:19:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1872293/SRX1872293.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1872293/SRX1872293.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1872293/SRX1872293.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1872293/SRX1872293.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 18:19:17: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:19:17: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:19:24: 1000000 INFO @ Sun, 21 Jun 2020 18:19:30: 2000000 INFO @ Sun, 21 Jun 2020 18:19:36: 3000000 INFO @ Sun, 21 Jun 2020 18:19:42: 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 18:19:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1872293/SRX1872293.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1872293/SRX1872293.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1872293/SRX1872293.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1872293/SRX1872293.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 18:19:48: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:19:48: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:19:49: 5000000 INFO @ Sun, 21 Jun 2020 18:19:55: 1000000 INFO @ Sun, 21 Jun 2020 18:19:56: 6000000 INFO @ Sun, 21 Jun 2020 18:20:02: 2000000 INFO @ Sun, 21 Jun 2020 18:20:03: 7000000 INFO @ Sun, 21 Jun 2020 18:20:10: 3000000 INFO @ Sun, 21 Jun 2020 18:20:11: 8000000 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 18:20:17: 4000000 INFO @ Sun, 21 Jun 2020 18:20:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1872293/SRX1872293.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1872293/SRX1872293.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1872293/SRX1872293.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1872293/SRX1872293.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 18:20:18: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:20:18: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:20:18: 9000000 INFO @ Sun, 21 Jun 2020 18:20:25: 5000000 INFO @ Sun, 21 Jun 2020 18:20:25: 1000000 INFO @ Sun, 21 Jun 2020 18:20:26: 10000000 INFO @ Sun, 21 Jun 2020 18:20:33: 6000000 INFO @ Sun, 21 Jun 2020 18:20:33: 2000000 INFO @ Sun, 21 Jun 2020 18:20:33: 11000000 INFO @ Sun, 21 Jun 2020 18:20:40: 7000000 INFO @ Sun, 21 Jun 2020 18:20:40: 3000000 INFO @ Sun, 21 Jun 2020 18:20:41: 12000000 INFO @ Sun, 21 Jun 2020 18:20:47: 8000000 INFO @ Sun, 21 Jun 2020 18:20:48: 4000000 INFO @ Sun, 21 Jun 2020 18:20:49: 13000000 INFO @ Sun, 21 Jun 2020 18:20:55: 9000000 INFO @ Sun, 21 Jun 2020 18:20:55: 5000000 INFO @ Sun, 21 Jun 2020 18:20:56: 14000000 INFO @ Sun, 21 Jun 2020 18:21:02: 10000000 INFO @ Sun, 21 Jun 2020 18:21:03: 6000000 INFO @ Sun, 21 Jun 2020 18:21:04: 15000000 INFO @ Sun, 21 Jun 2020 18:21:09: 11000000 INFO @ Sun, 21 Jun 2020 18:21:10: 7000000 INFO @ Sun, 21 Jun 2020 18:21:11: 16000000 INFO @ Sun, 21 Jun 2020 18:21:16: 12000000 INFO @ Sun, 21 Jun 2020 18:21:17: 8000000 INFO @ Sun, 21 Jun 2020 18:21:18: 17000000 INFO @ Sun, 21 Jun 2020 18:21:23: 13000000 INFO @ Sun, 21 Jun 2020 18:21:24: 9000000 INFO @ Sun, 21 Jun 2020 18:21:25: 18000000 INFO @ Sun, 21 Jun 2020 18:21:30: 14000000 INFO @ Sun, 21 Jun 2020 18:21:31: 10000000 INFO @ Sun, 21 Jun 2020 18:21:32: 19000000 INFO @ Sun, 21 Jun 2020 18:21:37: 15000000 INFO @ Sun, 21 Jun 2020 18:21:38: 11000000 INFO @ Sun, 21 Jun 2020 18:21:39: 20000000 INFO @ Sun, 21 Jun 2020 18:21:44: 16000000 INFO @ Sun, 21 Jun 2020 18:21:45: 12000000 INFO @ Sun, 21 Jun 2020 18:21:46: 21000000 INFO @ Sun, 21 Jun 2020 18:21:51: 17000000 INFO @ Sun, 21 Jun 2020 18:21:51: 13000000 INFO @ Sun, 21 Jun 2020 18:21:53: 22000000 INFO @ Sun, 21 Jun 2020 18:21:58: 18000000 INFO @ Sun, 21 Jun 2020 18:21:58: 14000000 INFO @ Sun, 21 Jun 2020 18:22:00: 23000000 INFO @ Sun, 21 Jun 2020 18:22:05: 15000000 INFO @ Sun, 21 Jun 2020 18:22:05: 19000000 INFO @ Sun, 21 Jun 2020 18:22:07: 24000000 INFO @ Sun, 21 Jun 2020 18:22:11: 16000000 INFO @ Sun, 21 Jun 2020 18:22:11: 20000000 INFO @ Sun, 21 Jun 2020 18:22:13: 25000000 INFO @ Sun, 21 Jun 2020 18:22:18: 17000000 INFO @ Sun, 21 Jun 2020 18:22:18: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 18:22:19: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:22:19: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:22:19: #1 total tags in treatment: 25747408 INFO @ Sun, 21 Jun 2020 18:22:19: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:22:19: #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 18:22:20: #1 tags after filtering in treatment: 25747405 INFO @ Sun, 21 Jun 2020 18:22:20: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:22:20: #1 finished! INFO @ Sun, 21 Jun 2020 18:22:20: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:22:20: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:22:21: #2 number of paired peaks: 48 WARNING @ Sun, 21 Jun 2020 18:22:21: Too few paired peaks (48) 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 18:22:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX1872293/SRX1872293.05_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/SRX1872293/SRX1872293.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX1872293/SRX1872293.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX1872293/SRX1872293.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:22:24: 18000000 INFO @ Sun, 21 Jun 2020 18:22:25: 22000000 INFO @ Sun, 21 Jun 2020 18:22:31: 19000000 INFO @ Sun, 21 Jun 2020 18:22:32: 23000000 INFO @ Sun, 21 Jun 2020 18:22:37: 20000000 INFO @ Sun, 21 Jun 2020 18:22:38: 24000000 INFO @ Sun, 21 Jun 2020 18:22:44: 21000000 INFO @ Sun, 21 Jun 2020 18:22:45: 25000000 INFO @ Sun, 21 Jun 2020 18:22:50: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:22:50: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:22:50: #1 total tags in treatment: 25747408 INFO @ Sun, 21 Jun 2020 18:22:50: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:22:50: #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 18:22:50: 22000000 INFO @ Sun, 21 Jun 2020 18:22:51: #1 tags after filtering in treatment: 25747405 INFO @ Sun, 21 Jun 2020 18:22:51: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:22:51: #1 finished! INFO @ Sun, 21 Jun 2020 18:22:51: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:22:51: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:22:52: #2 number of paired peaks: 48 WARNING @ Sun, 21 Jun 2020 18:22:52: Too few paired peaks (48) 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 18:22:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX1872293/SRX1872293.10_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/SRX1872293/SRX1872293.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX1872293/SRX1872293.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX1872293/SRX1872293.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:22:56: 23000000 INFO @ Sun, 21 Jun 2020 18:23:02: 24000000 INFO @ Sun, 21 Jun 2020 18:23:08: 25000000 INFO @ Sun, 21 Jun 2020 18:23:13: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:23:13: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:23:13: #1 total tags in treatment: 25747408 INFO @ Sun, 21 Jun 2020 18:23:13: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:23:13: #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 18:23:13: #1 tags after filtering in treatment: 25747405 INFO @ Sun, 21 Jun 2020 18:23:13: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:23:13: #1 finished! INFO @ Sun, 21 Jun 2020 18:23:13: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:23:13: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:23:15: #2 number of paired peaks: 48 WARNING @ Sun, 21 Jun 2020 18:23:15: Too few paired peaks (48) 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 18:23:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm6/SRX1872293/SRX1872293.20_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/SRX1872293/SRX1872293.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX1872293/SRX1872293.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm6/SRX1872293/SRX1872293.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。