Job ID = 6527968 SRX = SRX3511951 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:01:51 prefetch.2.10.7: 1) Downloading 'SRR6418936'... 2020-06-29T14:01:51 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:04:02 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:04:03 prefetch.2.10.7: 'SRR6418936' is valid 2020-06-29T14:04:03 prefetch.2.10.7: 1) 'SRR6418936' was downloaded successfully 2020-06-29T14:04:03 prefetch.2.10.7: 'SRR6418936' has 0 unresolved dependencies Read 9924189 spots for SRR6418936/SRR6418936.sra Written 9924189 spots for SRR6418936/SRR6418936.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: 00:04:42 9924189 reads; of these: 9924189 (100.00%) were unpaired; of these: 1609576 (16.22%) aligned 0 times 6531681 (65.82%) aligned exactly 1 time 1782932 (17.97%) aligned >1 times 83.78% overall alignment rate Time searching: 00:04:42 Overall time: 00:04:42 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_rmdupse_core] 336286 / 8314613 = 0.0404 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 23:20:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3511951/SRX3511951.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3511951/SRX3511951.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3511951/SRX3511951.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3511951/SRX3511951.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 23:20:06: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:20:06: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:20:13: 1000000 INFO @ Mon, 29 Jun 2020 23:20:19: 2000000 INFO @ Mon, 29 Jun 2020 23:20:26: 3000000 INFO @ Mon, 29 Jun 2020 23:20:32: 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 23:20:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3511951/SRX3511951.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3511951/SRX3511951.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3511951/SRX3511951.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3511951/SRX3511951.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 23:20:36: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:20:36: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:20:39: 5000000 INFO @ Mon, 29 Jun 2020 23:20:43: 1000000 INFO @ Mon, 29 Jun 2020 23:20:46: 6000000 INFO @ Mon, 29 Jun 2020 23:20:50: 2000000 INFO @ Mon, 29 Jun 2020 23:20:53: 7000000 INFO @ Mon, 29 Jun 2020 23:20:57: 3000000 INFO @ Mon, 29 Jun 2020 23:21:00: #1 tag size is determined as 100 bps INFO @ Mon, 29 Jun 2020 23:21:00: #1 tag size = 100 INFO @ Mon, 29 Jun 2020 23:21:00: #1 total tags in treatment: 7978327 INFO @ Mon, 29 Jun 2020 23:21:00: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:21:00: #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 23:21:00: #1 tags after filtering in treatment: 7978327 INFO @ Mon, 29 Jun 2020 23:21:00: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:21:00: #1 finished! INFO @ Mon, 29 Jun 2020 23:21:00: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:21:00: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:21:00: #2 number of paired peaks: 57 WARNING @ Mon, 29 Jun 2020 23:21:00: Too few paired peaks (57) 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 23:21:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3511951/SRX3511951.05_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/SRX3511951/SRX3511951.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511951/SRX3511951.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511951/SRX3511951.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:21:04: 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 23:21:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3511951/SRX3511951.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3511951/SRX3511951.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3511951/SRX3511951.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3511951/SRX3511951.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 23:21:06: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:21:06: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:21:10: 5000000 INFO @ Mon, 29 Jun 2020 23:21:13: 1000000 INFO @ Mon, 29 Jun 2020 23:21:18: 6000000 INFO @ Mon, 29 Jun 2020 23:21:20: 2000000 INFO @ Mon, 29 Jun 2020 23:21:25: 7000000 INFO @ Mon, 29 Jun 2020 23:21:27: 3000000 INFO @ Mon, 29 Jun 2020 23:21:32: #1 tag size is determined as 100 bps INFO @ Mon, 29 Jun 2020 23:21:32: #1 tag size = 100 INFO @ Mon, 29 Jun 2020 23:21:32: #1 total tags in treatment: 7978327 INFO @ Mon, 29 Jun 2020 23:21:32: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:21:32: #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 23:21:32: #1 tags after filtering in treatment: 7978327 INFO @ Mon, 29 Jun 2020 23:21:32: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:21:32: #1 finished! INFO @ Mon, 29 Jun 2020 23:21:32: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:21:32: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:21:33: #2 number of paired peaks: 57 WARNING @ Mon, 29 Jun 2020 23:21:33: Too few paired peaks (57) 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 23:21:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3511951/SRX3511951.10_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/SRX3511951/SRX3511951.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511951/SRX3511951.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511951/SRX3511951.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:21:34: 4000000 INFO @ Mon, 29 Jun 2020 23:21:40: 5000000 INFO @ Mon, 29 Jun 2020 23:21:47: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:21:54: 7000000 INFO @ Mon, 29 Jun 2020 23:22:00: #1 tag size is determined as 100 bps INFO @ Mon, 29 Jun 2020 23:22:00: #1 tag size = 100 INFO @ Mon, 29 Jun 2020 23:22:00: #1 total tags in treatment: 7978327 INFO @ Mon, 29 Jun 2020 23:22:00: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:22:00: #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 23:22:00: #1 tags after filtering in treatment: 7978327 INFO @ Mon, 29 Jun 2020 23:22:00: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:22:00: #1 finished! INFO @ Mon, 29 Jun 2020 23:22:00: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:22:00: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:22:01: #2 number of paired peaks: 57 WARNING @ Mon, 29 Jun 2020 23:22:01: Too few paired peaks (57) 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 23:22:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3511951/SRX3511951.20_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/SRX3511951/SRX3511951.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511951/SRX3511951.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511951/SRX3511951.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。