Job ID = 6527700 SRX = SRX2325644 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:23:52 prefetch.2.10.7: 1) Downloading 'SRR4896332'... 2020-06-29T13:23:52 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:26:04 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:26:05 prefetch.2.10.7: 'SRR4896332' is valid 2020-06-29T13:26:05 prefetch.2.10.7: 1) 'SRR4896332' was downloaded successfully 2020-06-29T13:26:05 prefetch.2.10.7: 'SRR4896332' has 0 unresolved dependencies Read 17220406 spots for SRR4896332/SRR4896332.sra Written 17220406 spots for SRR4896332/SRR4896332.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: 00:07:57 17220406 reads; of these: 17220406 (100.00%) were unpaired; of these: 627288 (3.64%) aligned 0 times 13535188 (78.60%) aligned exactly 1 time 3057930 (17.76%) aligned >1 times 96.36% overall alignment rate Time searching: 00:07:57 Overall time: 00:07:57 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 8 files... [bam_rmdupse_core] 1754654 / 16593118 = 0.1057 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 22:47:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2325644/SRX2325644.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2325644/SRX2325644.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2325644/SRX2325644.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2325644/SRX2325644.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 22:47:45: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:47:45: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:47:51: 1000000 INFO @ Mon, 29 Jun 2020 22:47:57: 2000000 INFO @ Mon, 29 Jun 2020 22:48:04: 3000000 INFO @ Mon, 29 Jun 2020 22:48:10: 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 22:48:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2325644/SRX2325644.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2325644/SRX2325644.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2325644/SRX2325644.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2325644/SRX2325644.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 22:48:14: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:48:14: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:48:16: 5000000 INFO @ Mon, 29 Jun 2020 22:48:21: 1000000 INFO @ Mon, 29 Jun 2020 22:48:23: 6000000 INFO @ Mon, 29 Jun 2020 22:48:28: 2000000 INFO @ Mon, 29 Jun 2020 22:48:29: 7000000 INFO @ Mon, 29 Jun 2020 22:48:35: 3000000 INFO @ Mon, 29 Jun 2020 22:48:36: 8000000 INFO @ Mon, 29 Jun 2020 22:48:42: 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 22:48:43: 9000000 INFO @ Mon, 29 Jun 2020 22:48:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2325644/SRX2325644.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2325644/SRX2325644.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2325644/SRX2325644.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2325644/SRX2325644.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 22:48:44: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:48:44: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:48:48: 5000000 INFO @ Mon, 29 Jun 2020 22:48:49: 10000000 INFO @ Mon, 29 Jun 2020 22:48:51: 1000000 INFO @ Mon, 29 Jun 2020 22:48:55: 6000000 INFO @ Mon, 29 Jun 2020 22:48:57: 11000000 INFO @ Mon, 29 Jun 2020 22:48:57: 2000000 INFO @ Mon, 29 Jun 2020 22:49:02: 7000000 INFO @ Mon, 29 Jun 2020 22:49:03: 12000000 INFO @ Mon, 29 Jun 2020 22:49:04: 3000000 INFO @ Mon, 29 Jun 2020 22:49:09: 8000000 INFO @ Mon, 29 Jun 2020 22:49:10: 4000000 INFO @ Mon, 29 Jun 2020 22:49:10: 13000000 INFO @ Mon, 29 Jun 2020 22:49:15: 9000000 INFO @ Mon, 29 Jun 2020 22:49:16: 5000000 INFO @ Mon, 29 Jun 2020 22:49:17: 14000000 INFO @ Mon, 29 Jun 2020 22:49:22: 10000000 INFO @ Mon, 29 Jun 2020 22:49:22: 6000000 INFO @ Mon, 29 Jun 2020 22:49:23: #1 tag size is determined as 76 bps INFO @ Mon, 29 Jun 2020 22:49:23: #1 tag size = 76 INFO @ Mon, 29 Jun 2020 22:49:23: #1 total tags in treatment: 14838464 INFO @ Mon, 29 Jun 2020 22:49:23: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:49:23: #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 22:49:23: #1 tags after filtering in treatment: 14838464 INFO @ Mon, 29 Jun 2020 22:49:23: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:49:23: #1 finished! INFO @ Mon, 29 Jun 2020 22:49:23: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:49:23: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:49:24: #2 number of paired peaks: 18 WARNING @ Mon, 29 Jun 2020 22:49:24: Too few paired peaks (18) 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 22:49:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2325644/SRX2325644.05_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/SRX2325644/SRX2325644.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325644/SRX2325644.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325644/SRX2325644.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:49:28: 11000000 INFO @ Mon, 29 Jun 2020 22:49:28: 7000000 INFO @ Mon, 29 Jun 2020 22:49:34: 12000000 INFO @ Mon, 29 Jun 2020 22:49:35: 8000000 INFO @ Mon, 29 Jun 2020 22:49:41: 13000000 INFO @ Mon, 29 Jun 2020 22:49:41: 9000000 INFO @ Mon, 29 Jun 2020 22:49:47: 14000000 INFO @ Mon, 29 Jun 2020 22:49:47: 10000000 INFO @ Mon, 29 Jun 2020 22:49:52: #1 tag size is determined as 76 bps INFO @ Mon, 29 Jun 2020 22:49:52: #1 tag size = 76 INFO @ Mon, 29 Jun 2020 22:49:52: #1 total tags in treatment: 14838464 INFO @ Mon, 29 Jun 2020 22:49:52: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:49:52: #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 22:49:53: #1 tags after filtering in treatment: 14838464 INFO @ Mon, 29 Jun 2020 22:49:53: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:49:53: #1 finished! INFO @ Mon, 29 Jun 2020 22:49:53: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:49:53: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:49:53: 11000000 INFO @ Mon, 29 Jun 2020 22:49:54: #2 number of paired peaks: 18 WARNING @ Mon, 29 Jun 2020 22:49:54: Too few paired peaks (18) 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 22:49:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2325644/SRX2325644.10_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/SRX2325644/SRX2325644.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325644/SRX2325644.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325644/SRX2325644.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:49:59: 12000000 INFO @ Mon, 29 Jun 2020 22:50:05: 13000000 INFO @ Mon, 29 Jun 2020 22:50:11: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:50:17: #1 tag size is determined as 76 bps INFO @ Mon, 29 Jun 2020 22:50:17: #1 tag size = 76 INFO @ Mon, 29 Jun 2020 22:50:17: #1 total tags in treatment: 14838464 INFO @ Mon, 29 Jun 2020 22:50:17: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:50:17: #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 22:50:17: #1 tags after filtering in treatment: 14838464 INFO @ Mon, 29 Jun 2020 22:50:17: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:50:17: #1 finished! INFO @ Mon, 29 Jun 2020 22:50:17: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:50:17: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:50:18: #2 number of paired peaks: 18 WARNING @ Mon, 29 Jun 2020 22:50:18: Too few paired peaks (18) 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 22:50:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2325644/SRX2325644.20_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/SRX2325644/SRX2325644.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325644/SRX2325644.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2325644/SRX2325644.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。