Job ID = 6527972 SRX = SRX3511961 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T14:20:05 prefetch.2.10.7: 1) Downloading 'SRR6418946'... 2020-06-29T14:20:05 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T14:20:55 prefetch.2.10.7: HTTPS download succeed 2020-06-29T14:20:55 prefetch.2.10.7: 'SRR6418946' is valid 2020-06-29T14:20:55 prefetch.2.10.7: 1) 'SRR6418946' was downloaded successfully 2020-06-29T14:20:55 prefetch.2.10.7: 'SRR6418946' has 0 unresolved dependencies Read 6179271 spots for SRR6418946/SRR6418946.sra Written 6179271 spots for SRR6418946/SRR6418946.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:03:50 6179271 reads; of these: 6179271 (100.00%) were unpaired; of these: 568875 (9.21%) aligned 0 times 3945208 (63.85%) aligned exactly 1 time 1665188 (26.95%) aligned >1 times 90.79% overall alignment rate Time searching: 00:03:51 Overall time: 00:03:51 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] 554867 / 5610396 = 0.0989 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 23:30:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3511961/SRX3511961.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3511961/SRX3511961.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3511961/SRX3511961.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3511961/SRX3511961.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 23:30:05: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:30:05: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:30:14: 1000000 INFO @ Mon, 29 Jun 2020 23:30:23: 2000000 INFO @ Mon, 29 Jun 2020 23:30:32: 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 23:30:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3511961/SRX3511961.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3511961/SRX3511961.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3511961/SRX3511961.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3511961/SRX3511961.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 23:30:35: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:30:35: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:30:41: 4000000 INFO @ Mon, 29 Jun 2020 23:30:44: 1000000 INFO @ Mon, 29 Jun 2020 23:30:51: 5000000 INFO @ Mon, 29 Jun 2020 23:30:51: #1 tag size is determined as 96 bps INFO @ Mon, 29 Jun 2020 23:30:51: #1 tag size = 96 INFO @ Mon, 29 Jun 2020 23:30:51: #1 total tags in treatment: 5055529 INFO @ Mon, 29 Jun 2020 23:30:51: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:30:51: #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 23:30:51: #1 tags after filtering in treatment: 5055529 INFO @ Mon, 29 Jun 2020 23:30:51: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:30:51: #1 finished! INFO @ Mon, 29 Jun 2020 23:30:51: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:30:51: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:30:52: #2 number of paired peaks: 65 WARNING @ Mon, 29 Jun 2020 23:30:52: Too few paired peaks (65) 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 23:30:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3511961/SRX3511961.05_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/SRX3511961/SRX3511961.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511961/SRX3511961.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511961/SRX3511961.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:30:53: 2000000 INFO @ Mon, 29 Jun 2020 23:31:01: 3000000 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 23:31:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX3511961/SRX3511961.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX3511961/SRX3511961.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX3511961/SRX3511961.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX3511961/SRX3511961.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 23:31:05: #1 read tag files... INFO @ Mon, 29 Jun 2020 23:31:05: #1 read treatment tags... INFO @ Mon, 29 Jun 2020 23:31:08: 4000000 INFO @ Mon, 29 Jun 2020 23:31:14: 1000000 INFO @ Mon, 29 Jun 2020 23:31:17: 5000000 INFO @ Mon, 29 Jun 2020 23:31:17: #1 tag size is determined as 96 bps INFO @ Mon, 29 Jun 2020 23:31:17: #1 tag size = 96 INFO @ Mon, 29 Jun 2020 23:31:17: #1 total tags in treatment: 5055529 INFO @ Mon, 29 Jun 2020 23:31:17: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:31:17: #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 23:31:17: #1 tags after filtering in treatment: 5055529 INFO @ Mon, 29 Jun 2020 23:31:17: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:31:17: #1 finished! INFO @ Mon, 29 Jun 2020 23:31:17: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:31:17: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:31:18: #2 number of paired peaks: 65 WARNING @ Mon, 29 Jun 2020 23:31:18: Too few paired peaks (65) 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 23:31:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3511961/SRX3511961.10_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/SRX3511961/SRX3511961.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511961/SRX3511961.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511961/SRX3511961.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Mon, 29 Jun 2020 23:31:22: 2000000 INFO @ Mon, 29 Jun 2020 23:31:30: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 29 Jun 2020 23:31:38: 4000000 INFO @ Mon, 29 Jun 2020 23:31:45: 5000000 INFO @ Mon, 29 Jun 2020 23:31:45: #1 tag size is determined as 96 bps INFO @ Mon, 29 Jun 2020 23:31:45: #1 tag size = 96 INFO @ Mon, 29 Jun 2020 23:31:45: #1 total tags in treatment: 5055529 INFO @ Mon, 29 Jun 2020 23:31:45: #1 user defined the maximum tags... INFO @ Mon, 29 Jun 2020 23:31:45: #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 23:31:45: #1 tags after filtering in treatment: 5055529 INFO @ Mon, 29 Jun 2020 23:31:45: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 29 Jun 2020 23:31:45: #1 finished! INFO @ Mon, 29 Jun 2020 23:31:45: #2 Build Peak Model... INFO @ Mon, 29 Jun 2020 23:31:45: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 29 Jun 2020 23:31:46: #2 number of paired peaks: 65 WARNING @ Mon, 29 Jun 2020 23:31:46: Too few paired peaks (65) 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 23:31:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX3511961/SRX3511961.20_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/SRX3511961/SRX3511961.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511961/SRX3511961.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX3511961/SRX3511961.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。