Job ID = 6527665 SRX = SRX2011087 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T13:16:53 prefetch.2.10.7: 1) Downloading 'SRR4017240'... 2020-06-29T13:16:53 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T13:21:39 prefetch.2.10.7: HTTPS download succeed 2020-06-29T13:21:39 prefetch.2.10.7: 1) 'SRR4017240' was downloaded successfully Read 15911453 spots for SRR4017240/SRR4017240.sra Written 15911453 spots for SRR4017240/SRR4017240.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: 00:07:53 15911453 reads; of these: 15911453 (100.00%) were unpaired; of these: 973520 (6.12%) aligned 0 times 12292832 (77.26%) aligned exactly 1 time 2645101 (16.62%) aligned >1 times 93.88% overall alignment rate Time searching: 00:07:53 Overall time: 00:07:53 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] 722445 / 14937933 = 0.0484 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 22:43:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2011087/SRX2011087.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2011087/SRX2011087.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2011087/SRX2011087.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2011087/SRX2011087.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 22:43:34: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:43:34: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:43:42: 1000000 INFO @ Mon, 29 Jun 2020 22:43:51: 2000000 INFO @ Mon, 29 Jun 2020 22:44:00: 3000000 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 22:44:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2011087/SRX2011087.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2011087/SRX2011087.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2011087/SRX2011087.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2011087/SRX2011087.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 22:44:04: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:44:04: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:44:09: 4000000 INFO @ Mon, 29 Jun 2020 22:44:13: 1000000 INFO @ Mon, 29 Jun 2020 22:44:18: 5000000 INFO @ Mon, 29 Jun 2020 22:44:23: 2000000 INFO @ Mon, 29 Jun 2020 22:44:28: 6000000 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 22:44:32: 3000000 INFO @ Mon, 29 Jun 2020 22:44:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX2011087/SRX2011087.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX2011087/SRX2011087.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX2011087/SRX2011087.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX2011087/SRX2011087.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 22:44:34: #1 read tag files... INFO @ Mon, 29 Jun 2020 22:44:34: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 22:44:37: 7000000 INFO @ Mon, 29 Jun 2020 22:44:42: 4000000 INFO @ Mon, 29 Jun 2020 22:44:44: 1000000 INFO @ Mon, 29 Jun 2020 22:44:47: 8000000 INFO @ Mon, 29 Jun 2020 22:44:52: 5000000 INFO @ Mon, 29 Jun 2020 22:44:53: 2000000 INFO @ Mon, 29 Jun 2020 22:44:57: 9000000 INFO @ Mon, 29 Jun 2020 22:45:02: 6000000 INFO @ Mon, 29 Jun 2020 22:45:03: 3000000 INFO @ Mon, 29 Jun 2020 22:45:07: 10000000 INFO @ Mon, 29 Jun 2020 22:45:11: 7000000 INFO @ Mon, 29 Jun 2020 22:45:13: 4000000 INFO @ Mon, 29 Jun 2020 22:45:16: 11000000 INFO @ Mon, 29 Jun 2020 22:45:21: 8000000 INFO @ Mon, 29 Jun 2020 22:45:23: 5000000 INFO @ Mon, 29 Jun 2020 22:45:26: 12000000 INFO @ Mon, 29 Jun 2020 22:45:31: 9000000 INFO @ Mon, 29 Jun 2020 22:45:33: 6000000 INFO @ Mon, 29 Jun 2020 22:45:36: 13000000 INFO @ Mon, 29 Jun 2020 22:45:40: 10000000 INFO @ Mon, 29 Jun 2020 22:45:43: 7000000 INFO @ Mon, 29 Jun 2020 22:45:45: 14000000 INFO @ Mon, 29 Jun 2020 22:45:47: #1 tag size is determined as 100 bps INFO @ Mon, 29 Jun 2020 22:45:47: #1 tag size = 100 INFO @ Mon, 29 Jun 2020 22:45:47: #1 total tags in treatment: 14215488 INFO @ Mon, 29 Jun 2020 22:45:47: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:45:47: #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 22:45:48: #1 tags after filtering in treatment: 14215488 INFO @ Mon, 29 Jun 2020 22:45:48: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:45:48: #1 finished! INFO @ Mon, 29 Jun 2020 22:45:48: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:45:48: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:45:49: #2 number of paired peaks: 38 WARNING @ Mon, 29 Jun 2020 22:45:49: Too few paired peaks (38) 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 22:45:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2011087/SRX2011087.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2011087/SRX2011087.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2011087/SRX2011087.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2011087/SRX2011087.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 22:45:50: 11000000 INFO @ Mon, 29 Jun 2020 22:45:52: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 22:46:00: 12000000 INFO @ Mon, 29 Jun 2020 22:46:02: 9000000 INFO @ Mon, 29 Jun 2020 22:46:09: 13000000 INFO @ Mon, 29 Jun 2020 22:46:12: 10000000 INFO @ Mon, 29 Jun 2020 22:46:19: 14000000 INFO @ Mon, 29 Jun 2020 22:46:21: #1 tag size is determined as 100 bps INFO @ Mon, 29 Jun 2020 22:46:21: #1 tag size = 100 INFO @ Mon, 29 Jun 2020 22:46:21: #1 total tags in treatment: 14215488 INFO @ Mon, 29 Jun 2020 22:46:21: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:46:21: #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 22:46:21: #1 tags after filtering in treatment: 14215488 INFO @ Mon, 29 Jun 2020 22:46:21: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:46:21: #1 finished! INFO @ Mon, 29 Jun 2020 22:46:21: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:46:21: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:46:22: 11000000 INFO @ Mon, 29 Jun 2020 22:46:22: #2 number of paired peaks: 38 WARNING @ Mon, 29 Jun 2020 22:46:22: Too few paired peaks (38) 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 22:46:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2011087/SRX2011087.10_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/SRX2011087/SRX2011087.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2011087/SRX2011087.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2011087/SRX2011087.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Mon, 29 Jun 2020 22:46:31: 12000000 INFO @ Mon, 29 Jun 2020 22:46:40: 13000000 INFO @ Mon, 29 Jun 2020 22:46:48: 14000000 INFO @ Mon, 29 Jun 2020 22:46:50: #1 tag size is determined as 100 bps INFO @ Mon, 29 Jun 2020 22:46:50: #1 tag size = 100 INFO @ Mon, 29 Jun 2020 22:46:50: #1 total tags in treatment: 14215488 INFO @ Mon, 29 Jun 2020 22:46:50: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 22:46:50: #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 22:46:50: #1 tags after filtering in treatment: 14215488 INFO @ Mon, 29 Jun 2020 22:46:50: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 22:46:50: #1 finished! INFO @ Mon, 29 Jun 2020 22:46:50: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 22:46:50: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 22:46:51: #2 number of paired peaks: 38 WARNING @ Mon, 29 Jun 2020 22:46:51: Too few paired peaks (38) 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 22:46:51: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX2011087/SRX2011087.20_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/SRX2011087/SRX2011087.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2011087/SRX2011087.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX2011087/SRX2011087.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling