Job ID = 6528528 SRX = SRX994741 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-29T15:10:09 prefetch.2.10.7: 1) Downloading 'SRR1973459'... 2020-06-29T15:10:09 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:14:40 prefetch.2.10.7: HTTPS download failed 2020-06-29T15:14:40 prefetch.2.10.7: 1) failed to download SRR1973459 2020-06-29T15:14:53 prefetch.2.10.7: 1) Downloading 'SRR1973459'... 2020-06-29T15:14:53 prefetch.2.10.7: Downloading via HTTPS... 2020-06-29T15:14:53 prefetch.2.10.7: Continue download of 'SRR1973459' from 533690354 2020-06-29T15:15:02 prefetch.2.10.7: HTTPS download succeed 2020-06-29T15:15:03 prefetch.2.10.7: 'SRR1973459' is valid 2020-06-29T15:15:03 prefetch.2.10.7: 1) 'SRR1973459' was downloaded successfully Read 13530620 spots for SRR1973459/SRR1973459.sra Written 13530620 spots for SRR1973459/SRR1973459.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: 00:04:55 13530620 reads; of these: 13530620 (100.00%) were unpaired; of these: 1132442 (8.37%) aligned 0 times 9000402 (66.52%) aligned exactly 1 time 3397776 (25.11%) aligned >1 times 91.63% overall alignment rate Time searching: 00:04:55 Overall time: 00:04:55 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] 1421607 / 12398178 = 0.1147 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 @ Tue, 30 Jun 2020 00:29:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX994741/SRX994741.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX994741/SRX994741.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX994741/SRX994741.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX994741/SRX994741.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 @ Tue, 30 Jun 2020 00:29:08: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:29:08: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:29:15: 1000000 INFO @ Tue, 30 Jun 2020 00:29:21: 2000000 INFO @ Tue, 30 Jun 2020 00:29:27: 3000000 INFO @ Tue, 30 Jun 2020 00:29:33: 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 @ Tue, 30 Jun 2020 00:29:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX994741/SRX994741.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX994741/SRX994741.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX994741/SRX994741.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX994741/SRX994741.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 @ Tue, 30 Jun 2020 00:29:38: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:29:38: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:29:39: 5000000 INFO @ Tue, 30 Jun 2020 00:29:45: 6000000 INFO @ Tue, 30 Jun 2020 00:29:45: 1000000 INFO @ Tue, 30 Jun 2020 00:29:51: 7000000 INFO @ Tue, 30 Jun 2020 00:29:52: 2000000 INFO @ Tue, 30 Jun 2020 00:29:57: 8000000 INFO @ Tue, 30 Jun 2020 00:29:58: 3000000 INFO @ Tue, 30 Jun 2020 00:30:03: 9000000 INFO @ Tue, 30 Jun 2020 00:30:05: 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 @ Tue, 30 Jun 2020 00:30:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX994741/SRX994741.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX994741/SRX994741.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX994741/SRX994741.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX994741/SRX994741.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 @ Tue, 30 Jun 2020 00:30:08: #1 read tag files... INFO @ Tue, 30 Jun 2020 00:30:08: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 00:30:10: 10000000 INFO @ Tue, 30 Jun 2020 00:30:11: 5000000 INFO @ Tue, 30 Jun 2020 00:30:15: 1000000 INFO @ Tue, 30 Jun 2020 00:30:17: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 00:30:17: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 00:30:17: #1 total tags in treatment: 10976571 INFO @ Tue, 30 Jun 2020 00:30:17: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:30:17: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:30:17: #1 tags after filtering in treatment: 10976571 INFO @ Tue, 30 Jun 2020 00:30:17: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:30:17: #1 finished! INFO @ Tue, 30 Jun 2020 00:30:17: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:30:17: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:30:17: 6000000 INFO @ Tue, 30 Jun 2020 00:30:18: #2 number of paired peaks: 57 WARNING @ Tue, 30 Jun 2020 00:30:18: 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 @ Tue, 30 Jun 2020 00:30:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX994741/SRX994741.05_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/SRX994741/SRX994741.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX994741/SRX994741.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX994741/SRX994741.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:30:21: 2000000 INFO @ Tue, 30 Jun 2020 00:30:24: 7000000 INFO @ Tue, 30 Jun 2020 00:30:27: 3000000 INFO @ Tue, 30 Jun 2020 00:30:30: 8000000 INFO @ Tue, 30 Jun 2020 00:30:33: 4000000 INFO @ Tue, 30 Jun 2020 00:30:36: 9000000 INFO @ Tue, 30 Jun 2020 00:30:39: 5000000 INFO @ Tue, 30 Jun 2020 00:30:43: 10000000 INFO @ Tue, 30 Jun 2020 00:30:45: 6000000 INFO @ Tue, 30 Jun 2020 00:30:49: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 00:30:49: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 00:30:49: #1 total tags in treatment: 10976571 INFO @ Tue, 30 Jun 2020 00:30:49: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:30:49: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:30:49: #1 tags after filtering in treatment: 10976571 INFO @ Tue, 30 Jun 2020 00:30:49: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:30:49: #1 finished! INFO @ Tue, 30 Jun 2020 00:30:49: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:30:49: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:30:50: #2 number of paired peaks: 57 WARNING @ Tue, 30 Jun 2020 00:30:50: 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 @ Tue, 30 Jun 2020 00:30:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX994741/SRX994741.10_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/SRX994741/SRX994741.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX994741/SRX994741.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX994741/SRX994741.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 00:30:51: 7000000 INFO @ Tue, 30 Jun 2020 00:30:57: 8000000 INFO @ Tue, 30 Jun 2020 00:31:03: 9000000 INFO @ Tue, 30 Jun 2020 00:31:08: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 00:31:14: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 00:31:14: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 00:31:14: #1 total tags in treatment: 10976571 INFO @ Tue, 30 Jun 2020 00:31:14: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 00:31:14: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 00:31:14: #1 tags after filtering in treatment: 10976571 INFO @ Tue, 30 Jun 2020 00:31:14: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 00:31:14: #1 finished! INFO @ Tue, 30 Jun 2020 00:31:14: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 00:31:14: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 00:31:15: #2 number of paired peaks: 57 WARNING @ Tue, 30 Jun 2020 00:31:15: 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 @ Tue, 30 Jun 2020 00:31:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX994741/SRX994741.20_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/SRX994741/SRX994741.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX994741/SRX994741.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX994741/SRX994741.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。